Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 84 of 438
Found at i:22952068 original size:32 final size:34
Alignment explanation
Indices: 22952032--22952096 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
22952022 TAACAGTGGT
*
22952032 ACTGGGCCAGAGCC-CTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCTCTTATTCAGATAACAATAA
**
22952064 ACTGGGCCTTAGCCTCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCTCTTATTCAGATAACAATA
22952097 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 12 0.43
33 3 0.11
34 13 0.46
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (34 bp):
ACTGGGCCAGAGCCTCTTATTCAGATAACAATAA
Found at i:22953977 original size:26 final size:26
Alignment explanation
Indices: 22953941--22954048 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
22953931 TGAAATTCCC
*
22953941 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22953967 ATCATGGAACATTTACCTAGCCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
22953993 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22954019 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22954045 ATCA
1 ATCA
22954049 ATTTGTATCA
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:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22966812 original size:46 final size:46
Alignment explanation
Indices: 22966762--22966937 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
22966752 TGGTTGAGCA
22966762 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22966808 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
22966853 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22966901 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22966938 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22966918 original size:93 final size:93
Alignment explanation
Indices: 22966759--22966930 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
22966749 GGATGGTTGA
* *
22966759 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22966824 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
22966852 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22966917 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
22966931 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22974393 original size:46 final size:46
Alignment explanation
Indices: 22974343--22974518 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
22974333 TGGTTGAGCA
22974343 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22974389 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
22974434 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22974482 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22974519 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22974499 original size:93 final size:93
Alignment explanation
Indices: 22974340--22974511 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
22974330 GGATGGTTGA
* *
22974340 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22974405 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
22974433 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22974498 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
22974512 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22981047 original size:12 final size:13
Alignment explanation
Indices: 22981030--22981059 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
22981020 GGTTCCAAAA
22981030 TTTCATTTTTTT-
1 TTTCATTTTTTTC
22981042 TTTCATTTTTTTC
1 TTTCATTTTTTTC
22981055 TTTCA
1 TTTCA
22981060 AATTTTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCATTTTTTTC
Found at i:22982079 original size:39 final size:40
Alignment explanation
Indices: 22981991--22982119 Score: 251
Period size: 40 Copynumber: 3.2 Consensus size: 40
22981981 TATGTGCATA
22981991 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
22982031 GCATTCGTGCGGGTTATTATAACCGGGTTAAGT-CCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
22982070 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
22982110 GCATTCGTGC
1 GCATTCGTGC
22982120 TGTTGTTACA
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
39 39 0.44
40 49 0.56
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:22982146 original size:79 final size:79
Alignment explanation
Indices: 22981991--22982147 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 79
22981981 TATGTGCATA
*
22981991 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
***
22982056 GGTTAAGTCCGAAG
66 GCCAAAGTCCGAAG
* * *
22982070 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGC-TGTTGTTACATCCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
*
22982134 AGCCAAATTCCGAA
66 -GCCAAAGTCCGAA
22982148 AGTATTTATG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 10 0.14
79 59 0.86
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (79 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCG
GCCAAAGTCCGAAG
Found at i:22990075 original size:40 final size:40
Alignment explanation
Indices: 22990020--22990114 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
22990010 TATGTGCATA
22990020 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
22990060 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
22990100 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
22990115 GTTACATCCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:22994587 original size:18 final size:18
Alignment explanation
Indices: 22994561--22994595 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22994551 CTTCTATTTC
22994561 AAAAAAAAAAGAAAAAAG
1 AAAAAAAAAAGAAAAAAG
*
22994579 AAAATAAAAAGAAAAAA
1 AAAAAAAAAAGAAAAAA
22994596 ATAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAGAAAAAAG
Found at i:22995628 original size:44 final size:44
Alignment explanation
Indices: 22995487--22996693 Score: 627
Period size: 44 Copynumber: 27.1 Consensus size: 44
22995477 CAAAGAAACA
* *
22995487 AGATTTGGCATCCTTGCGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* * * * * **
22995531 AGATCTGACA-CTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
22995576 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
22995619 ATATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* * * * * * **
22995663 AGATCTGACA-CTCTTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* * *
22995708 AGCA--TGGCTTCCCTGTGTTTATTGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
22995751 AGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* * * * ** ***
22995795 AGATCTGACA-CTCCTGTGCTTACAGCAAAGC-AGATCGAAGATTTT
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* * *
22995840 AGCA--TGGCATCCCTGTGTTTATTGGAAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
22995883 AGATTTGGCATCCCTGTGTTTATAGGGAACAGGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * **
22995927 AGATCTGGCA-CTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
22995972 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
22996015 AGATTTGGCATCCCTGTGTTTATAAGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* ** * * * ** **
22996059 AGATCTAACA-CTCCTGTGCTTACAGCGAAGTAGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
*
22996104 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * ** **
22996147 TGATCTGACA-CTCATGTGCTTACA-ACAATGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA--CAAG-TCGAAGATAGC
* * *
22996192 AGCA--TGGCATCCCTATGGTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* ** * *
22996235 AGAATTGGCATCCCCATGCTTATAGGGAAC-AGATTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* * * * * * *** * *
22996279 AGATATGACA-CTCCTGCAGATCTACATTCCTGTGCTTATAG-CGAAGCAGATCGA
1 AGATTTGGCATC-CCTG-TG-T-T-TA-T--AGGGAACA-AGTCG-A--AGATAGC
* *
22996333 AGATTTCAGCATGGCATCCCTGTGTTTATAGGGAGCAAGTTGAAGATAGC
1 AGA-TT-----TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * *
22996383 AGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* ** * * * * **
22996427 AGATCTAACA-CACCTGTGATTACAGCGAAGC-AGATCAAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
** * *
22996472 A-ACATGGCATCCCTTTGTTTATAGGGAACAAGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
22996515 ATATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * * **
22996559 AGATCTGACATTCCTCTGATTACAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
22996604 AGCA--T-GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
22996646 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
22996690 AGAT
1 AGAT
22996694 GTGACAGCCC
Statistics
Matches: 875, Mismatches: 205, Indels: 166
0.70 0.16 0.13
Matches are distributed among these distances:
41 1 0.00
42 17 0.02
43 108 0.12
44 584 0.67
45 109 0.12
46 7 0.01
47 1 0.00
48 1 0.00
49 3 0.00
50 8 0.01
51 3 0.00
52 4 0.00
53 6 0.01
54 8 0.01
55 2 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 1 0.00
60 8 0.01
61 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:22995726 original size:132 final size:132
Alignment explanation
Indices: 22995487--22996146 Score: 1176
Period size: 132 Copynumber: 5.0 Consensus size: 132
22995477 CAAAGAAACA
* *
22995487 AGATTTGGCATCCTTGCGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
22995552 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
22995617 GC
131 GC
* *
22995619 ATATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
22995684 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCTTCCCTGTGTTTATTGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
22995749 GC
131 GC
22995751 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * * *
22995816 ACAGCAAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATTGGAAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
22995881 GC
131 GC
* * *
22995883 AGATTTGGCATCCCTGTGTTTATAGGGAACAGGTTGAAGATAGCAGATCTGGCACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
22995948 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
22996013 GC
131 GC
* *
22996015 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
22996080 ACAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
22996145 GC
131 GC
22996147 TGATCTGACA
Statistics
Matches: 503, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 503 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:22996244 original size:132 final size:131
Alignment explanation
Indices: 22996108--22996688 Score: 716
Period size: 132 Copynumber: 4.3 Consensus size: 131
22996098 GATTTCAGCA
* * * * *
22996108 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCTGATCTGACACTCATGTGCTTACAAC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCTGATCTGACACTCCTGTGATTACAGC
* *
22996173 AATGCAGATCGAAGATTTCAGCATGGCATCCCTATGGTTATAGGGAACAAGTTGAAGATAGCAGA
66 AA-GCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
*
22996238 AT
130 TT
** * * *
22996240 TGGCATCCCCATGCTTATAGGGAACAGATTGAAGATAGCAGATATGACACTCCTGCAGATCTACA
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC-----TG--A-T-CT---GA-C-AC-
* * *
22996305 TTCCTGTGCTTATAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAGCA
51 -TCCTGTGATTACAGC-AAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACA
22996370 AGTTGAAGATAGCAGATT
114 AGTTGAAGATAGCAGATT
* * *
22996388 TGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAG-TAGATCTAACACACCTGTGATTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCT-GATCTGACACTCCTGTGATTACAG
* * * *
22996452 CGAAGCAGATCAAAGATTTCAACATGGCATCCCTTTGTTTATAGGGAACAAGTTGAAGATAGCAT
65 C-AAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
22996517 ATT
129 ATT
* * *
22996520 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTCTGATTACAGT
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCTGATCTGACACTCCTGTGATTACAG-
*
22996585 GAAGCAGATCGAAGATTTCAGCAT-GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
65 CAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
22996649 TT
130 TT
22996651 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAG
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAG
22996689 TAGATGTGAC
Statistics
Matches: 391, Mismatches: 38, Indels: 41
0.83 0.08 0.09
Matches are distributed among these distances:
131 78 0.20
132 186 0.48
134 2 0.01
135 1 0.00
136 1 0.00
137 2 0.01
139 3 0.01
140 2 0.01
141 3 0.01
142 1 0.00
143 1 0.00
144 2 0.01
145 1 0.00
146 2 0.01
148 104 0.27
149 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (131 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCTGATCTGACACTCCTGTGATTACAGC
AAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
T
Found at i:22996246 original size:264 final size:261
Alignment explanation
Indices: 22995487--22996282 Score: 1012
Period size: 264 Copynumber: 3.0 Consensus size: 261
22995477 CAAAGAAACA
* * *
22995487 AGATTTGGCATCCTTGCGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
22995552 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* * * * * *
22995617 GCAT-ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCTTGTG
131 GC-TGATCTGACATCCCTGTGTTTACAGGCAACAGATCGAAGATAGCAGA-CTGGCACCCTTG-G
** * * *
22995681 CTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCTTCCCTGTGTTTATTGGGAACAAGTTGAAG
193 -TTACAGCGAAGCAGATCGAAGATAGCAGAATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG
22995746 ATAGC
257 ATAGC
*
22995751 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * * *
22995816 ACAGCAAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATTGGAAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* * * * * * * *
22995881 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGGTTGAAGATAGCAGATCTGGCACTCCTGTGC
131 GCTGATCTGACATCCCTGTGTTTACAGGCAACAGATCGAAGATAGCAGA-CTGGCAC-CCT-TGG
** *
22995946 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
193 TTACAGCGAAGCAGATCGAAGATAGCAGAATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
22996011 TAGC
258 TAGC
*
22996015 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
22996080 ACAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* * * **
22996145 GCTGATCTGACA-CTCATGTGCTTACA-ACAATGCAGATCGAAGATTTCAG-CATGGCATCCCTA
131 GCTGATCTGACATC-CCTGTGTTTACAGGCAA--CAGATCGAAGATAGCAGAC-TGGCA-CCCT-
* * * ** *
22996207 TGGTTATAGGGAA-CA-AGTTGAAGATAGCAGAATTGGCATCCCCATGCTTATAGGGAAC-AGAT
190 TGGTTACAGCGAAGCAGA-TCGAAGATAGCAGAA-TGGCATCCCTGTGTTTATAGGGAACAAG-T
22996269 TGAAGATAGC
252 TGAAGATAGC
22996279 AGAT
1 AGAT
22996283 ATGACACTCC
Statistics
Matches: 477, Mismatches: 44, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
262 1 0.00
263 19 0.04
264 439 0.92
265 16 0.03
266 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (261 bp):
AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GCTGATCTGACATCCCTGTGTTTACAGGCAACAGATCGAAGATAGCAGACTGGCACCCTTGGTTA
CAGCGAAGCAGATCGAAGATAGCAGAATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAG
C
Found at i:22998360 original size:29 final size:29
Alignment explanation
Indices: 22998325--22998398 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
22998315 GTTGTGAGAT
* *
22998325 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
22998354 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
22998383 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22998399 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:23005771 original size:2 final size:2
Alignment explanation
Indices: 23005764--23005803 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
23005754 AGTATAGTTG
*
23005764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23005804 TCGGCCATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23006478 original size:29 final size:29
Alignment explanation
Indices: 23006443--23006516 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
23006433 GTTGTGAGAT
* *
23006443 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
23006472 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
23006501 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23006517 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:23009267 original size:15 final size:15
Alignment explanation
Indices: 23009247--23009315 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
23009237 GTATCTTGGG
23009247 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
23009262 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
23009277 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
23009292 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
23009307 TTTCTTTAT
1 TTTCTTTAT
23009316 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:23009316 original size:30 final size:30
Alignment explanation
Indices: 23009238--23009325 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
23009228 CATAGTATCG
* * * *
23009238 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
23009268 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
23009298 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
23009326 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:23011744 original size:46 final size:46
Alignment explanation
Indices: 23011691--23011866 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
23011681 TATTTGGGCA
23011691 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
23011737 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
23011784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
23011830 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23011867 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:23011846 original size:93 final size:93
Alignment explanation
Indices: 23011687--23011858 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23011677 GGGATATTTG
* *
23011687 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
23011752 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
23011780 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
23011845 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
23011859 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:23018496 original size:40 final size:40
Alignment explanation
Indices: 23018438--23018605 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
23018428 CAATTGAATG
* *
23018438 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
23018479 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
23018518 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
23018558 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
23018598 ATATCCGG
1 ATATCCGG
23018606 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:23018576 original size:80 final size:79
Alignment explanation
Indices: 23018438--23018605 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
23018428 CAATTGAATG
* * *
23018438 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
23018503 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
23018518 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
23018582 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
23018598 ATATCCGG
1 ATATCCGG
23018606 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:23026496 original size:40 final size:40
Alignment explanation
Indices: 23026438--23026605 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
23026428 CAATTGAATG
* *
23026438 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
23026479 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
23026518 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
23026558 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
23026598 ATATCCGG
1 ATATCCGG
23026606 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:23026576 original size:80 final size:79
Alignment explanation
Indices: 23026438--23026605 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
23026428 CAATTGAATG
* * *
23026438 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
23026503 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
23026518 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
23026582 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
23026598 ATATCCGG
1 ATATCCGG
23026606 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:23028927 original size:16 final size:16
Alignment explanation
Indices: 23028906--23028936 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23028896 AACTTATGAT
23028906 ATATCAACAATAATTC
1 ATATCAACAATAATTC
23028922 ATATCAACAATAATT
1 ATATCAACAATAATT
23028937 ATAGATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATCAACAATAATTC
Found at i:23028966 original size:33 final size:32
Alignment explanation
Indices: 23028908--23028970 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 32
23028898 CTTATGATAT
23028908 ATCAACAATAATTCATATCAACAATAATTATAG
1 ATCAACAATAATTCATATCAACAAT-ATTATAG
*
23028941 ATCAATCAA-AATTCAT-TCGATCAATATTAT
1 ATCAA-CAATAATTCATATC-AACAATATTAT
23028971 GAGAAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 7 0.26
33 17 0.63
34 3 0.11
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (32 bp):
ATCAACAATAATTCATATCAACAATATTATAG
Found at i:23029462 original size:6 final size:6
Alignment explanation
Indices: 23029453--23029491 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
23029443 AATAAAATTG
*
23029453 AAATGA AAATAA AAATAA AAATAA AAATAAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AA
23029492 GGATAGGAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:23029474 original size:18 final size:19
Alignment explanation
Indices: 23029439--23029491 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
23029429 CTTTCAAAGA
** *
23029439 AAATAATAAAATTGAAATGA
1 AAATAA-AAAATAAAAATAA
23029459 AAAT-AAAAATAAAAATAA
1 AAATAAAAAATAAAAATAA
23029477 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
23029492 GGATAGGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 14 0.48
19 11 0.38
20 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (19 bp):
AAATAAAAAATAAAAATAA
Found at i:23034945 original size:13 final size:13
Alignment explanation
Indices: 23034927--23034955 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23034917 GGTTGTTTAT
23034927 TAAACTAATTAAC
1 TAAACTAATTAAC
23034940 TAAACTAATTAAC
1 TAAACTAATTAAC
23034953 TAA
1 TAA
23034956 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:23039764 original size:13 final size:13
Alignment explanation
Indices: 23039746--23039783 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
23039736 CATCAGAGGA
23039746 CTTTTAGGAAACC
1 CTTTTAGGAAACC
23039759 CTTTTAGGAAACC
1 CTTTTAGGAAACC
23039772 CTTTTAGGAAAC
1 CTTTTAGGAAAC
23039784 TTTATCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (13 bp):
CTTTTAGGAAACC
Found at i:23049462 original size:45 final size:45
Alignment explanation
Indices: 23049411--23049657 Score: 126
Period size: 47 Copynumber: 5.3 Consensus size: 45
23049401 CTCCCAAATA
* * *
23049411 GGTCTTACACTGACACATGTCAAACCGATGCCATGTCTCAGACAT
1 GGTCTTACACTGACACATCTCAAACCAATGCCATGTCCCAGACAT
* * **
23049456 GGTCTTACACTAGTTCACATCTTAAGTCAATGCCATGTCCCAGACAT
1 GGTCTTACACT-G-ACACATCTCAAACCAATGCCATGTCCCAGACAT
* ** * * *
23049503 GGTCTTACATTGACTATCATCATCGAGGCCGATG-CGTGTCCTAGACA-
1 GGTCTTACACTGAC-A-CATC-TC-AAACCAATGCCATGTCCCAGACAT
* * * **
23049550 CGTCTTACACT-AGCACTTGTCTCAATGCCAATGCCATGTATCAGACAT
1 GGTCTTACACTGA-CAC--ATCTCAA-ACCAATGCCATGTCCCAGACAT
** * *
23049598 GGTCTTACACTAGCACACATATCTCGAGGCCGATG-CATGTCCTAGACAT
1 GGTCTTACACT-G-ACAC--ATCTC-AAACCAATGCCATGTCCCAGACAT
23049647 -GTCTTACACTG
1 GGTCTTACACTG
23049658 GCTCTCGTCT
Statistics
Matches: 154, Mismatches: 32, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
45 14 0.09
46 13 0.08
47 62 0.40
48 32 0.21
49 17 0.11
50 14 0.09
51 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (45 bp):
GGTCTTACACTGACACATCTCAAACCAATGCCATGTCCCAGACAT
Found at i:23049584 original size:95 final size:96
Alignment explanation
Indices: 23049483--23049702 Score: 261
Period size: 96 Copynumber: 2.3 Consensus size: 96
23049473 CATCTTAAGT
* * *
23049483 CAATGCCATGTCCCAGACATGGTCTTACA-TTG-AC-TATCATCATCGAGGCCGATGCGTGTCCT
1 CAATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATC-TCGAGGCCGATGCATGTCCT
* **
23049545 AGACACGTCTTACACTAGCACTTGTCTCAATGC
64 AGACACGTCTTACACTAGCACTCGTCTCAAAAC
**
23049578 CAATGCCATGTATCAGACATGGTCTTACACTAGCACACATATCTCGAGGCCGATGCATGTCCTAG
1 CAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCTCGAGGCCGATGCATGTCCTAG
* * *
23049643 ACATGTCTTACACTGGCTCTCGTCTCAAAAC
66 ACACGTCTTACACTAGCACTCGTCTCAAAAC
** *
23049674 TGATG-CATGTCCCAGATAT-GTCTTACACT
1 CAATGCCATGTCCCAGACATGGTCTTACACT
23049703 GGTTTTCACT
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
94 10 0.09
95 38 0.36
96 51 0.48
97 5 0.05
98 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
CAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCTCGAGGCCGATGCATGTCCTAG
ACACGTCTTACACTAGCACTCGTCTCAAAAC
Found at i:23049651 original size:48 final size:46
Alignment explanation
Indices: 23049489--23049656 Score: 144
Period size: 48 Copynumber: 3.5 Consensus size: 46
23049479 AAGTCAATGC
* *
23049489 CATGTCCCAGACATGGTCTTACA-TTG-ACTATCATCATCGAGGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTAGCAC-AT-ATC-TCGAGGCCGATG
* * * * * * *
23049537 CGTGTCCTAGACACGTCTTACACTAGCACTTGTCTCAATGCCAATG
1 CATGTCCTAGACATGTCTTACACTAGCACATATCTCGAGGCCGATG
*
23049583 CCATGT-ATCAGACATGGTCTTACACTAGCACACATATCTCGAGGCCGATG
1 -CATGTCCT-AGACAT-GTCTTACACTAG--CACATATCTCGAGGCCGATG
23049633 CATGTCCTAGACATGTCTTACACT
1 CATGTCCTAGACATGTCTTACACT
23049657 GGCTCTCGTC
Statistics
Matches: 94, Mismatches: 18, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
46 10 0.11
47 19 0.20
48 36 0.38
49 13 0.14
50 16 0.17
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCACATATCTCGAGGCCGATG
Found at i:23062961 original size:27 final size:26
Alignment explanation
Indices: 23062898--23062968 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
23062888 AGCATAACTG
23062898 CCAGAAACAGTAAATGTGGCAGCCCA
1 CCAGAAACAGTAAATGTGGCAGCCCA
* * * *
23062924 CTAGTATCAGTAATTGTGGCATAG-CCA
1 CCAGAAACAGTAAATGTGGC--AGCCCA
23062951 CCAGAAACAGTAAATGTG
1 CCAGAAACAGTAAATGTG
23062969 ACAAAGTCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 16 0.46
27 17 0.49
28 2 0.06
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAAACAGTAAATGTGGCAGCCCA
Found at i:23063155 original size:27 final size:27
Alignment explanation
Indices: 23063124--23063376 Score: 330
Period size: 27 Copynumber: 9.4 Consensus size: 27
23063114 GGGCATAATC
**
23063124 GTCATTTTACCAAACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
23063151 GTCA-TTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
23063177 GTCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
*
23063204 GTCA-TTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
23063230 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
23063257 GTCATTTTACCCTACAAGGGTACTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
23063284 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
23063311 GTCATTTTGCCCTATAAGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
23063338 GTGATTTTACCCTACAGGGGTACTACA
1 GTCATTTTACCCTACAGGGGTATTACG
23063365 GTCATTTTACCC
1 GTCATTTTACCC
23063377 ACGCGACCCA
Statistics
Matches: 202, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
26 48 0.24
27 154 0.76
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:23066179 original size:40 final size:40
Alignment explanation
Indices: 23066094--23066244 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
23066084 AATTGAATGA
* * * *
23066094 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
23066134 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
23066175 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
23066214 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
23066245 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:23066258 original size:40 final size:40
Alignment explanation
Indices: 23066131--23066260 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
23066121 ATGCTGGAAA
* * *
23066131 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
23066171 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
23066211 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
23066251 TTATATCCGG
1 TTATATCCGG
23066261 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:23066259 original size:80 final size:80
Alignment explanation
Indices: 23066093--23066260 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
23066083 AAATTGAATG
* *
23066093 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
23066158 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
23066173 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
23066236 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
23066253 ATATCCGG
1 ATATCCGG
23066261 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:23074147 original size:40 final size:40
Alignment explanation
Indices: 23074081--23074231 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
23074071 AAATTGAATG
* *
23074081 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
23074120 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
23074160 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
23074200 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
23074232 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:23074245 original size:40 final size:40
Alignment explanation
Indices: 23074118--23074247 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
23074108 ATGCTGGAAA
* * *
23074118 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
23074158 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
23074198 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
23074238 TTATATCCGG
1 TTATATCCGG
23074248 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:23074246 original size:80 final size:79
Alignment explanation
Indices: 23074081--23074247 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
23074071 AAATTGAATG
*
23074081 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
23074146 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
23074160 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
23074223 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
23074240 ATATCCGG
1 ATATCCGG
23074248 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:23087452 original size:35 final size:35
Alignment explanation
Indices: 23087408--23087533 Score: 137
Period size: 35 Copynumber: 3.6 Consensus size: 35
23087398 ACTCTCTATT
* * *
23087408 TTGGAGTGTTTCGGTTGGATTAACTCTTATAAGCA
1 TTGGTGTGTTTCGGATGGATTAACTCTTATGAGCA
* *
23087443 TTGGTGTGTTTCAGATGGACTAGA-TCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTA-ACTCTTATGAGCA
* * *
23087478 TTAGTGTGTTTCGGATGGATTAGCTCTTATGAGTA
1 TTGGTGTGTTTCGGATGGATTAACTCTTATGAGCA
* *
23087513 TCTGGTGTTTTTCGGTTGGAT
1 T-TGGTGTGTTTCGGATGGAT
23087534 GATCAATGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
35 58 0.77
36 17 0.23
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAACTCTTATGAGCA
Found at i:23088359 original size:31 final size:31
Alignment explanation
Indices: 23088316--23088388 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
23088306 ATTTTAGGTC
*
23088316 CACAGGGCCTGAGACACGGGCATGTGACTCT
1 CACACGGCCTGAGACACGGGCATGTGACTCT
23088347 CACACGGCCTGAGACACGGGCATGTGACTCT
1 CACACGGCCTGAGACACGGGCATGTGACTCT
*
23088378 CACATGGCCTG
1 CACACGGCCTG
23088389 GCGACATGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.22, C:0.32, G:0.30, T:0.16
Consensus pattern (31 bp):
CACACGGCCTGAGACACGGGCATGTGACTCT
Found at i:23090779 original size:41 final size:41
Alignment explanation
Indices: 23090732--23090816 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
23090722 ATGAAGTAAA
23090732 CATAGTTGAGCTCATCATGCAATATTCTTTCAAGTAATTAT
1 CATAGTTGAGCTCATCATGCAATATTCTTTCAAGTAATTAT
*
23090773 CATAGTTGAGCTCATCATGCAATATTCTTTCAAGTCATTAT
1 CATAGTTGAGCTCATCATGCAATATTCTTTCAAGTAATTAT
23090814 CAT
1 CAT
23090817 TTCATCTCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (41 bp):
CATAGTTGAGCTCATCATGCAATATTCTTTCAAGTAATTAT
Found at i:23094574 original size:20 final size:20
Alignment explanation
Indices: 23094549--23094591 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
23094539 ATTTACCCAA
23094549 GAGTGATATGCTGGTATTTT
1 GAGTGATATGCTGGTATTTT
23094569 GAGTGATATGCTGGTATTTT
1 GAGTGATATGCTGGTATTTT
23094589 GAG
1 GAG
23094592 GTTTAATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.42
Consensus pattern (20 bp):
GAGTGATATGCTGGTATTTT
Found at i:23098890 original size:16 final size:16
Alignment explanation
Indices: 23098869--23098899 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23098859 CTATGCATGT
*
23098869 AAAATATAAAAGATAG
1 AAAATACAAAAGATAG
23098885 AAAATACAAAAGATA
1 AAAATACAAAAGATA
23098900 TAATAGTGAA
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:0.71, C:0.03, G:0.10, T:0.16
Consensus pattern (16 bp):
AAAATACAAAAGATAG
Found at i:23099705 original size:37 final size:42
Alignment explanation
Indices: 23099631--23099710 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
23099621 AGGGTAAATC
*
23099631 CAACAACCCAAGTTTATCTTCTCTTTTTTAAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCTTTTTTAAAATTCTTTTTT
23099673 CAACAACCCAAGATT-TC-T-TC-TTTTT-AAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCTTTTTTAAAATTCTTTTTT
23099710 C
1 C
23099711 TAGGATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
37 13 0.35
38 5 0.14
39 2 0.05
40 1 0.03
41 2 0.05
42 14 0.38
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (42 bp):
CAACAACCCAAGATTATCTTCTCTTTTTTAAAATTCTTTTTT
Found at i:23104540 original size:66 final size:66
Alignment explanation
Indices: 23104434--23104565 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
23104424 CGACATAATC
*
23104434 GGTAAAAATACCTAATGTTCATAAGTACATGTTAAAGTGAGAATTTGATGTTTTCATAGAAGGAA
1 GGTAAAAATACCTAATGTTCATAAGTACATGTTAAAGTGAGAATTTGACGTTTTCATAGAAGGAA
23104499 A
66 A
*
23104500 GGTAAAAATACCTAATGTTCATAAGTACATGTTAGAGTGAGAATTTGACGTTTTCATAGAAGGAA
1 GGTAAAAATACCTAATGTTCATAAGTACATGTTAAAGTGAGAATTTGACGTTTTCATAGAAGGAA
23104565 A
66 A
23104566 AAATGATCAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (66 bp):
GGTAAAAATACCTAATGTTCATAAGTACATGTTAAAGTGAGAATTTGACGTTTTCATAGAAGGAA
A
Found at i:23105128 original size:55 final size:53
Alignment explanation
Indices: 23105020--23105323 Score: 286
Period size: 49 Copynumber: 5.8 Consensus size: 53
23105010 ATTAGGGTTT
*
23105020 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCT-TAAGGC
* * * * *
23105075 AAGGAAATCATGTAAGACCATGTCAAGACATGTCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CT-TAAGGC
* * *
23105130 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCTTAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTTAAGGC
* * * *
23105183 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTTAAGGC
* * * * *
23105232 AAGGATACCACGTAAGACCATGGCAAGTCATGGCAATGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTTAAGGC
** * *
23105281 AAGGATACCATGTAAGACCATAACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
23105324 GTACCCGTGT
Statistics
Matches: 216, Mismatches: 29, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
49 85 0.39
52 7 0.03
53 43 0.20
54 9 0.04
55 68 0.31
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTTAAGGC
Found at i:23105285 original size:98 final size:100
Alignment explanation
Indices: 23105020--23105323 Score: 315
Period size: 108 Copynumber: 2.9 Consensus size: 100
23105010 ATTAGGGTTT
* *
23105020 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAA-TGGTAA-GTTTC-AA-G-AAGGATACCA
* * * *
23105085 TGTAAGACCATGTCAAGACATGTCATTGATAAGTTACTAT
61 TGTAAGACCATGTCAAGACATGGCAATGGTAAGTTACTAA
* * * *
23105125 AAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCTTAAGGCAAGGATA
1 AAGG---A--TACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTT-TCAA-G-AAGGATA
* *
23105190 CCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC-AA
58 CCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTACTAA
* * *
23105232 AAGGATACCACGTAAGACCATGGCAAGTCATGGCAATGGTAAGTTTCAA-AAGGATACCATGTAA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCAAGAAGGATACCATGTAA
** *
23105296 GACCATAACAAGTCATGGCAATGGTAAG
66 GACCATGTCAAGACATGGCAATGGTAAG
23105324 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
98 39 0.23
101 3 0.02
102 34 0.20
104 1 0.01
105 4 0.02
107 5 0.03
108 49 0.29
109 6 0.04
110 29 0.17
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (100 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCAAGAAGGATACCATGTAA
GACCATGTCAAGACATGGCAATGGTAAGTTACTAA
Found at i:23105536 original size:16 final size:16
Alignment explanation
Indices: 23105515--23105545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23105505 ATAAATTTGA
23105515 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
23105531 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
23105546 AGTGAAGAAG
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:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:23117547 original size:20 final size:20
Alignment explanation
Indices: 23117489--23117554 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
23117479 ATAATTTTAT
* * *
23117489 TTTAGGGTTTAGGTTTTAAGA
1 TTTATGGTTAAGG-TTTAAGG
*
23117510 TTTAATGTTTAAGGTTTAAGG
1 TTT-ATGGTTAAGGTTTAAGG
* *
23117531 TTTATGGTTATGGTTTAATG
1 TTTATGGTTAAGGTTTAAGG
23117551 TTTA
1 TTTA
23117555 GTATTTTGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 18 0.49
21 12 0.32
22 7 0.19
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (20 bp):
TTTATGGTTAAGGTTTAAGG
Found at i:23117568 original size:21 final size:21
Alignment explanation
Indices: 23117542--23117582 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23117532 TTATGGTTAT
*
23117542 GGTTTAATGTTTAGTATTTTG
1 GGTTTAAGGTTTAGTATTTTG
* *
23117563 GGTTTAGGGTTTAGTGTTTT
1 GGTTTAAGGTTTAGTATTTT
23117583 AAAGCTTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (21 bp):
GGTTTAAGGTTTAGTATTTTG
Found at i:23117673 original size:22 final size:23
Alignment explanation
Indices: 23117638--23117680 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
23117628 GTCTTAGTGT
23117638 TTAGGGTTTTAAGGGTCAGGGTA
1 TTAGGGTTTTAAGGGTCAGGGTA
*
23117661 TTAGGG-TTTAAGGGTTAGGG
1 TTAGGGTTTTAAGGGTCAGGG
23117681 ATTTTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.21, C:0.02, G:0.42, T:0.35
Consensus pattern (23 bp):
TTAGGGTTTTAAGGGTCAGGGTA
Found at i:23117805 original size:7 final size:7
Alignment explanation
Indices: 23117775--23117856 Score: 74
Period size: 7 Copynumber: 11.7 Consensus size: 7
23117765 GTAACATATA
*
23117775 TAGGGCT
1 TAGGGTT
23117782 TAGGGTT
1 TAGGGTT
** *
23117789 TATAGCT
1 TAGGGTT
23117796 TAGGGTT
1 TAGGGTT
23117803 TAGGGTT
1 TAGGGTT
* *
23117810 TAAGGTA
1 TAGGGTT
*
23117817 TATGGTT
1 TAGGGTT
*
23117824 TAGGGTC
1 TAGGGTT
* *
23117831 TAAGGTC
1 TAGGGTT
23117838 TAGGGTT
1 TAGGGTT
23117845 TAGGGTT
1 TAGGGTT
23117852 TAGGG
1 TAGGG
23117857 ATAAAATTTG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 59 1.00
ACGTcount: A:0.20, C:0.05, G:0.38, T:0.38
Consensus pattern (7 bp):
TAGGGTT
Found at i:23117823 original size:21 final size:20
Alignment explanation
Indices: 23117775--23117853 Score: 95
Period size: 21 Copynumber: 3.8 Consensus size: 20
23117765 GTAACATATA
* *
23117775 TAGGGCTTAGGGTTTATAGCT
1 TAGGGTTTAGGGTTTA-AGGT
23117796 TAGGGTTTAGGGTTTAAGGT
1 TAGGGTTTAGGGTTTAAGGT
* *
23117816 ATATGGTTTAGGGTCTAAGGT
1 -TAGGGTTTAGGGTTTAAGGT
23117837 CTAGGGTTTAGGGTTTA
1 -TAGGGTTTAGGGTTTA
23117854 GGGATAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.20, C:0.05, G:0.35, T:0.39
Consensus pattern (20 bp):
TAGGGTTTAGGGTTTAAGGT
Found at i:23120928 original size:43 final size:43
Alignment explanation
Indices: 23120881--23120972 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
23120871 ACATTTAACG
*
23120881 GCGTTTTCAGCAAAAGCGCCACTAAAGCTCACGTTCTATAGCA
1 GCGTTTTCAGCAAAAGCACCACTAAAGCTCACGTTCTATAGCA
* * * * * *
23120924 GCGTTTTTAGTAAAAGCATCGCTAAAGGTCATGTTCTATAGCA
1 GCGTTTTCAGCAAAAGCACCACTAAAGCTCACGTTCTATAGCA
*
23120967 ACGTTT
1 GCGTTT
23120973 GTAGGGAAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
GCGTTTTCAGCAAAAGCACCACTAAAGCTCACGTTCTATAGCA
Found at i:23121016 original size:42 final size:42
Alignment explanation
Indices: 23120937--23121016 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
23120927 TTTTTAGTAA
* * * *
23120937 AAGCATCGCTAAAGGTCATGTTCTATAGCAACGTTTGTAGGG
1 AAGCACCGCTAAAGGTCACGCTCTATAGCAACATTTGTAGGG
* **
23120979 AAGCACCGCTAAAGGTTACGCTCTATAGCGGCATTTGT
1 AAGCACCGCTAAAGGTCACGCTCTATAGCAACATTTGT
23121017 GTGAAAAGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
AAGCACCGCTAAAGGTCACGCTCTATAGCAACATTTGTAGGG
Found at i:23121108 original size:43 final size:43
Alignment explanation
Indices: 23120892--23121178 Score: 197
Period size: 43 Copynumber: 6.7 Consensus size: 43
23120882 CGTTTTCAGC
* * * * * *
23120892 AAAAGCGCCACTAAAGCTCACGTTCTATAGCAGCGTTTTTAGT
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGT
** **
23120935 AAAAGCATCGCTAAAGGTCATGTTCTATAGCAACGTTTGTAGG-
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGT-GGT
* * * * * *
23120978 -GAAGCACCGCTAAAGGTTACGCTCTATAGCGGCATTTGT-GT
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGT
* * * * * * * *
23121019 GAAAAGTGTCGCTAAAGGTCATGTTCCACAACGGTGCTTGTAGT
1 -AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGT
23121063 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGT
** * * * * * *
23121106 AAAAATGCCACTAAAAGTCATGTTCTATTGTGACACTTT-TGGGT
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGC-GTTTGT-GGT
**
23121150 -AAAGCGCCGCTAAATATCATGTTCTATAG
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAG
23121179 TGGCATTGCA
Statistics
Matches: 186, Mismatches: 51, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
40 1 0.01
42 31 0.17
43 145 0.78
44 9 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGT
Found at i:23123450 original size:42 final size:45
Alignment explanation
Indices: 23123339--23123457 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 45
23123329 ATGTGTTTTT
*
23123339 TGTAAGACCACGTCTGGGACATTGGCATCG-A-CTTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATCTTA-GATTTACA
* *
23123383 TGTAAGACCACGTTTGGGACGTTGGCATCGTATC-TA-ATTT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATCTTAGATTTACA
* *
23123425 TGTAAGACCACGTCTAGGACATTGGCATTGTAT
1 TGTAAGACCACGTCTGGGACATTGGCATCGTAT
23123458 GAGTTTTTCG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
42 30 0.45
43 4 0.06
44 28 0.42
45 3 0.05
46 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATCTTAGATTTACA
Found at i:23127313 original size:28 final size:28
Alignment explanation
Indices: 23127267--23127335 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
23127257 TTTAAAACCC
*
23127267 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23127294 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23127322 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
23127336 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:23131083 original size:28 final size:28
Alignment explanation
Indices: 23131037--23131105 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
23131027 TTTAAAACCC
*
23131037 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23131064 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23131092 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
23131106 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:23137031 original size:20 final size:20
Alignment explanation
Indices: 23136998--23137035 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23136988 ACTAATTGTG
*
23136998 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
23137018 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
23137036 GGTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:23142151 original size:57 final size:58
Alignment explanation
Indices: 23142081--23142191 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
23142071 AAATTTACAT
* * *
23142081 ACCTGTATTTGGCCCATTAAGGCC-AATCATATTTATATAGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGGCCAAATCACATTTATATAGCCCATTAGGCCCAAATC
* * *
23142138 ACCTATATATGGCCCATTAGGGCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGGCCAAATCACATTTATATAGCCCATTAGGCCCA
23142192 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAGGCCAAATCACATTTATATAGCCCATTAGGCCCAAATC
Found at i:23142198 original size:28 final size:28
Alignment explanation
Indices: 23142090--23142204 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
23142080 TACCTGTATT
*
23142090 TGGCCCATTAAGG-CCAATCATATTTATA
1 TGGCCCATT-AGGCCCAATCACATTTATA
* * *
23142118 TAGCCCATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
*
23142147 TGGCCCATTAGGGCCAAATCACATTTATA
1 TGGCCCATTA-GGCCCAATCACATTTATA
* * *
23142176 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
23142204 T
1 T
23142205 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 3 0.04
28 26 0.36
29 39 0.54
30 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:23144976 original size:28 final size:29
Alignment explanation
Indices: 23144900--23145000 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
23144890 TGACGAGATC
23144900 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
23144929 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
23144958 GG-ACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
23144986 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
23145001 AGCTCGGAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
28 24 0.38
29 40 0.62
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:23152953 original size:29 final size:29
Alignment explanation
Indices: 23152920--23153021 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
23152910 TGACGAGATC
23152920 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
23152949 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
23152978 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
23153007 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
23153022 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:23157149 original size:39 final size:39
Alignment explanation
Indices: 23157068--23157230 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
23157058 TATGGTAACC
* *
23157068 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
23157108 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
23157147 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
23157186 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
23157225 CGCACA
1 CGCACA
23157231 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:23163250 original size:20 final size:20
Alignment explanation
Indices: 23163203--23163252 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
23163193 CGGGTAAGGG
*
23163203 ACACGGGAGTGTCCCAATAC
1 ACACGGGCGTGTCCCAATAC
*
23163223 ACACGGGCGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATAC
23163243 ACACGGGCGT
1 ACACGGGCGT
23163253 ATGCATTGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.32, G:0.30, T:0.14
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAATAC
Found at i:23166056 original size:93 final size:91
Alignment explanation
Indices: 23165892--23166150 Score: 235
Period size: 93 Copynumber: 2.8 Consensus size: 91
23165882 TCTTTTGTAT
* * *
23165892 GCTAGGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAACCATGTTTG
1 GCTAGGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAACCATGTCTA
23165957 GGACATGGCATCGGCATTGAGGCGAGA
66 GGACAT-GCATCGGCATTGAGGCGAGA
* * * * *
23165984 GCTAGTGTAAGACATGTCTTGGACATGCATCTGCCTCGTGATGTA-AGCTAGTGTAAGA-CATGT
1 GCTAG-GTAAGACATGTCTGGGACATGCATCGGCCACATGATG-AGAGCCAGTGTAA-ACCATGT
* * *
23166047 CTAGGACATGCATCGGC--T-ACGAGATGT
63 CTAGGACATGCATCGGCATTGAGGCGA-GA
* *
23166074 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGAT-ATGGAGAGCAAGTGTAAGACC
1 GCTAG-GTAAGA-CATGTCTGGGACAT-GCATCGGCCAC--ATGAT-GAGAGCCAGTGTAA-ACC
*
23166137 ATGTCTGGGACATG
59 ATGTCTAGGACATG
23166151 GCGTCGGCCT
Statistics
Matches: 138, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
89 4 0.03
90 13 0.09
91 15 0.11
92 22 0.16
93 68 0.49
94 16 0.12
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (91 bp):
GCTAGGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAACCATGTCTA
GGACATGCATCGGCATTGAGGCGAGA
Found at i:23166130 original size:139 final size:138
Alignment explanation
Indices: 23165887--23166150 Score: 329
Period size: 139 Copynumber: 1.9 Consensus size: 138
23165877 TTGGGTCTTT
* * *
23165887 TGTATGCTAGGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAACCAT
1 TGTAAGCTAGGTAAGACATGTCTAGGACATGCATCGGCCACATGAT-AGAGCCAGTGTAAACCAT
* ** * *
23165952 GTTTGGGACATGGCATCGGCATTGAGGCGAGAGCTAGTGTAAGA-CATGTCTTGGACATGCATCT
65 GTCTGGGACATGGCATCGGCACGGAGGCGAGAGCAAGTGTAAGACCATGTCTGGGACATGCATCT
23166016 GCCTCGTGA
130 GCCTCGTGA
* * **
23166025 TGTAAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GAT-GTGTTAGTGTAAGACC
1 TGTAAGCTAG-GTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATAGAGCCAGTGTAA-ACC
*
23166088 ATGTCTGGGACATGGCATCGGCACGGATATG-GAGAGCAAGTGTAAGACCATGTCTGGGACATG
63 ATGTCTGGGACATGGCATCGGCACGG--AGGCGAGAGCAAGTGTAAGACCATGTCTGGGACATG
23166151 GCGTCGGCCT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
137 9 0.08
138 35 0.33
139 46 0.43
140 17 0.16
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (138 bp):
TGTAAGCTAGGTAAGACATGTCTAGGACATGCATCGGCCACATGATAGAGCCAGTGTAAACCATG
TCTGGGACATGGCATCGGCACGGAGGCGAGAGCAAGTGTAAGACCATGTCTGGGACATGCATCTG
CCTCGTGA
Found at i:23166138 original size:49 final size:48
Alignment explanation
Indices: 23165892--23166255 Score: 239
Period size: 46 Copynumber: 7.8 Consensus size: 48
23165882 TCTTTTGTAT
23165892 GCTAG-GTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTAT-GAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGA-TATGGAGA
* * * *
23165937 GCCAGTGTAA-ACCATGTTTGGGACATGGCATCGGCA--TTGAGGCGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATG-GAGA
* * * *
23165984 GCTAGTGTAAGA-CATGTCTTGGACAT-GCATCTGCCTCG-TGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGAT-ATGGAGA
* * *
23166030 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGAT---GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGGAGA
*
23166074 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGGAGA
* * * * * * *
23166123 GCAAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGGAGA
** * * *
23166172 G-TCAGTGTAAGACCATGTCTAAGACATGGCATC-G-AC-TTGATGAACAA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGGA-GA
* *
23166219 GCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
23166256 TTATACCTTA
Statistics
Matches: 251, Mismatches: 42, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
44 12 0.05
45 24 0.10
46 74 0.29
47 64 0.25
48 7 0.03
49 68 0.27
50 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGGAGA
Found at i:23170061 original size:28 final size:28
Alignment explanation
Indices: 23170018--23170087 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
23170008 ATGAAAATTT
* * * *
23170018 CACTAAGCGTGCGAGTTTGGTTAACGAG
1 CACTAAGTGTGTGAGTTTGATTAACGAC
*
23170046 CACTAAGTGTGTGAGTTTGATTATCGAC
1 CACTAAGTGTGTGAGTTTGATTAACGAC
*
23170074 CACTAAGTATGTGA
1 CACTAAGTGTGTGA
23170088 AGGAAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGTGAGTTTGATTAACGAC
Found at i:23171006 original size:2 final size:2
Alignment explanation
Indices: 23170999--23171028 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23170989 TGCATAATTG
23170999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23171029 TAATTATCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23177190 original size:40 final size:40
Alignment explanation
Indices: 23177116--23177257 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
23177106 CCGCACCAAG
* * * * * *
23177116 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
23177156 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
23177196 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
23177236 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
23177258 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:23185286 original size:39 final size:39
Alignment explanation
Indices: 23185236--23185346 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
23185226 ATATCACGAT
*
23185236 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTA-AAAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGAAAC
* **
23185275 TTGCACGAATGCCTTCGGGTCTTGGCCCGGATATAGCTAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGAAAC
* *
23185315 TAGCACAATTGCCTTCGGGTCTTAACCCGGAT
1 TTGCACAA-TGCCTTCGGGTCTTAGCCCGGAT
23185347 GTAATTTTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 34 0.55
40 28 0.45
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (39 bp):
TTGCACAATGCCTTCGGGTCTTAGCCCGGATATAGAAAC
Found at i:23185840 original size:30 final size:30
Alignment explanation
Indices: 23185806--23185872 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
23185796 TTTTATACTA
23185806 CATCAAGCAATTCAATACAATTTATTTGAG
1 CATCAAGCAATTCAATACAATTTATTTGAG
23185836 CATCAAGCAATTCAATACAATTTATTTGAG
1 CATCAAGCAATTCAATACAATTTATTTGAG
23185866 CATCAAG
1 CATCAAG
23185873 GAAATCTAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (30 bp):
CATCAAGCAATTCAATACAATTTATTTGAG
Found at i:23186758 original size:93 final size:93
Alignment explanation
Indices: 23186646--23186816 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23186636 CGCCATAAGT
* *
23186646 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23186711 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
23186739 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23186804 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23186817 TCAAATATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23186832 original size:46 final size:46
Alignment explanation
Indices: 23186638--23186818 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
23186628 ATGTAACCCG
* * *
23186638 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
23186684 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
23186734 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
23186777 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
23186819 AAATATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:23189222 original size:30 final size:30
Alignment explanation
Indices: 23189178--23189266 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
23189168 CAAAGATAAC
23189178 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
23189207 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
23189237 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
23189267 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:23189226 original size:15 final size:15
Alignment explanation
Indices: 23189178--23189257 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
23189168 CAAAGATAAC
*
23189178 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
23189192 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
23189207 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
23189222 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
23189237 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
23189252 AAGAAA
1 AAGAAA
23189258 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:23189266 original size:15 final size:15
Alignment explanation
Indices: 23189189--23189266 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
23189179 AGAAAACCGA
23189189 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
23189204 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
23189218 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
23189233 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
23189249 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
23189264 ATA
1 ATA
23189267 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:23192295 original size:93 final size:93
Alignment explanation
Indices: 23192183--23192354 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23192173 GCCCATAAGT
* *
23192183 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23192248 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
23192276 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23192341 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
23192355 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23192350 original size:46 final size:46
Alignment explanation
Indices: 23192175--23192350 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
23192165 TGTAACCCGC
* * *
23192175 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
23192221 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
23192271 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
23192314 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23192351 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:23196207 original size:20 final size:20
Alignment explanation
Indices: 23196169--23196207 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23196159 CCTTAGATGA
** *
23196169 TGAAAATCCAAGCGTTTGAT
1 TGAAAATCCAAAAGCTTGAT
23196189 TGAAAATCCAAAAGCTTGA
1 TGAAAATCCAAAAGCTTGA
23196208 CAATGGACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (20 bp):
TGAAAATCCAAAAGCTTGAT
Found at i:23198813 original size:40 final size:40
Alignment explanation
Indices: 23198679--23198901 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
23198669 TATTCGAATG
* * *
23198679 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACT
* * * * * **
23198720 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAG-TTCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
23198759 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
23198798 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
23198838 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
23198878 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
23198902 CTTGTGCAAG
Statistics
Matches: 157, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
38 26 0.17
39 10 0.06
40 94 0.60
41 27 0.17
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:23198860 original size:80 final size:79
Alignment explanation
Indices: 23198679--23198937 Score: 308
Period size: 80 Copynumber: 3.3 Consensus size: 79
23198669 TATTCGAATG
* * * *
23198679 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
**
23198744 ATTCGTGCGAGTTCT
65 ATTCGTGCGAGGACT
* * *
23198759 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
23198823 TTTGTGCTAGCGACT
66 TTCGTGCGAG-GACT
* * *
23198838 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
23198903 TT-GTGCAAGTAGTT
66 TTCGTGCGAGGA-CT
*
23198917 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
23198938 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
78 49 0.32
79 46 0.30
80 60 0.39
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGGACT
Found at i:23198907 original size:119 final size:119
Alignment explanation
Indices: 23198679--23198937 Score: 316
Period size: 119 Copynumber: 2.2 Consensus size: 119
23198669 TATTCGAATG
* * *
23198679 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
23198744 ATTCGTGCGAGTTCTATATCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCGTGCGAGTACCATATCGGGCTAAGACCCGAAGGCACTTGTGCAAG-GAGTT
* *
23198798 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
23198861 CA-TCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGTAGTT
65 CATTC-GTGCGAGT-ACCATAT-CGGGCTAAGACCCGAAGGCACTTGTGCAAGGAGTT
23198917 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
23198938 ATTACTTGAG
Statistics
Matches: 123, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
117 4 0.03
118 47 0.38
119 53 0.43
120 19 0.15
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGCGAGTACCATATCGGGCTAAGACCCGAAGGCACTTGTGCAAGGAGTT
Found at i:23203768 original size:80 final size:80
Alignment explanation
Indices: 23203636--23203818 Score: 246
Period size: 80 Copynumber: 2.3 Consensus size: 80
23203626 CGAATGATGT
* ** *
23203636 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 CCGGACTAAGTCCCGAAGGCATTCATGC-AAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
23203700 GTGCGAGTTACTA-AA
65 GTGCGAGTTACTATAA
*
23203715 TCCGGACTAAGAT-CCGAAGGCATTCATGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 -CCGGACTAAG-TCCCGAAGGCATTCATGCAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
23203779 TGTGCGAGTTACTATAA
64 CGTGCGAGTTACTATAA
* *
23203796 CCGGGCTATGTCCCGAAGGCATT
1 CCGGACTAAGTCCCGAAGGCATT
23203819 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
79 1 0.01
80 82 0.90
81 8 0.09
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (80 bp):
CCGGACTAAGTCCCGAAGGCATTCATGCAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTTACTATAA
Found at i:23203819 original size:40 final size:40
Alignment explanation
Indices: 23203635--23203820 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
23203625 TCGAATGATG
* * *
23203635 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTTACTAAA
* *
23203675 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
**
23203715 TCCGGACTAAGATCCGAAGGCATTCATGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
*
23203755 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTA-AA
* *
23203796 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
23203821 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:23209395 original size:39 final size:40
Alignment explanation
Indices: 23209213--23209471 Score: 280
Period size: 40 Copynumber: 6.5 Consensus size: 40
23209203 TATTCGAATG
*
23209213 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
23209254 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAG-TGACT
* * *
23209294 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
23209334 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
23209374 ATATCC-GGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
23209413 ATATCCGGGCTAAG-ACCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CT
*
23209451 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
23209472 ATTACTTGAG
Statistics
Matches: 186, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
37 7 0.04
38 20 0.11
39 44 0.24
40 85 0.46
41 29 0.16
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:23209417 original size:79 final size:78
Alignment explanation
Indices: 23209213--23209471 Score: 292
Period size: 79 Copynumber: 3.3 Consensus size: 78
23209203 TATTCGAATG
* * *
23209213 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGA-CCGAAGGC
* *
23209278 ATTCGTGCGAGTTG-CT
64 ATTTGTGCAAG--GACT
* * *
23209294 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGA-CCGAAGGCA
*
23209359 TTTGTGCTAGCGACT
65 TTTGTGCAAG-GACT
* * *
23209374 ATATCC-GGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCGAAGGC-C
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCGAAGGCAT
* *
23209437 TTGTGCAAGTAGTT
66 TTGTGCAAGGA-CT
*
23209451 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
23209472 ATTACTTGAG
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
76 1 0.01
77 29 0.19
78 8 0.05
79 44 0.28
80 42 0.27
81 32 0.21
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (78 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCGAAGGCAT
TTGTGCAAGGACT
Found at i:23211274 original size:5 final size:5
Alignment explanation
Indices: 23211264--23211310 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
23211254 TTATCTGTTA
23211264 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
23211311 TGGCATAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:23212314 original size:18 final size:17
Alignment explanation
Indices: 23212288--23212330 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
23212278 CCATGGCTTC
23212288 ATTATTATTACTATTTT
1 ATTATTATTACTATTTT
* *
23212305 ATTATCTATTATTGTTTT
1 ATTAT-TATTACTATTTT
23212323 ATTATTAT
1 ATTATTAT
23212331 CTATGTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTATTATTACTATTTT
Found at i:23212314 original size:21 final size:21
Alignment explanation
Indices: 23212290--23212343 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
23212280 ATGGCTTCAT
23212290 TATTATTACTATT-TTATTATC
1 TATTATT-CTATTATTATTATC
* *
23212311 TATTATTGTTTTATTATTATC
1 TATTATTCTATTATTATTATC
23212332 TATGTATT-TATT
1 TAT-TATTCTATT
23212344 TGTTTATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (21 bp):
TATTATTCTATTATTATTATC
Found at i:23212412 original size:3 final size:3
Alignment explanation
Indices: 23212404--23212473 Score: 124
Period size: 3 Copynumber: 23.3 Consensus size: 3
23212394 CTTGTACATA
23212404 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23212452 TAT TAT T-T TAT CTAT TAT TAT T
1 TAT TAT TAT TAT -TAT TAT TAT T
23212474 TATTTATATA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 60 0.92
4 3 0.05
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23212671 original size:21 final size:21
Alignment explanation
Indices: 23212643--23212690 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
23212633 TTCATGAGCG
23212643 TATTTTATCATTAGT-ATTA-T
1 TATTTTATCATT-GTCATTATT
23212663 TATTGTTATCATTGTCATTATT
1 TATT-TTATCATTGTCATTATT
23212685 TATTTT
1 TATTTT
23212691 TATTATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.24
21 14 0.56
22 5 0.20
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (21 bp):
TATTTTATCATTGTCATTATT
Found at i:23212697 original size:13 final size:13
Alignment explanation
Indices: 23212679--23212703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23212669 TATCATTGTC
23212679 ATTATTTATTTTT
1 ATTATTTATTTTT
23212692 ATTATTTATTTT
1 ATTATTTATTTT
23212704 ATTTTTCTTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTATTTATTTTT
Found at i:23217488 original size:27 final size:27
Alignment explanation
Indices: 23217450--23217507 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
23217440 GATTAAAACT
*
23217450 TCTTTACATTAATTGTTCAATCAATAA
1 TCTTTACATTAATTGTTCAACCAATAA
* *
23217477 TCTTTACATTAATTGTTGAACCAATAT
1 TCTTTACATTAATTGTTCAACCAATAA
23217504 TCTT
1 TCTT
23217508 ATCTCATTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (27 bp):
TCTTTACATTAATTGTTCAACCAATAA
Found at i:23225237 original size:61 final size:61
Alignment explanation
Indices: 23225142--23225277 Score: 227
Period size: 61 Copynumber: 2.2 Consensus size: 61
23225132 CCACGGGAAG
* *
23225142 GAATGCCTTTGTGACAATACTCTGGACAAGAAAACCTTTGTGGTGAGTACTGAATGTTAAT
1 GAATGCCTTTGTGGCAATACTCTGGACAAGAAAACCTTTGTGGCGAGTACTGAATGTTAAT
* * *
23225203 GAATGCCTTTGTGGCAATACTTTGGACATGAAAACCTTTGTGGCGATTACTGAATGTTAAT
1 GAATGCCTTTGTGGCAATACTCTGGACAAGAAAACCTTTGTGGCGAGTACTGAATGTTAAT
23225264 GAATGCCTTTGTGG
1 GAATGCCTTTGTGG
23225278 GAAAAATCTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (61 bp):
GAATGCCTTTGTGGCAATACTCTGGACAAGAAAACCTTTGTGGCGAGTACTGAATGTTAAT
Found at i:23225273 original size:32 final size:32
Alignment explanation
Indices: 23225176--23225277 Score: 104
Period size: 32 Copynumber: 3.3 Consensus size: 32
23225166 GACAAGAAAA
* *
23225176 CCTTTGTGGTGAGTACTGAATGTTAATGAATG
1 CCTTTGTGGCGAATACTGAATGTTAATGAATG
* * **
23225208 CCTTTGTGGC-AATACT--TTG-GACATGAAAA
1 CCTTTGTGGCGAATACTGAATGTTA-ATGAATG
*
23225237 CCTTTGTGGCGATTACTGAATGTTAATGAATG
1 CCTTTGTGGCGAATACTGAATGTTAATGAATG
23225269 CCTTTGTGG
1 CCTTTGTGG
23225278 GAAAAATCTA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
28 1 0.02
29 17 0.31
30 5 0.09
31 5 0.09
32 25 0.46
33 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (32 bp):
CCTTTGTGGCGAATACTGAATGTTAATGAATG
Found at i:23229702 original size:38 final size:38
Alignment explanation
Indices: 23229651--23229727 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
23229641 GATAGTACAA
**
23229651 ATTTGTCCCTTAAAGTTGATTGCTTCAGTTCAAAAAGT
1 ATTTGTCCCTTAAAGTTGATCACTTCAGTTCAAAAAGT
*
23229689 ATTTGTCCCTTAAAGTTGATCACTTCGGTTCAAAAAGT
1 ATTTGTCCCTTAAAGTTGATCACTTCAGTTCAAAAAGT
23229727 A
1 A
23229728 CACGTTGGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (38 bp):
ATTTGTCCCTTAAAGTTGATCACTTCAGTTCAAAAAGT
Found at i:23230174 original size:14 final size:15
Alignment explanation
Indices: 23230152--23230180 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23230142 ATTTATCCAT
23230152 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
23230167 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
23230181 AATCATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:23236522 original size:40 final size:40
Alignment explanation
Indices: 23236470--23236563 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
23236460 TTAAAGTTGC
* *
23236470 CTGGATAAAGATTGAATGGTTGAAGATTTTAAAAAAGT-G
1 CTGGATAAAGATTGAAGGGTTGAAGATTTAAAAAAAGTAG
* * *
23236509 ATTGGATAAAGATTGTAGGGTTGGAGATTTAAAAAAAGTAG
1 -CTGGATAAAGATTGAAGGGTTGAAGATTTAAAAAAAGTAG
23236550 CTGGATAAAGATTG
1 CTGGATAAAGATTG
23236564 GAAGATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.28, T:0.30
Consensus pattern (40 bp):
CTGGATAAAGATTGAAGGGTTGAAGATTTAAAAAAAGTAG
Found at i:23237293 original size:19 final size:19
Alignment explanation
Indices: 23237252--23237294 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
23237242 TGACCCGCAC
*
23237252 AGTTGAGGTCATTAATTCG
1 AGTTGAGGTCATTAATTCA
* * *
23237271 AGTTGAGGTCGTTGATTTA
1 AGTTGAGGTCATTAATTCA
23237290 AGTTG
1 AGTTG
23237295 GGCTTTTCAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (19 bp):
AGTTGAGGTCATTAATTCA
Found at i:23237568 original size:14 final size:15
Alignment explanation
Indices: 23237546--23237574 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23237536 ATTTATCCAT
23237546 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
23237561 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
23237575 AGTCAGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:23243384 original size:20 final size:20
Alignment explanation
Indices: 23243357--23243405 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 20
23243347 AATTTAATTT
23243357 AATTTAATATTAAGATAATC
1 AATTTAATATTAAGATAATC
*
23243377 ACTTT-A-A-T-AGATAATC
1 AATTTAATATTAAGATAATC
23243393 AATTTAATATTAA
1 AATTTAATATTAA
23243406 ATTAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
16 12 0.52
17 2 0.09
18 2 0.09
19 2 0.09
20 5 0.22
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (20 bp):
AATTTAATATTAAGATAATC
Found at i:23246096 original size:29 final size:29
Alignment explanation
Indices: 23246063--23246136 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
23246053 GTGACGAGAT
23246063 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * *
23246092 TGGCACTAAGTGTGCATGTTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
23246121 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23246137 AGCTCGAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:23246152 original size:29 final size:29
Alignment explanation
Indices: 23246120--23246195 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
23246110 TTGGAAATAT
* *
23246120 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
23246149 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
23246178 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
23246196 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:23253829 original size:27 final size:28
Alignment explanation
Indices: 23253793--23253897 Score: 115
Period size: 29 Copynumber: 3.8 Consensus size: 28
23253783 TACGGTGACG
23253793 AGAT-TGGCACTAAGTGTGCGTGCTGGA
1 AGATATGGCACTAAGTGTGCGTGCTGGA
*
23253820 A-ATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCGTGCTGG-A
* * *
23253848 ATATATGGCACTAAGTGTGCGAGCTCGA
1 AGATATGGCACTAAGTGTGCGTGCTGGA
** *
23253876 AGGGCATGGCACTATGTGTGCG
1 A-GATATGGCACTAAGTGTGCG
23253898 GGCTTAAATC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.03
27 22 0.33
28 4 0.06
29 38 0.58
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
AGATATGGCACTAAGTGTGCGTGCTGGA
Found at i:23253863 original size:29 final size:27
Alignment explanation
Indices: 23253797--23253867 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
23253787 GTGACGAGAT
*
23253797 TGGCACTAAGTGTGCGTGCTGGAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATA
23253824 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGG-AA-ATA
23253853 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
23253868 GAGCTCGAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 21 0.51
28 2 0.05
29 18 0.44
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (27 bp):
TGGCACTAAGTGTGCATGCTGGAAATA
Found at i:23253884 original size:29 final size:29
Alignment explanation
Indices: 23253852--23253927 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
23253842 CTGGAAATAT
* *
23253852 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
23253881 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
23253910 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
23253928 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:23262103 original size:80 final size:77
Alignment explanation
Indices: 23261970--23262199 Score: 266
Period size: 79 Copynumber: 2.9 Consensus size: 77
23261960 AGTATTTGAA
* * *
23261970 TGATACCCGGGTTAAGACCCGAAGGCAATTGTGC-TAGTGACTACATCCGGGCTAAGATCCGAAG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTGTGCATTGTGA-T--ATCCGGGCTAAG-TCCGAAG
*
23262034 GCATTTGTGCAAATTT
62 GCATTTGTGCAAATTG
* * * *
23262050 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGATATCCGGGCTAAGCCCAAAGGT
1 TGATATCCGGGCTAAGACCCGAAGGCAATTGTGC--ATTGTGATATCCGGGCTAAGTCCGAAGGC
*
23262115 AATTGTGCAAATTG
64 ATTTGTGCAAATTG
*
23262129 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTGTGC-A-TTGTGATATCCGGGCTAAGT-CCGAAGG
*
23262193 CCTTTGT
63 CATTTGT
23262200 ACGGGTTACC
Statistics
Matches: 128, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 34 0.27
79 44 0.34
80 43 0.34
82 1 0.01
83 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (77 bp):
TGATATCCGGGCTAAGACCCGAAGGCAATTGTGCATTGTGATATCCGGGCTAAGTCCGAAGGCAT
TTGTGCAAATTG
Found at i:23262132 original size:39 final size:40
Alignment explanation
Indices: 23261970--23262193 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
23261960 AGTATTTGAA
* * *
23261970 TGATACCCGGGTTAAGACCCGAAGGCAATTGTGC---TAG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTG
* * *
23262007 TGACTACATCCGGGCTAAGATCCGAAGGCATTTGTGCAAATTT
1 TGA-T--ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTG
*
23262050 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTG
* *
23262090 TGATATCCGGGCTAAG-CCCAAAGGTAATTGTGCAAATTG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTG
* *
23262129 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTG
* *
23262168 TGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
23262194 CTTTGTACGG
Statistics
Matches: 164, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
37 3 0.02
38 1 0.01
39 70 0.43
40 85 0.52
42 1 0.01
43 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TGATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTG
Found at i:23264110 original size:31 final size:31
Alignment explanation
Indices: 23264072--23264134 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
23264062 AAGACTAAGC
23264072 GCGGATTCTAAGTCTCATGAGCCTTTTTGGG
1 GCGGATTCTAAGTCTCATGAGCCTTTTTGGG
23264103 GCGGATTCTAAGTCTCATGAGCCTTTTTGGG
1 GCGGATTCTAAGTCTCATGAGCCTTTTTGGG
23264134 G
1 G
23264135 AATTTTGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.19, G:0.30, T:0.35
Consensus pattern (31 bp):
GCGGATTCTAAGTCTCATGAGCCTTTTTGGG
Found at i:23264378 original size:10 final size:10
Alignment explanation
Indices: 23264359--23264401 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
23264349 TTAAATTCTA
23264359 AAAGATAAAT
1 AAAGATAAAT
23264369 ACAA-ATAAAT
1 A-AAGATAAAT
*
23264379 AAAGATAATT
1 AAAGATAAAT
23264389 AAAGATAAAT
1 AAAGATAAAT
23264399 AAA
1 AAA
23264402 AGTAAATCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23266360 original size:21 final size:22
Alignment explanation
Indices: 23266327--23266367 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23266317 AAAACAAAAG
*
23266327 AAAATAATGAATAAAATAAATA
1 AAAATAATAAATAAAATAAATA
23266349 AAAATAA-AAATAAAATAAA
1 AAAATAATAAATAAAATAAA
23266368 AATTGGGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAATAATAAATAAAATAAATA
Found at i:23269313 original size:17 final size:18
Alignment explanation
Indices: 23269291--23269324 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23269281 AGTCGAATTG
23269291 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
*
23269308 AAATTGTGAAAATTAAA
1 AAATTGCGAAAATTAAA
23269325 ATGGAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Done.