Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 39 of 203
Found at i:12906911 original size:108 final size:107
Alignment explanation
Indices: 12906723--12906920 Score: 299
Period size: 108 Copynumber: 1.8 Consensus size: 107
12906713 GTTTCTGATA
* * * *
12906723 AAATAGTATAAAATCACTTCTAGTGGATGCTATTTGTGAAGAATTTGTGAAATCGCGCCCTCGTG
1 AAATAGTATAAAATCACTTCTAGAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATA
12906788 GACGCGCTTTTGCTACAGTAGGTCACGGAAGAATTTGTGAGC
66 GACGCGCTTTTGCTACAGTAGGTCACGGAAGAATTTGTGAGC
** *
12906830 AAATAGTATAAAATCGGTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCAT
1 AAATAGTATAAAATCACTTCTAG-AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCAT
*
12906895 CAG-CGTGCTTTTGCTACAGTAGGTCA
65 -AGACGCGCTTTTGCTACAGTAGGTCA
12906921 TGTAAAAAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
107 21 0.26
108 59 0.73
109 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (107 bp):
AAATAGTATAAAATCACTTCTAGAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATA
GACGCGCTTTTGCTACAGTAGGTCACGGAAGAATTTGTGAGC
Found at i:12910257 original size:116 final size:117
Alignment explanation
Indices: 12910053--12910271 Score: 341
Period size: 116 Copynumber: 1.9 Consensus size: 117
12910043 TGATAAATTG
12910053 TATTAAGTCAAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTG
1 TATTAAGTCAAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTG
* * ***
12910118 TCAGTACCAGTGAAATTTTTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TCAGTACAAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* * *
12910170 TATTAAGTC-AAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTGTTATTTG
1 TATTAAGTCAAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTG
* *
12910234 TTAGTACAAGTCAAAACATTTTTCTAAATCTAACATTA
66 TCAGTACAAGTCAAAACATTTTTCCAAATCTAACATTA
12910272 CGTTAAGGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
116 83 0.90
117 9 0.10
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (117 bp):
TATTAAGTCAAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTG
TCAGTACAAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:12910308 original size:22 final size:20
Alignment explanation
Indices: 12910273--12910318 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
12910263 CTAACATTAC
12910273 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
12910293 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
12910315 -TTAA
1 GTTAA
12910319 ATTAGATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:12910384 original size:51 final size:51
Alignment explanation
Indices: 12910302--12910449 Score: 192
Period size: 51 Copynumber: 2.9 Consensus size: 51
12910292 AGTTAAGGGT
* *
12910302 TTAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAATTAAATTAGATCAAGG
1 TTAGAGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGATCAAGG
* * *
12910354 TTAGAGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGAGTTTTTAA-TTAAATAGG-TTAGGGTTTTTAATTAAATTAGATCAAGG
*
12910405 TTGGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAG
1 TTAGAGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAG
12910450 GTTAGGATTT
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
50 3 0.04
51 41 0.49
52 36 0.43
53 4 0.05
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (51 bp):
TTAGAGTTTTTAATTAAATAGGTTAGGGTTTTTAATTAAATTAGATCAAGG
Found at i:12910419 original size:24 final size:23
Alignment explanation
Indices: 12910277--12910481 Score: 170
Period size: 23 Copynumber: 8.5 Consensus size: 23
12910267 CATTACGTTA
12910277 AGGTTAGGGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
*
12910298 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
*
12910322 AGATTAGGGTTTTTAATTAAATTAGAT
1 AGGTTAGGGTTTTTAATTAAA-T---T
*
12910349 CAAGGTTAGAGTTTTTAAGTT-AA--
1 --AGGTTAGGGTTTTTAA-TTAAATT
*
12910372 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
12910396 AGGTTAAGGTTGGAGTTTTTAATTAAATT
1 AGGTT-A----GG-GTTTTTAATTAAATT
12910425 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
* *
12910448 AGGTTAGGATTTTTGATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
12910471 AGGTTAGGGTT
1 AGGTTAGGGTT
12910482 AGGGTTTGTA
Statistics
Matches: 152, Mismatches: 11, Indels: 40
0.75 0.05 0.20
Matches are distributed among these distances:
21 8 0.05
22 29 0.19
23 66 0.43
24 7 0.05
27 1 0.01
28 3 0.02
29 36 0.24
30 2 0.01
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAAATT
Found at i:12910429 original size:74 final size:73
Alignment explanation
Indices: 12910277--12910508 Score: 258
Period size: 74 Copynumber: 3.1 Consensus size: 73
12910267 CATTACGTTA
*
12910277 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTT---TTTAAT
1 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGTTT--T
* *
12910339 TAAATTAGATCA
64 T-AATTAAAT-T
* *
12910351 AGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTGGAGTTTTT
1 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTGG-GTTTTT
12910416 AATTAAATT
65 AATTAAATT
* * *
12910425 AGGTTAGGGTTTTTAA-TTAAATTAGG-TTAGGATTTTTGATTAAATTAGGTTAGGGTTAGGGTT
1 AGGTTAGGGTTTTTAAGTT-AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTT-GGGTT
* *
12910488 TGTAATTAATTT
62 TTTAATTAAATT
12910500 AGGTTAGGG
1 AGGTTAGGG
12910509 GTCAGGGTTT
Statistics
Matches: 138, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
73 2 0.01
74 70 0.51
75 57 0.41
76 6 0.04
78 3 0.02
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (73 bp):
AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGTTTTTA
ATTAAATT
Found at i:12910482 original size:52 final size:52
Alignment explanation
Indices: 12910313--12910507 Score: 170
Period size: 52 Copynumber: 3.8 Consensus size: 52
12910303 TAGGGTTTTT
* * * *
12910313 AATTAAATTA-GATTAGGGTTTTTAATTAAATTAGATCAAGGTTAGAGT-TT-
1 AATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGT-TAGGTTGGAGTATTA
* * *
12910363 --TTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTGGAGTTTTT
1 AATTAAATT-AGGG-TTAGGGTTTTTAATTAAATTAGGTT-AGGTTGGAGTATTA
***
12910416 AATTAAATTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTG-ATTA
1 AATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG-TTGGAGTATTA
** * *
12910467 AATTAGGTTAGGGTTAGGGTTTGTAATTAATTTAGGTTAGG
1 AATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
12910508 GGTCAGGGTT
Statistics
Matches: 120, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
48 6 0.05
49 1 0.01
50 1 0.01
51 45 0.38
52 58 0.48
53 2 0.02
54 1 0.01
55 6 0.05
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.45
Consensus pattern (52 bp):
AATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTGGAGTATTA
Found at i:12910495 original size:29 final size:29
Alignment explanation
Indices: 12910371--12910551 Score: 172
Period size: 30 Copynumber: 6.6 Consensus size: 29
12910361 TTTTAAGTTA
12910371 AGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
*
12910401 AAGGTT-GGAGTTTTTAATT-AA--A--TT
1 AGGGTTAGG-GTTTTTAATTAAATTAGGTT
12910425 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
12910453 A-GG--A---TTTTTGATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
12910476 AGGGTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
12910505 AGGGGTCAGGGTTTTTAATTAATTTAAGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
12910535 AGGGTTTAGGGTTTTTA
1 AGGG-TTAGGGTTTTTA
12910552 TTATATAAAA
Statistics
Matches: 127, Mismatches: 9, Indels: 30
0.77 0.05 0.18
Matches are distributed among these distances:
23 33 0.26
24 9 0.07
26 4 0.03
28 9 0.07
29 32 0.25
30 40 0.31
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.46
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:12911089 original size:18 final size:18
Alignment explanation
Indices: 12911066--12911100 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12911056 CGCAAAAGGA
*
12911066 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
12911084 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
12911101 AAACGTACCT
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:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:12913651 original size:31 final size:30
Alignment explanation
Indices: 12913607--12913664 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
12913597 AAATCGAAAT
*
12913607 TAAAGTTTTATGTATACATTTAAACCATAA
1 TAAAGTTTTATGTATACAATTAAACCATAA
* *
12913637 TAAATTTTTCATGTATATAATTAAACCA
1 TAAAGTTTT-ATGTATACAATTAAACCA
12913665 AATTAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (30 bp):
TAAAGTTTTATGTATACAATTAAACCATAA
Found at i:12926099 original size:32 final size:32
Alignment explanation
Indices: 12926058--12926123 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
12926048 TAGTATGCAA
12926058 CAATGATACTCTACCCTGATGATTCATACAGT
1 CAATGATACTCTACCCTGATGATTCATACAGT
12926090 CAATGATACTCTACCCTGATGATTCATACAGT
1 CAATGATACTCTACCCTGATGATTCATACAGT
12926122 CA
1 CA
12926124 TGTAACTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (32 bp):
CAATGATACTCTACCCTGATGATTCATACAGT
Found at i:12927433 original size:36 final size:36
Alignment explanation
Indices: 12927384--12927536 Score: 180
Period size: 36 Copynumber: 4.2 Consensus size: 36
12927374 TGCACCTGGT
* *
12927384 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGA
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
* *
12927420 GGTGGAGGGGGCACAGCATGACCTTTCAGTGGAGGG
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
* * * * *
12927456 GGAGGAGGGGGCACTGCAGAACCTTTTGGTGGAGGT
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
* ** * *
12927492 GGAGGAGGGGGTGCAGTAGGAGCTTTCGGTGGAGGG
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
12927528 GGTGGAGGG
1 GGTGGAGGG
12927537 CGCGCTGGAG
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 97 1.00
ACGTcount: A:0.19, C:0.13, G:0.52, T:0.16
Consensus pattern (36 bp):
GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
Found at i:12927554 original size:72 final size:72
Alignment explanation
Indices: 12927394--12927571 Score: 176
Period size: 72 Copynumber: 2.5 Consensus size: 72
12927384 GGTGGAGGAG
* * * * *
12927394 GCACAGCAGGACCTTTCGGTGGAGGAGGTGGAGGGGGCACAGCATGACCTTTCAGTGGAGGGGGA
1 GCACTGCAGAACCTTTTGGTGGAGGAGGAGGAGGGGGCACAGCAGGACCTTTCAGTGGAGGGGGA
*
12927459 GGAGGGG
66 GGAGGGC
* ** * * * *
12927466 GCACTGCAGAACCTTTTGGTGGAGGTGGAGGAGGGGGTGCAGTAGGAGCTTTCGGTGGAGGGGGT
1 GCACTGCAGAACCTTTTGGTGGAGGAGGAGGAGGGGGCACAGCAGGACCTTTCAGTGGAGGGGGA
12927531 GGAGGGC
66 GGAGGGC
* * *** * *
12927538 GCGCTGGAGGGGCTTTTGGTGGAGGGGGGGGAGG
1 GCACTGCAGAACCTTTTGGTGGAGGAGGAGGAGG
12927572 AGCTTTTGGA
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.17, C:0.13, G:0.53, T:0.17
Consensus pattern (72 bp):
GCACTGCAGAACCTTTTGGTGGAGGAGGAGGAGGGGGCACAGCAGGACCTTTCAGTGGAGGGGGA
GGAGGGC
Found at i:12927576 original size:24 final size:24
Alignment explanation
Indices: 12927528--12927621 Score: 109
Period size: 24 Copynumber: 3.8 Consensus size: 24
12927518 CGGTGGAGGG
*
12927528 GGTGGAGGGCGCGCTGGAGGGGCTTTT
1 GGTGGAGGG-G-G-TGGAGGAGCTTTT
*
12927555 GGTGGAGGGGGGGGAGGAGCTTTT
1 GGTGGAGGGGGTGGAGGAGCTTTT
* *
12927579 GGAGG-GGGCGCTGGAGGAGCTTTT
1 GGTGGAGGG-GGTGGAGGAGCTTTT
12927603 GGTGGAGGGGGTGGAGGAG
1 GGTGGAGGGGGTGGAGGAG
12927622 GAATAGAACC
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
23 3 0.05
24 41 0.71
25 4 0.07
26 1 0.02
27 9 0.16
ACGTcount: A:0.12, C:0.09, G:0.61, T:0.19
Consensus pattern (24 bp):
GGTGGAGGGGGTGGAGGAGCTTTT
Found at i:12927582 original size:48 final size:48
Alignment explanation
Indices: 12927530--12927621 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
12927520 GTGGAGGGGG
*
12927530 TGGAGGGCGCGCTGGAGGGGCTTTTGGTGGAGGGGGGGGAGGAGCTTT
1 TGGAGGGCGCGCTGGAGGAGCTTTTGGTGGAGGGGGGGGAGGAGCTTT
* *
12927578 TGGAGGGGGCGCTGGAGGAGCTTTTGGTGGAGGGGGTGGAGGAG
1 TGGAGGGCGCGCTGGAGGAGCTTTTGGTGGAGGGGGGGGAGGAG
12927622 GAATAGAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.12, C:0.09, G:0.60, T:0.20
Consensus pattern (48 bp):
TGGAGGGCGCGCTGGAGGAGCTTTTGGTGGAGGGGGGGGAGGAGCTTT
Found at i:12928149 original size:3 final size:3
Alignment explanation
Indices: 12928143--12928172 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12928133 AGGAGGAGGA
12928143 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
12928173 CCAGGAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:12939742 original size:110 final size:110
Alignment explanation
Indices: 12939549--12939775 Score: 436
Period size: 110 Copynumber: 2.1 Consensus size: 110
12939539 GTTTTTTTTA
* *
12939549 CTTAGTTTTTTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCTA
1 CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCAA
12939614 TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
66 TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
12939659 CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCAA
1 CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCAA
12939724 TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
66 TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
12939769 CTTAGTT
1 CTTAGTT
12939776 AGCCAGACAC
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 115 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (110 bp):
CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCAA
TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
Found at i:12945617 original size:6 final size:6
Alignment explanation
Indices: 12945606--12945631 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12945596 GAACAGAAAC
12945606 GAAAAA GAAAAA GAAAAA GAAAAA GA
1 GAAAAA GAAAAA GAAAAA GAAAAA GA
12945632 GTAAGGGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:12947905 original size:192 final size:193
Alignment explanation
Indices: 12947570--12947920 Score: 485
Period size: 192 Copynumber: 1.8 Consensus size: 193
12947560 CGGTTATTAT
* * * * * **
12947570 ATTTCTGGATCAATTTAGGTTTGTGTTCTTTTTGGTTTTGATGATTAGGGTTTTTTGGGTTGAAT
1 ATTTCTGGATCAATTTAGGCTAGTGCTCTTTTTGGTTTTAATCATTAGGGTTTTTCAGGTTGAAT
* * * * * * *
12947635 CATCTTTGGGTTCATATCATTTCGGATCCTTTTGTGTTTGGAACATCTTGGATTCGAATTCTTTT
66 AATCTTTGGATTCATATAATTTCGGATCATTTTATGTTTGGAACATCTTGGATTAGAATTATTTT
*
12947700 CAGGTTTGGTTGAGCCAGTTTGGGTTATTGCCATTTGATTACTAGGTCCATTCGTTTTTTGAA
131 CAGGTTCGGTTGAGCCAGTTTGGGTTATTGCCATTTGATTACTAGGTCCATTCGTTTTTTGAA
* * *
12947763 ATTTCTGGATCAGTTTAGGCTAG-GCTCATTTTTTGTTTTAATCATTAGGGTTTTTCAGGTTGGA
1 ATTTCTGGATCAATTTAGGCTAGTGCTC-TTTTTGGTTTTAATCATTAGGGTTTTTCAGGTTGAA
12947827 TAATC-TTGGATTCATATAA-TTCTGGATCATTTTATGTTTGGAACAT-TTGGAATTAGAATTAT
65 TAATCTTTGGATTCATATAATTTC-GGATCATTTTATGTTTGGAACATCTTGG-ATTAGAATTAT
12947889 TTTCAGGTTCGGTTGAGCCAGTTTGGGTTATT
128 TTTCAGGTTCGGTTGAGCCAGTTTGGGTTATT
12947921 TCCTTTTCAT
Statistics
Matches: 137, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
191 7 0.05
192 76 0.55
193 54 0.39
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (193 bp):
ATTTCTGGATCAATTTAGGCTAGTGCTCTTTTTGGTTTTAATCATTAGGGTTTTTCAGGTTGAAT
AATCTTTGGATTCATATAATTTCGGATCATTTTATGTTTGGAACATCTTGGATTAGAATTATTTT
CAGGTTCGGTTGAGCCAGTTTGGGTTATTGCCATTTGATTACTAGGTCCATTCGTTTTTTGAA
Found at i:12960011 original size:13 final size:13
Alignment explanation
Indices: 12959993--12960029 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
12959983 AGAAATGAGC
12959993 TTTTTATTTTTTA
1 TTTTTATTTTTTA
**
12960006 TTTTTACCTTTTA
1 TTTTTATTTTTTA
12960019 TTTTTATTTTT
1 TTTTTATTTTT
12960030 ATTCTTTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:12960022 original size:5 final size:6
Alignment explanation
Indices: 12959993--12960032 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
12959983 AGAAATGAGC
*
12959993 TTTTTA TTTTTTA TTTTTA CCTTTTA TTTTTA TTTTTA TT
1 TTTTTA -TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TT
12960033 CTTTTCTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:12960037 original size:20 final size:20
Alignment explanation
Indices: 12959994--12960030 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
12959984 GAAATGAGCT
12959994 TTTTATTTTTTATTTTTACC
1 TTTTATTTTTTATTTTTACC
12960014 TTTTA-TTTTTATTTTTA
1 TTTTATTTTTTATTTTTA
12960031 TTCTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTATTTTTTATTTTTACC
Found at i:12970605 original size:33 final size:33
Alignment explanation
Indices: 12970563--12970625 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
12970553 TACCACCATC
12970563 GGTCCAAAACATATCAGTCCAAGCTCATGATAT
1 GGTCCAAAACATATCAGTCCAAGCTCATGATAT
12970596 GGTCCAAAACATATCAGTCCAAGCTCATGA
1 GGTCCAAAACATATCAGTCCAAGCTCATGA
12970626 GGTTGTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (33 bp):
GGTCCAAAACATATCAGTCCAAGCTCATGATAT
Found at i:12973370 original size:11 final size:11
Alignment explanation
Indices: 12973354--12973385 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
12973344 TTATCTCACG
12973354 CTACAGTATCA
1 CTACAGTATCA
12973365 CTACAGTATCA
1 CTACAGTATCA
12973376 CTACAGTATC
1 CTACAGTATC
12973386 TAATCTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.28
Consensus pattern (11 bp):
CTACAGTATCA
Found at i:12973685 original size:21 final size:21
Alignment explanation
Indices: 12973659--12973698 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
12973649 AACAAAATAT
12973659 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
12973680 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
12973699 AAATAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:12981437 original size:4 final size:4
Alignment explanation
Indices: 12981428--12981466 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
12981418 CGAGCACGCG
12981428 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
12981467 GAAAAGGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:12983879 original size:18 final size:18
Alignment explanation
Indices: 12983856--12983890 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12983846 TATGGTAAAA
12983856 TTATATAAAAATATTATT
1 TTATATAAAAATATTATT
*
12983874 TTATATAAAGATATTAT
1 TTATATAAAAATATTAT
12983891 ACTAAAATTA
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTATATAAAAATATTATT
Found at i:12984065 original size:20 final size:21
Alignment explanation
Indices: 12984015--12984066 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
12984005 TAATCAAATT
*
12984015 TAATAAATTATTTTTTAATCA
1 TAATAAATAATTTTTTAATCA
12984036 T--TAAATTAATTTTTTAAT-A
1 TAATAAA-TAATTTTTTAATCA
12984055 TAATAAATAATT
1 TAATAAATAATT
12984067 ACACATGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 6 0.22
20 16 0.59
21 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATAAATAATTTTTTAATCA
Found at i:12984237 original size:6 final size:6
Alignment explanation
Indices: 12984226--12984264 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
12984216 GTCCAGCTTA
12984226 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
12984265 ACATTATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:12988773 original size:38 final size:39
Alignment explanation
Indices: 12988730--12988819 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 39
12988720 TAAATTATTA
*
12988730 AAAATTTAT-GTAAGAGTCGATGTTTTGATTTTATTGAT
1 AAAATTTATAGTAAGAGTCGATGTTTTGATTTTAATGAT
**
12988768 AAAATTTATCATAGGTAATTGTCGATGTTTTGATTTTAATGAT
1 AAAA-TT-T-ATA-GTAAGAGTCGATGTTTTGATTTTAATGAT
12988811 AAAATTTAT
1 AAAATTTAT
12988820 CATAGGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
38 4 0.09
39 2 0.05
40 3 0.07
41 3 0.07
42 2 0.05
43 30 0.68
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (39 bp):
AAAATTTATAGTAAGAGTCGATGTTTTGATTTTAATGAT
Found at i:12988793 original size:43 final size:43
Alignment explanation
Indices: 12988745--12988830 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
12988735 TTATGTAAGA
*
12988745 GTCGATGTTTTGATTTTATTGATAAAATTTATCATAGGTAATT
1 GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
12988788 GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
1 GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
12988831 TTTTATTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (43 bp):
GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
Found at i:12989591 original size:30 final size:30
Alignment explanation
Indices: 12989553--12989647 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 30
12989543 TAAACAAATC
*
12989553 TATTAATTATTATTTATTAAATGAAAATAGT
1 TATTAATTA-TATTTATTAAATGAAAATAAT
* *
12989584 T-TTAATTAAAATATTATTTCAAT-AAAATAAT
1 TATTAATT-ATAT-TTA-TTAAATGAAAATAAT
12989615 TAAATTAATTATATTTTATTAAATGAAAATAAT
1 T--ATTAATTATA-TTTATTAAATGAAAATAAT
12989648 CGTCAATGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
30 8 0.16
31 13 0.25
32 10 0.20
33 13 0.25
34 7 0.14
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (30 bp):
TATTAATTATATTTATTAAATGAAAATAAT
Found at i:13001753 original size:23 final size:23
Alignment explanation
Indices: 13001726--13001782 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
13001716 AAATTTAAAA
13001726 TATATATTATAATAT-TATAATAT
1 TATATATTA-AATATATATAATAT
* * *
13001749 TATATCTTAAGTATATATTATAT
1 TATATATTAAATATATATAATAT
*
13001772 TATATAATAAA
1 TATATATTAAA
13001783 ATAAAGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TATATATTAAATATATATAATAT
Found at i:13002543 original size:24 final size:24
Alignment explanation
Indices: 13002516--13002562 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13002506 ATTGAAATGG
13002516 ATTG-ATTTAGTATGTGATT-AATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
13002540 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
13002563 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:13002843 original size:40 final size:39
Alignment explanation
Indices: 13002724--13002850 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
13002714 CGAATCGATA
*
13002724 AGACACTGGGTGTCAAATTATTACTTCGGATTAATTCAATG
1 AGACACTGGGTGTCAAATTA-TACTTCGGATT-ATCCAATG
* * * *
13002765 AGGCACTGGGTG-CCAATT-TACTTCGGTTTAGCCAATG
1 AGACACTGGGTGTCAAATTATACTTCGGATTATCCAATG
* * *
13002802 AGACACTAGGTGTCAAATTAATACTTCGAATTATCCGATG
1 AGACACTGGGTGTCAAATT-ATACTTCGGATTATCCAATG
*
13002842 AGGCACTGG
1 AGACACTGG
13002851 TTGCCAAACT
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
37 16 0.23
38 15 0.22
40 27 0.39
41 11 0.16
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (39 bp):
AGACACTGGGTGTCAAATTATACTTCGGATTATCCAATG
Found at i:13003226 original size:17 final size:17
Alignment explanation
Indices: 13003183--13003227 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
13003173 GTAAATTTTA
* *
13003183 AATATTTTATTGTGCTT
1 AATATATTATTGTGCCT
*
13003200 AATATTTTATTGTGCCT
1 AATATATTATTGTGCCT
*
13003217 ATTATATTATT
1 AATATATTATT
13003228 TTGTCTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.58
Consensus pattern (17 bp):
AATATATTATTGTGCCT
Found at i:13004076 original size:40 final size:41
Alignment explanation
Indices: 13003997--13004086 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 41
13003987 AAATTTAAAA
*****
13003997 AATATAATAAAATATTTATTATATTTATTTTTGT-TTTTTT
1 AATATAATAAAATATTTATTATATTTATGACAATATTTTTT
13004037 AATATAATAAAATATTTATTATATTTATGACAATATTTTTT
1 AATATAATAAAATATTTATTATATTTATGACAATATTTTTT
*
13004078 AATAAAATA
1 AATATAATA
13004087 CTTTTTTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 29 0.67
41 14 0.33
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (41 bp):
AATATAATAAAATATTTATTATATTTATGACAATATTTTTT
Found at i:13006797 original size:16 final size:15
Alignment explanation
Indices: 13006776--13006810 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13006766 ATCTTTCTTA
*
13006776 TTTATATTATTTATTT
1 TTTATATTATAT-TTT
13006792 TTTATATTATATTTT
1 TTTATATTATATTTT
13006807 TTTA
1 TTTA
13006811 GTCTTGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATATTATATTTT
Found at i:13009449 original size:29 final size:30
Alignment explanation
Indices: 13009402--13009461 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
13009392 GGACTCTTGG
*
13009402 AATTTAGTTTTTATATTTTTA-TTTTTAAA
1 AATTTAGTTTTTATATTTTTAGATTTTAAA
*
13009431 AATTTAG-TTTTATGGTTTTTAGATTTTAAA
1 AATTTAGTTTTTAT-ATTTTTAGATTTTAAA
13009461 A
1 A
13009462 TTGAGGTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 6 0.22
29 13 0.48
30 8 0.30
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (30 bp):
AATTTAGTTTTTATATTTTTAGATTTTAAA
Found at i:13015006 original size:7 final size:7
Alignment explanation
Indices: 13014995--13015028 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
13014985 ACTATGGATT
*
13014995 TAAACCT
1 TAAACCC
13015002 TAAACCC
1 TAAACCC
13015009 TAAACCC
1 TAAACCC
13015016 TAAACCC
1 TAAACCC
13015023 TAAACC
1 TAAACC
13015029 AGAATCAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:13018119 original size:15 final size:16
Alignment explanation
Indices: 13018078--13018119 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
13018068 AATCTTTAAA
13018078 TTATATTATTTTAATAT
1 TTAT-TTATTTTAATAT
* *
13018095 TTACTAATTTT-ATAT
1 TTATTTATTTTAATAT
13018110 TTATTTATTT
1 TTATTTATTT
13018120 ATTTTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 6 0.29
17 3 0.14
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTATTTTAATAT
Found at i:13021797 original size:18 final size:19
Alignment explanation
Indices: 13021762--13021804 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13021752 TTTAGTTTAG
13021762 TTTTAATATTTAAATTTGA
1 TTTTAATATTTAAATTTGA
*
13021781 TTTTAATGTTT-AATTTGA
1 TTTTAATATTTAAATTTGA
13021799 TATTTA
1 T-TTTA
13021805 GACTAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTAATATTTAAATTTGA
Found at i:13021972 original size:24 final size:25
Alignment explanation
Indices: 13021940--13021992 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
13021930 TTAAATGAGA
* *
13021940 TGAAGAAAA-ACTCAAGCATCAAAT
1 TGAAAAAAATACTCAAGCACCAAAT
*
13021964 TGAAAAAAATACTCAAGCACCTAAT
1 TGAAAAAAATACTCAAGCACCAAAT
13021989 TGAA
1 TGAA
13021993 CATTGAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.53, C:0.17, G:0.11, T:0.19
Consensus pattern (25 bp):
TGAAAAAAATACTCAAGCACCAAAT
Found at i:13025641 original size:18 final size:17
Alignment explanation
Indices: 13025614--13025647 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13025604 CCCTTAATAA
13025614 ATTTTATGAATCTTTTAT
1 ATTTTATGAAT-TTTTAT
*
13025632 ATTTTTTGAATTTTTA
1 ATTTTATGAATTTTTA
13025648 CTTTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTTATGAATTTTTAT
Found at i:13026966 original size:19 final size:21
Alignment explanation
Indices: 13026926--13026971 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
13026916 ATGTATGGTT
13026926 TATAAAATTTTGTATATGATA
1 TATAAAATTTTGTATATGATA
13026947 TATAAAATTATT-TAT-T-ATA
1 TATAAAATT-TTGTATATGATA
13026966 TATAAA
1 TATAAA
13026972 TAAAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.38
20 1 0.04
21 12 0.50
22 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TATAAAATTTTGTATATGATA
Found at i:13027614 original size:18 final size:18
Alignment explanation
Indices: 13027591--13027627 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13027581 TAACATAGTG
13027591 CAATTGTTTTATACAATT
1 CAATTGTTTTATACAATT
13027609 CAATTGTTTTATACAATT
1 CAATTGTTTTATACAATT
13027627 C
1 C
13027628 GTCTCAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (18 bp):
CAATTGTTTTATACAATT
Found at i:13045656 original size:25 final size:25
Alignment explanation
Indices: 13045628--13045678 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
13045618 GTTTAGTTAT
*
13045628 AAAACT-TAAATACATAAATTTAAAA
1 AAAACTATAAAT-CATAAAATTAAAA
* *
13045653 AAAATTATAAATCCTAAAATTAAAA
1 AAAACTATAAATCATAAAATTAAAA
13045678 A
1 A
13045679 TTTGGAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAACTATAAATCATAAAATTAAAA
Found at i:13049265 original size:57 final size:56
Alignment explanation
Indices: 13049160--13049266 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
13049150 ATAAATCAGC
* ***
13049160 TCATAACTAAGTTCAAATGCAATAGCATCTAAGTACCATCGTGCAATAAAACATCT
1 TCATAACTAAGTTCAAATGCAATAGCATCTAAGAACCATCACCCAATAAAACATCT
* * *
13049216 TCATGACTCAGTTCAAATGCAATAGCTTCCTAAGAACCATCACCCAATAAA
1 TCATAACTAAGTTCAAATGCAATAGCAT-CTAAGAACCATCACCCAATAAA
13049267 CTATTTCCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 25 0.58
57 18 0.42
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.25
Consensus pattern (56 bp):
TCATAACTAAGTTCAAATGCAATAGCATCTAAGAACCATCACCCAATAAAACATCT
Found at i:13049849 original size:27 final size:27
Alignment explanation
Indices: 13049801--13049855 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
13049791 TTCTTCTTCG
*
13049801 AGCATTTGAACTGAGTTAGAATCCTAA
1 AGCATTTGAACTGAATTAGAATCCTAA
* * *
13049828 AGCATTTGAATTGAATTTGAATCTTAA
1 AGCATTTGAACTGAATTAGAATCCTAA
13049855 A
1 A
13049856 ACCATCAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (27 bp):
AGCATTTGAACTGAATTAGAATCCTAA
Found at i:13054210 original size:19 final size:20
Alignment explanation
Indices: 13054182--13054223 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
13054172 TTTAAATGTT
13054182 TTATTATTAA-AT-TATATTA
1 TTATTATTAATATATAT-TTA
*
13054201 TTATTCTTAATATATATTTA
1 TTATTATTAATATATATTTA
13054221 TTA
1 TTA
13054224 ACATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 8 0.40
21 3 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTATTAATATATATTTA
Found at i:13061422 original size:30 final size:31
Alignment explanation
Indices: 13061388--13061445 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
13061378 CGAAATGGTC
*
13061388 ATTGAACTATTTG-AAGT-TTTCATTTAAGTT
1 ATTGAACTATTCGAAAGTGTTT-ATTTAAGTT
13061418 ATTGAACTATTCGAAAGTGTTTATTTAA
1 ATTGAACTATTCGAAAGTGTTTATTTAA
13061446 ATAATTGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 12 0.48
31 10 0.40
32 3 0.12
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTGAACTATTCGAAAGTGTTTATTTAAGTT
Found at i:13064271 original size:29 final size:29
Alignment explanation
Indices: 13064207--13064274 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 29
13064197 TGGAAAGTAA
13064207 GACTAAATTCCTAAAAATAAATGTATAGG
1 GACTAAATTCCTAAAAATAAATGTATAGG
13064236 GAACTAAATTCCTAAAAATAAATGTATAGG
1 G-ACTAAATTCCTAAAAATAAATGTATAGG
13064266 GACTAAATT
1 GACTAAATT
13064275 TCAAATGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 9 0.24
30 29 0.76
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (29 bp):
GACTAAATTCCTAAAAATAAATGTATAGG
Found at i:13064678 original size:16 final size:16
Alignment explanation
Indices: 13064657--13064690 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13064647 TAGTCCTACC
*
13064657 CTCCCAATTGCCACCT
1 CTCCCAACTGCCACCT
13064673 CTCCCAACTGCCACCT
1 CTCCCAACTGCCACCT
13064689 CT
1 CT
13064691 ATGACACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.53, G:0.06, T:0.24
Consensus pattern (16 bp):
CTCCCAACTGCCACCT
Found at i:13074483 original size:30 final size:31
Alignment explanation
Indices: 13074447--13074510 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
13074437 ACTTAACAAG
*
13074447 CAAATGT-TTCTAAAATAAT-AACAAAATTAA
1 CAAATGTCTT-TAAAATAATAAAAAAAATTAA
13074477 CAAATGTCTTTAAAATAATAAAAAAAATTAA
1 CAAATGTCTTTAAAATAATAAAAAAAATTAA
13074508 CAA
1 CAA
13074511 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (31 bp):
CAAATGTCTTTAAAATAATAAAAAAAATTAA
Found at i:13074565 original size:22 final size:22
Alignment explanation
Indices: 13074540--13074582 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13074530 TATCCAGACA
13074540 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
13074562 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
13074583 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:13074586 original size:11 final size:11
Alignment explanation
Indices: 13074547--13074587 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
13074537 ACAATAACAA
13074547 CAAAATAGTAG
1 CAAAATAGTAG
* *
13074558 CAACATAATAG
1 CAAAATAGTAG
*
13074569 TAAAATAGTAG
1 CAAAATAGTAG
13074580 CAAAATAG
1 CAAAATAG
13074588 AGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:13074595 original size:22 final size:22
Alignment explanation
Indices: 13074548--13074597 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
13074538 CAATAACAAC
* *
13074548 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
13074570 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
13074592 AAAATA
1 AAAATA
13074598 ATAAGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.16, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:13076761 original size:21 final size:20
Alignment explanation
Indices: 13076737--13076780 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 20
13076727 TAAAAGGTCA
13076737 TTCCTAAAAAGAAAAAAATCT
1 TTCCTAAAAAG-AAAAAATCT
13076758 TTCCTAAAAAGAAAAAATCT
1 TTCCTAAAAAGAAAAAATCT
13076778 TTC
1 TTC
13076781 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (20 bp):
TTCCTAAAAAGAAAAAATCT
Found at i:13079090 original size:15 final size:15
Alignment explanation
Indices: 13079042--13079090 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
13079032 AAAATGCATA
*
13079042 TATTTTTATAAATAC
1 TATTTTTATAAATTC
*
13079057 -ATTTTTATATAATTT
1 TATTTTTATA-AATTC
*
13079072 TATTTATATAAATTC
1 TATTTTTATAAATTC
13079087 TATT
1 TATT
13079091 ATTGGATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 9 0.32
15 11 0.39
16 8 0.29
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTTTTATAAATTC
Found at i:13079835 original size:19 final size:20
Alignment explanation
Indices: 13079806--13079843 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13079796 TAATTACACC
*
13079806 AAAATTAAAATTTATATATT
1 AAAATTAAAATTTACATATT
13079826 AAAA-TAAAATTTACATAT
1 AAAATTAAAATTTACATAT
13079844 AAATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTAAAATTTACATATT
Found at i:13089236 original size:24 final size:23
Alignment explanation
Indices: 13089205--13089252 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
13089195 TATAAGAATC
13089205 ATTAATAAT-TAGCTTAATTTATT
1 ATTAATAATATAG-TTAATTTATT
13089228 ATTATATAATATAGTTAATTTATT
1 ATTA-ATAATATAGTTAATTTATT
13089252 A
1 A
13089253 CGTGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.17
24 16 0.70
25 3 0.13
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTAATAATATAGTTAATTTATT
Found at i:13091111 original size:29 final size:31
Alignment explanation
Indices: 13091079--13091142 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
13091069 AAATATTTTT
*
13091079 TAAAATTAGA-TAAATATTAAATTT-ATATA
1 TAAAATTAGATTAAATATGAAATTTGATATA
* * *
13091108 TAAACTTTGATTAAATATGGAATTTGATATA
1 TAAAATTAGATTAAATATGAAATTTGATATA
13091139 TAAA
1 TAAA
13091143 CTTTAATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.28
30 12 0.41
31 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.41
Consensus pattern (31 bp):
TAAAATTAGATTAAATATGAAATTTGATATA
Found at i:13091123 original size:30 final size:31
Alignment explanation
Indices: 13091089--13091146 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
13091079 TAAAATTAGA
*
13091089 TAAATATTAAATTT-ATATATAAACTTTGAT
1 TAAATATGAAATTTGATATATAAACTTTGAT
*
13091119 TAAATATGGAATTTGATATATAAACTTT
1 TAAATATGAAATTTGATATATAAACTTT
13091147 AATTTGGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (31 bp):
TAAATATGAAATTTGATATATAAACTTTGAT
Found at i:13101318 original size:47 final size:45
Alignment explanation
Indices: 13101239--13101330 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 45
13101229 AGCTATTGTT
*
13101239 TAGATATTAATTTTTTATTACATTTTAAAATATTTTAATTTAATC
1 TAGATATTAATTTTTTATTACATTTTAAAATATTTTAATTGAATC
* * *
13101284 TAGATATTAGATTTTTTTGTTATATTTTATAATATTTTAATTGAATC
1 TAGATATTA-A-TTTTTTATTACATTTTAAAATATTTTAATTGAATC
13101331 CTTAATTTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 9 0.22
46 1 0.02
47 31 0.76
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (45 bp):
TAGATATTAATTTTTTATTACATTTTAAAATATTTTAATTGAATC
Found at i:13103445 original size:11 final size:11
Alignment explanation
Indices: 13103429--13103454 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13103419 GAATGTAAAA
13103429 TCACTTTAATT
1 TCACTTTAATT
13103440 TCACTTTAATT
1 TCACTTTAATT
13103451 TCAC
1 TCAC
13103455 ACTAATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (11 bp):
TCACTTTAATT
Found at i:13104506 original size:21 final size:20
Alignment explanation
Indices: 13104465--13104522 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
13104455 AAGTTTGTTT
13104465 AAAATAAAATATTAAATTTA
1 AAAATAAAATATTAAATTTA
13104485 AAAATAAAA-ATTATAATATTA
1 AAAATAAAATATTA-AAT-TTA
* *
13104506 AATATTTAAATATTAAA
1 AA-AATAAAATATTAAA
13104523 AACACTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.12
20 12 0.38
21 5 0.16
22 7 0.22
23 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATAAAATATTAAATTTA
Found at i:13104507 original size:15 final size:15
Alignment explanation
Indices: 13104478--13104524 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
13104468 ATAAAATATT
*
13104478 AAATTTAAA-AATAA
1 AAATTTAAATATTAA
13104492 AAA-TTATAATATTAA
1 AAATTTA-AATATTAA
*
13104507 ATATTTAAATATTAA
1 AAATTTAAATATTAA
13104522 AAA
1 AAA
13104525 CACTTTTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.11
14 5 0.19
15 16 0.59
16 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTTAAATATTAA
Found at i:13104509 original size:7 final size:7
Alignment explanation
Indices: 13104471--13104522 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
13104461 GTTTAAAATA
13104471 AAATATT
1 AAATATT
13104478 AAAT-TT
1 AAATATT
*
13104484 AAA-AAT
1 AAATATT
*
13104490 AAAAATT
1 AAATATT
13104497 ATAATATT
1 A-AATATT
13104505 AAATATTT
1 AAATA-TT
13104513 AAATATT
1 AAATATT
13104520 AAA
1 AAA
13104523 AACACTTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 9 0.24
7 16 0.42
8 13 0.34
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAATATT
Found at i:13105556 original size:23 final size:21
Alignment explanation
Indices: 13105525--13105568 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
13105515 TGAATCAAAA
*
13105525 TTTTAAATATATATATTTTAATT
1 TTTTAAATAAAT-TA-TTTAATT
*
13105548 TTTTTAATAAATTATTTAATT
1 TTTTAAATAAATTATTTAATT
13105569 AAACCGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAATAAATTATTTAATT
Found at i:13109059 original size:22 final size:21
Alignment explanation
Indices: 13109009--13109119 Score: 77
Period size: 22 Copynumber: 5.0 Consensus size: 21
13108999 CTAATTTACC
13109009 TATTA-TTATATTAAATAATTTAAA
1 TATTATTTATATT--AT-ATTT-AA
13109033 TATTATTTAGTATTATATTTAA
1 TATTATTTA-TATTATATTTAA
*
13109055 TATTATTCTATATT-TCATAT-A
1 TATTATT-TATATTAT-ATTTAA
*
13109076 TCATTATTT-TATTTTATTTAA
1 T-ATTATTTATATTATATTTAA
*
13109097 AATTTATTTATTATTATATTTAA
1 TA-TTATTTA-TATTATATTTAA
13109120 AATTTTAACA
Statistics
Matches: 73, Mismatches: 4, Indels: 21
0.74 0.04 0.21
Matches are distributed among these distances:
20 8 0.11
21 12 0.16
22 22 0.30
23 17 0.23
24 7 0.10
25 3 0.04
26 4 0.05
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (21 bp):
TATTATTTATATTATATTTAA
Found at i:13109127 original size:31 final size:31
Alignment explanation
Indices: 13109009--13109127 Score: 73
Period size: 31 Copynumber: 3.7 Consensus size: 31
13108999 CTAATTTACC
*
13109009 TATTATTATA-TTAAATAATTT-AAATATTATT
1 TATTATTATATTTAAA-ATTTTAAAAT-TTATT
* * * * *
13109040 TAGTATTATATTTAATATTATTCTATATTTCATA
1 TATTATTATATTTAAAATT-TT-AAAATTT-ATT
* ***
13109074 TATCATTAT-TTTATTTTATTTAAAATTTATT
1 TATTATTATATTTAAAAT-TTTAAAATTTATT
13109105 TATTATTATATTTAAAATTTTAA
1 TATTATTATATTTAAAATTTTAA
13109128 CATATAAATA
Statistics
Matches: 65, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
31 26 0.40
32 16 0.25
33 10 0.15
34 13 0.20
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.58
Consensus pattern (31 bp):
TATTATTATATTTAAAATTTTAAAATTTATT
Found at i:13113478 original size:106 final size:107
Alignment explanation
Indices: 13113272--13113492 Score: 401
Period size: 106 Copynumber: 2.1 Consensus size: 107
13113262 ATACTAAAGC
* *
13113272 TATT-TGGTACATATGCCATACTGTATGAGATTACACAAGAAAGCATGCTTTTCCTTACAAAGTA
1 TATTATGGTACATACGCCATACTATATGAGATTACACAAGAAAGCATGCTTTTCCTTACAAAGTA
*
13113336 ACAGTTATTTGTACCCTCACTGTATTTGTATTTTAAATATTT
66 ACAGTTATTTGAACCCTCACTGTATTTGTATTTTAAATATTT
13113378 TATTATGGTACATACGCCATACTATATGAGATTACACAAGAAAGCATGCTTTT-CTTACAAAGTA
1 TATTATGGTACATACGCCATACTATATGAGATTACACAAGAAAGCATGCTTTTCCTTACAAAGTA
13113442 ACAGTTATTTGAACCCTCACTGTATTTGTATTTTAAATATTT
66 ACAGTTATTTGAACCCTCACTGTATTTGTATTTTAAATATTT
13113484 TATTATGGT
1 TATTATGGT
13113493 TAGCAATGTT
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
106 65 0.59
107 46 0.41
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (107 bp):
TATTATGGTACATACGCCATACTATATGAGATTACACAAGAAAGCATGCTTTTCCTTACAAAGTA
ACAGTTATTTGAACCCTCACTGTATTTGTATTTTAAATATTT
Found at i:13115488 original size:53 final size:53
Alignment explanation
Indices: 13115425--13115533 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
13115415 AAAAGTTAAA
13115425 CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
1 CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
13115478 CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
1 CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
13115531 CTT
1 CTT
13115534 CCCCCTCTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.04, C:0.19, G:0.20, T:0.57
Consensus pattern (53 bp):
CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
Found at i:13115535 original size:27 final size:27
Alignment explanation
Indices: 13115452--13115535 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
13115442 GTTGTTGTTG
13115452 TTCCTTTGTTTGTAATCGTTTTGCCCC
1 TTCCTTTGTTTGTAATCGTTTTGCCCC
* * ** ***
13115479 TT-GTTTGCTTTCTGCT-GTTGTTG-TTG
1 TTCCTTTG-TTTGTAATCGTT-TTGCCCC
13115505 TTCCTTTGTTTGTAATCGTTTTGCCCC
1 TTCCTTTGTTTGTAATCGTTTTGCCCC
13115532 TTCC
1 TTCC
13115536 CCCTCTGTAA
Statistics
Matches: 38, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
26 17 0.45
27 21 0.55
ACGTcount: A:0.05, C:0.23, G:0.18, T:0.55
Consensus pattern (27 bp):
TTCCTTTGTTTGTAATCGTTTTGCCCC
Found at i:13127963 original size:172 final size:178
Alignment explanation
Indices: 13127525--13127969 Score: 536
Period size: 180 Copynumber: 2.5 Consensus size: 178
13127515 TATTATCATA
* *
13127525 TCATTGATATGGTGTGTTTTAC--CGTTCTAAACCCCAGAGTGATAACATATTGTCAAACACGTT
1 TCATTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACATATTGTCAAACATGTT
* *
13127588 GAGTGCTCTTGGCTTATAAGGTCTGTGCATATGTTCATAGAATTCGGTGTATTGAGAGTCTACTG
66 GAGTGCTTTTGGCTTATAAGGTCCGTGCATATGTTCATAGAATTCGGTGTATTGAGAG--TAC-G
* * *
13127653 TATTTAATGGACGTATCATCATATCATCCATCCATCACGTTTAGAAGGTTT
128 TATTCAATGGACGCATCATCACATCATCCATCCATCACGTTTAGAAGGTTT
* * *
13127704 T-GTTGATATGGTGTGTTTTACTTTGTTCAAAACCCCAGATTGATAACATATTGTCAAACATGTT
1 TCATTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACATATTGTCAAACATGTT
* * *
13127768 GAGTG-TTATTGGCTTAGAAGGTCCGTGTATATGTTCATAGAATTTGGTGTATTG-G-G-A-GTA
66 GAGTGCTT-TTGGCTTATAAGGTCCGTGCATATGTTCATAGAATTCGGTGTATTGAGAGTACGTA
* ** *
13127828 TTCAATTGTTGCAT-TTC-CAT-AT-CATCCATCACGTTTAGAAGGTTTT
130 TTCAATGGACGCATCATCACATCATCCATCCATCACGTTTAGAAGG-TTT
* * * *
13127874 CTCATTGATATGGTGTGTTTTACTTTGTTCTAAGCCCCAGAGTGATAGCATATTGTCAATCGTGT
1 -TCATTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACATATTGTCAAACATGT
** *
13127939 TGAACGCTTTTGGGTTATAAGGTCCGTGCAT
65 TGAGTGCTTTTGGCTTATAAGGTCCGTGCAT
13127970 GTCAACATTG
Statistics
Matches: 230, Mismatches: 29, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
169 20 0.09
170 5 0.02
171 3 0.01
172 80 0.35
173 14 0.06
175 1 0.00
178 20 0.09
179 3 0.01
180 84 0.37
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (178 bp):
TCATTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACATATTGTCAAACATGTT
GAGTGCTTTTGGCTTATAAGGTCCGTGCATATGTTCATAGAATTCGGTGTATTGAGAGTACGTAT
TCAATGGACGCATCATCACATCATCCATCCATCACGTTTAGAAGGTTT
Found at i:13130076 original size:120 final size:120
Alignment explanation
Indices: 13129914--13130165 Score: 310
Period size: 120 Copynumber: 2.1 Consensus size: 120
13129904 GTGGGCAGTG
* * *
13129914 GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCTCCGTCTTCACCCCATGGGGAGCAGCTTTT
1 GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCCCCGTCTTCACCCCATGAGGAGCAGCTTTC
* * * *
13129979 TGATGGAGCCGCAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCT
66 CGATGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
* * * *
13130034 GCAGTGGCATTGGCAGCTCCTCT-GTTGGTAGAG-CCCCTGTCTTCATCCCATGATGAGCTGCTT
1 GCAGTGGCAGTGGCAGCTCCT-TGGTTGGTAGAGTCCCC-GTCTTCACCCCATGAGGAGCAGCTT
* * * * *
13130097 TCCGCTGGTGCCACAGTTCCACTTACATTGCTGAAGGCTTGAGACCGAAGCCCATCT
64 TCCGATGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
* *
13130154 CCAGTGGTAGTG
1 GCAGTGGCAGTG
13130166 ACATTGGCAT
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
119 3 0.03
120 107 0.96
121 1 0.01
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (120 bp):
GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCCCCGTCTTCACCCCATGAGGAGCAGCTTTC
CGATGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
Found at i:13130286 original size:138 final size:131
Alignment explanation
Indices: 13130035--13130681 Score: 527
Period size: 132 Copynumber: 4.9 Consensus size: 131
13130025 ACCCCACCTG
* * * * * * *
13130035 CAGTGGCATTGGCAGCTCCT-CTGTTGGTAGAGCCCCTGTCTTCATCCCATGATGAGCTGCTTTC
1 CAGTGGCATTGGAAGCT-CTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
* * * * * * *
13130099 CGCTGGTGCCACAGTTCCACTTACATTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAG
65 TGCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGA-TGAAGCCCATCTGCAGTGGTAG
13130164 TGA
129 TGA
* * *
13130167 CATTGGCATTGGCATTAGCAGCTCTGCAGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCCG
1 CAGTGGCATTGG----A--AGCTCTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTG
* * * *
13130232 CTTTTTGCTAGAGCCACAGTTCCACTTGTATAGCTCAAGGCTTGAGATAGAAGCCCATCTGCGGC
60 CTTTTTGCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGAT-GAAGCCCATCTGCAGT
*
13130297 GGTAGTGG
124 GGTAGTGA
* * * * * * *
13130305 TAGTGGCATTGGAAGTTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTTT
1 CAGTGGCATTGGAAGCTCTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTT
* * * *
13130370 GC-AGGAGCCACAGCTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATTTGCAGT-G--G
66 GCTA-GAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGA-TGAAGCCCATCTGCAGTGGTAG
13130431 T--
129 TGA
** * * * * *
13130432 -AGTGGC------AGCTCCACTGTTGGCAGAGCCCCACTCTTCGTCCCATGCTGGGCTGCTTTTT
1 CAGTGGCATTGGAAGCTCTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTT
* * * ** *
13130490 GCCAGAGCCACGGCTCCACTTGTGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTAGT
66 GCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGA-TGAAGCCCATCTGCAGTGGTAGT
*
13130555 GG
130 GA
* * * * *
13130557 CAGTGGCATTGGCAGCTCCT-C-TGTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTT
1 CAGTGGCATTGGAAGCT-CTGCAGGT-GGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTT
** **
13130620 TTGCCGGAGCCACAGTTCCACTTGCATTGCTCAACACTTGAGACTGAAGCCCAT-TGGCAGTG
64 TTGCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGA-TGAAGCCCATCT-GCAGTG
13130682 ACAGCATGTT
Statistics
Matches: 422, Mismatches: 67, Indels: 52
0.78 0.12 0.10
Matches are distributed among these distances:
120 97 0.23
121 2 0.00
123 2 0.00
126 12 0.03
129 2 0.00
131 4 0.01
132 193 0.46
133 2 0.00
134 1 0.00
137 2 0.00
138 105 0.25
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (131 bp):
CAGTGGCATTGGAAGCTCTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTT
GCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGATGAAGCCCATCTGCAGTGGTAGTG
A
Found at i:13130510 original size:252 final size:252
Alignment explanation
Indices: 13130201--13130681 Score: 662
Period size: 252 Copynumber: 1.9 Consensus size: 252
13130191 TGCAGGTGGT
* * * *
13130201 AGAGCCCCAGTTTTCATCCCATGCTGGGCCGCTTTTTGCTAGAGCCACAGTTCCACTTGTATAGC
1 AGAGCCCCACTCTTCATCCCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGC
* * *
13130266 TCAAGGCTTGAGA-TAGAAGCCCATCTGCGGCGGTAGTGGTAGTGGCATTGGAAG-TTCTGCTG-
66 TCAAGGCTTGAGACT-GAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCT-CTGT
* * ** *
13130328 GAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTTTGCAGGAGCCACAGCTCCACTTGC
129 G-GGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGC
* ** * *
13130393 GTTGCTCAAGGCTTGAGACTGAATCCCATTTGCAGTGGTAGTGGCAGCTCCACTGTTGGC
193 ATTGCTCAACACTTGAGACTGAAGCCCATTGGCAGTGGTAGTGGCAGCTCCACTGTTGGC
* * * * *
13130453 AGAGCCCCACTCTTCGTCCCATGCTGGGCTGCTTTTTGCCAGAGCCACGGCTCCACTTGTGTTGC
1 AGAGCCCCACTCTTCATCCCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGC
* * *
13130518 TCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGCAGTGGCATTGGCAGCTCCTCTGTGG
66 TCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCTCTGTGG
* * *
13130583 GCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTGCCGGAGCCACAGTTCCACTTGCATT
131 GCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGCATT
13130648 GCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
196 GCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
13130682 ACAGCATGTT
Statistics
Matches: 198, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
252 193 0.97
253 5 0.03
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (252 bp):
AGAGCCCCACTCTTCATCCCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGC
TCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCTCTGTGG
GCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGCATT
GCTCAACACTTGAGACTGAAGCCCATTGGCAGTGGTAGTGGCAGCTCCACTGTTGGC
Found at i:13132778 original size:4 final size:5
Alignment explanation
Indices: 13132751--13132779 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
13132741 GCGAAACAAT
13132751 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
13132780 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:13136042 original size:22 final size:22
Alignment explanation
Indices: 13136008--13136059 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
13135998 AAGTTTGAAC
13136008 ATATTTGTAGGAATATTCTGTAA
1 ATATTT-TAGGAATATTCTGTAA
* *
13136031 ATATTTTAGGAATATTTTGTAG
1 ATATTTTAGGAATATTCTGTAA
13136053 ATATTTT
1 ATATTTT
13136060 CTTTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (22 bp):
ATATTTTAGGAATATTCTGTAA
Found at i:13136044 original size:11 final size:12
Alignment explanation
Indices: 13136008--13136052 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
13135998 AAGTTTGAAC
13136008 ATATTTGTAGGA
1 ATATTTGTAGGA
13136020 ATATTCTGTA--A
1 ATATT-TGTAGGA
13136031 ATATTT-TAGGA
1 ATATTTGTAGGA
13136042 ATATTTTGTAG
1 ATA-TTTGTAG
13136053 ATATTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
9 2 0.07
10 1 0.04
11 10 0.36
12 8 0.29
13 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (12 bp):
ATATTTGTAGGA
Found at i:13139120 original size:22 final size:22
Alignment explanation
Indices: 13139092--13139136 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13139082 AGGGGGAGTG
13139092 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
13139114 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
13139136 T
1 T
13139137 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:13140216 original size:13 final size:14
Alignment explanation
Indices: 13140200--13140235 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
13140190 CAATCTCATA
13140200 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
13140213 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
13140226 TCTC-ATTTCA
1 TCTCAATTTCA
13140236 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:13140225 original size:18 final size:19
Alignment explanation
Indices: 13140187--13140227 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
13140177 TGGTTCATGT
13140187 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
13140206 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
13140224 TTTC
1 TTTC
13140228 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:13140417 original size:39 final size:38
Alignment explanation
Indices: 13140350--13140484 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
13140340 ACCAATATGG
* * *
13140350 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
13140389 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
13140427 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
13140468 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
13140485 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:13140750 original size:18 final size:19
Alignment explanation
Indices: 13140724--13140762 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13140714 TTTCAATTCA
13140724 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
13140743 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
13140761 AT
1 AT
13140763 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:13142088 original size:5 final size:5
Alignment explanation
Indices: 13142078--13142134 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
13142068 TTACTTATTT
* *
13142078 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
13142126 ATAT- ATATA
1 ATATA ATATA
13142135 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:13142094 original size:12 final size:12
Alignment explanation
Indices: 13142077--13142132 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
13142067 TTTACTTATT
13142077 TATATAATATAA
1 TATATAATATAA
13142089 TATATAATATAATA
1 TATATAATAT-A-A
13142103 TACTATAATATAA
1 TA-TATAATATAA
*
13142116 TA-ATAATTTAA
1 TATATAATATAA
13142127 TATATA
1 TATATA
13142133 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:13142147 original size:26 final size:26
Alignment explanation
Indices: 13142079--13142134 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
13142069 TACTTATTTA
*
13142079 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
13142106 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
13142131 TATA
1 TATA
13142135 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:13149436 original size:7 final size:7
Alignment explanation
Indices: 13149424--13149453 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13149414 TCTCTCTCTC
13149424 TCTGTTT
1 TCTGTTT
13149431 TCTGTTT
1 TCTGTTT
13149438 TCTGTTT
1 TCTGTTT
13149445 TCTGTTT
1 TCTGTTT
13149452 TC
1 TC
13149454 CTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.13, T:0.70
Consensus pattern (7 bp):
TCTGTTT
Found at i:13149466 original size:21 final size:21
Alignment explanation
Indices: 13149424--13149466 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13149414 TCTCTCTCTC
*
13149424 TCTGTTTTCTGTTTTCTGTTT
1 TCTGTTTTCTGTTTTCTCTTT
*
13149445 TCTGTTTTCCT-TTTTTTCTTT
1 TCTGTTTT-CTGTTTTCTCTTT
13149466 T
1 T
13149467 TTATTTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.74
Consensus pattern (21 bp):
TCTGTTTTCTGTTTTCTCTTT
Found at i:13151431 original size:27 final size:27
Alignment explanation
Indices: 13151401--13151455 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13151391 ATTTATAAAG
13151401 TAAAACACCAAATAATGTTGTAAATTT
1 TAAAACACCAAATAATGTTGTAAATTT
13151428 TAAAACACCAAATAATGTTGTAAATTT
1 TAAAACACCAAATAATGTTGTAAATTT
13151455 T
1 T
13151456 TAGTATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (27 bp):
TAAAACACCAAATAATGTTGTAAATTT
Found at i:13152602 original size:10 final size:10
Alignment explanation
Indices: 13152587--13152618 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
13152577 CCTTAAATGG
13152587 TCAACCCAAC
1 TCAACCCAAC
13152597 TCAACCCAAC
1 TCAACCCAAC
13152607 TCAACCCAAC
1 TCAACCCAAC
13152617 TC
1 TC
13152619 TCCTCTCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (10 bp):
TCAACCCAAC
Found at i:13158373 original size:24 final size:24
Alignment explanation
Indices: 13158322--13158389 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
13158312 CTTTTTCCTT
* *
13158322 GTTTTTA-ATTTTTATATATTT-TA
1 GTTTTTATAATTTAATAT-TTTATA
13158345 G-TTTTATAATTTAATATTTTATA
1 GTTTTTATAATTTAATATTTTATA
*
13158368 GTTTTTGTAATTTAAT-TTTTAT
1 GTTTTTATAATTTAATATTTTAT
13158390 TTCATAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 8 0.21
23 18 0.46
24 13 0.33
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (24 bp):
GTTTTTATAATTTAATATTTTATA
Found at i:13159650 original size:30 final size:30
Alignment explanation
Indices: 13159593--13159651 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13159583 CTCATTCAAC
* * *
13159593 TAATTTTTTTATATATATTTTAATACATTT
1 TAATTTTATTATACATACTTTAATACATTT
* *
13159623 TAATTTTATTATGCATACTTTATTACATT
1 TAATTTTATTATACATACTTTAATACATT
13159652 CATTAGTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (30 bp):
TAATTTTATTATACATACTTTAATACATTT
Found at i:13160852 original size:17 final size:19
Alignment explanation
Indices: 13160832--13160872 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
13160822 ATAATTTTAG
*
13160832 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
13160849 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
13160867 AAAATA
1 AAAATA
13160873 AATATTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:13160990 original size:30 final size:30
Alignment explanation
Indices: 13160955--13161016 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
13160945 CTTAACAAGT
13160955 AAATGTCTCTAAAACAATAACAAAATTAAC
1 AAATGTCTCTAAAACAATAACAAAATTAAC
* * *
13160985 AAATGTCTTTAAAATAATAATAAAATTAAC
1 AAATGTCTCTAAAACAATAACAAAATTAAC
13161015 AA
1 AA
13161017 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGTCTCTAAAACAATAACAAAATTAAC
Found at i:13161609 original size:335 final size:339
Alignment explanation
Indices: 13160985--13161610 Score: 802
Period size: 340 Copynumber: 1.8 Consensus size: 339
13160975 CAAAATTAAC
* *
13160985 AAATGTCTTTAAAATAATAATAAAATTAACAATAAAATAAGTTTTATACAATATCCAGATAATAA
1 AAATGTCTTTAAAATAATAACAAAATTAACAATAAAACAAGTTTTATACAATATCC----AATAA
* * * * * *
13161050 CGACAAAATAATAGTAACATAATATTAAAATAGTAGCAAAATAGGGAGAAAATAACAAGAAAATA
62 CAACAAAATAATAATAACATAATAGTAAAATAGTAGCAAAATAGAGAGAAAAAAACAAGAAAAAA
* **
13161115 ATATTAAAAAACTCAAATTTTTTTTGTCCTTTAGTGAATTCATGCCAGGCCGGGGCTGGGCCAAA
127 ATATTAAAAAAATCAAATTTTTTTTGTCCTTTAGTGAATT-ATG-C-GGCCGAAGCTGGGCCAAA
* * *** *
13161180 AATGTCTTACCCGAGGCCCGTTTGTTTTTAAATGGGCCTTATTTTTTTGTCCAAACTCATTTTTC
189 AATGCCTTACCCGAGCCCCCCATGTTTTTAAATGGACCTTATTTTTTTGTCCAAACTCATTTTTC
* *
13161245 GAGCCTATATTTTTGCCCAAATCCTCCCACATTTTGGGCGGGCATTCACCTCTAAATAAAATTAA
254 GAACCTATATTTTTACCCAAATCCTCCCACATTTTGGGCGGGCATTCACCTCTAAATAAAATTAA
13161310 GATAGATGCAACTTAACAAGT
319 GATAGATGCAACTTAACAAGT
*
13161331 AAATGTCTTTAAAATAATAACAAAATTAACAATAAAACAAGTTTTATACAATATCC-A-AACAAT
1 AAATGTCTTTAAAATAATAACAAAATTAACAATAAAACAAGTTTTATACAATATCCAATAACAAC
* * *
13161394 AAAATAGTAATAACATAATAGTAACATAGTAGCAAAATAGAGAGAAAAAAATAAGAAAAAAATAT
66 AAAATAATAATAACATAATAGTAAAATAGTAGCAAAATAGAGAGAAAAAAACAAGAAAAAAATAT
* *
13161459 TAAAAAAAT-AGA-TTTTTTTGTCCTTTAGTGGATT-TG-GGCC-AAGCTCGGGCCAAAAATGCC
131 TAAAAAAATCAAATTTTTTTTGTCCTTTAGTGAATTATGCGGCCGAAGCT-GGGCCAAAAATGCC
** * * *
13161519 TTACTTGAAGCCCAACCCAT-TTTTTAAATGGATCTTATTTTTTTGTCCAAGCTCATTTTTTGAA
195 TTACCCG-AGCCC--CCCATGTTTTTAAATGGACCTTATTTTTTTGTCCAAACTCATTTTTCGAA
*
13161583 CCTATATTTTTATCCAAA-CTCTCCCACA
257 CCTATATTTTTACCCAAATC-CTCCCACA
13161611 GTTCGGGCAG
Statistics
Matches: 244, Mismatches: 31, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
332 3 0.01
333 22 0.09
334 5 0.02
335 63 0.26
336 4 0.02
338 21 0.09
339 2 0.01
340 69 0.28
341 1 0.00
346 54 0.22
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (339 bp):
AAATGTCTTTAAAATAATAACAAAATTAACAATAAAACAAGTTTTATACAATATCCAATAACAAC
AAAATAATAATAACATAATAGTAAAATAGTAGCAAAATAGAGAGAAAAAAACAAGAAAAAAATAT
TAAAAAAATCAAATTTTTTTTGTCCTTTAGTGAATTATGCGGCCGAAGCTGGGCCAAAAATGCCT
TACCCGAGCCCCCCATGTTTTTAAATGGACCTTATTTTTTTGTCCAAACTCATTTTTCGAACCTA
TATTTTTACCCAAATCCTCCCACATTTTGGGCGGGCATTCACCTCTAAATAAAATTAAGATAGAT
GCAACTTAACAAGT
Found at i:13164425 original size:42 final size:43
Alignment explanation
Indices: 13164366--13164458 Score: 122
Period size: 42 Copynumber: 2.2 Consensus size: 43
13164356 GCTGGTTAAC
* *
13164366 AAGTGTTTGTGGAAATGTCA-C-TGAGGTTAATATA-ATCAATAA
1 AAGTGTTTGTGAAAATGTCACCGTGA-GTT-ATAAAGATCAATAA
13164408 AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
1 AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
13164451 AA-TGTTTG
1 AAGTGTTTG
13164459 CTACTGCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 29 0.63
43 14 0.30
44 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (43 bp):
AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
Found at i:13172283 original size:127 final size:127
Alignment explanation
Indices: 13172054--13172286 Score: 349
Period size: 127 Copynumber: 1.8 Consensus size: 127
13172044 TGAAATACAA
* *
13172054 GTTCAAAGAACAAAAAGAACCTAATTGCCATAAACTTGACAACTAAATCCATTTTGATCCTAGAA
1 GTTCAAAGAACAAAAAGAACCTAATTACCATAAAATTGACAACTAAATCCATTTTGATCCTAGAA
* * * *
13172119 ATTGACAAATGTATACATTTAATAATGTAACATTATAAGATACCATGCCATCACCTTCAGAT
66 ATTAACAAATGTATACATTCAATAACGTAACACTATAAGATACCATGCCATCACCTTCAGAT
** * * *
13172181 GTTCAAAGGCCAAAATGAACCTAATTACCATAAAATTGACAACTAAATCCATTTTGATCCTTGCA
1 GTTCAAAGAACAAAAAGAACCTAATTACCATAAAATTGACAACTAAATCCATTTTGATCCTAGAA
* *
13172246 ATTAACAAATGTATACGTTCAATGACGTAACACTATAAGAT
66 ATTAACAAATGTATACATTCAATAACGTAACACTATAAGAT
13172287 TGTACCCTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
127 93 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (127 bp):
GTTCAAAGAACAAAAAGAACCTAATTACCATAAAATTGACAACTAAATCCATTTTGATCCTAGAA
ATTAACAAATGTATACATTCAATAACGTAACACTATAAGATACCATGCCATCACCTTCAGAT
Found at i:13172523 original size:191 final size:191
Alignment explanation
Indices: 13172190--13172549 Score: 528
Period size: 191 Copynumber: 1.9 Consensus size: 191
13172180 TGTTCAAAGG
*
13172190 CCAAAATGAACCTAATTACCATAAAATTGACAACTAAATCCATTTTGATCCTTGCAATTAACAAA
1 CCAAAATGAACCTAATTACCATAAAATTGACAACTAAATCCATTTTGATCCTTGAAATTAACAAA
* ** *
13172255 TGTATACGTTCAATGACGTAACACTATAAGATTGTACCCTGTCATCACCTTTAGGTGTCACATTA
66 TGCATAAATTCAATGACGTAACACTATAAGATTGTACCCTGTCATCACCTTTAGGAGTCACATTA
*
13172320 TCAAACTTTGATGAAATACAAGTTCAAAGACCAAAATGAGCCTAATTGTCAAGTTCAGACA
131 TCAAACTTTGATGAAATACAAGTTCAAACACCAAAATGAGCCTAATTGTCAAGTTCAGACA
* * * *
13172381 CCAAAGTGAACCTACTTGCCAT-AAATGTGACAACTAAATCCATTTTGA-CACTTGAAATTGACA
1 CCAAAATGAACCTAATTACCATAAAAT-TGACAACTAAATCCATTTTGATC-CTTGAAATTAACA
* * * *
13172444 AATGCATAAATTTAATGATGTGACACTATAAGATTGTA-CCAGTTCATCACCTTTAGGAGTCACA
64 AATGCATAAATTCAATGACGTAACACTATAAGATTGTACCCTG-TCATCACCTTTAGGAGTCACA
* *
13172508 TTATCAAATTTTGATGAAATTCAAGTTCAAACACCAAAATGA
128 TTATCAAACTTTGATGAAATACAAGTTCAAACACCAAAATGA
13172550 ACATAATTAC
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
190 8 0.05
191 142 0.95
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.29
Consensus pattern (191 bp):
CCAAAATGAACCTAATTACCATAAAATTGACAACTAAATCCATTTTGATCCTTGAAATTAACAAA
TGCATAAATTCAATGACGTAACACTATAAGATTGTACCCTGTCATCACCTTTAGGAGTCACATTA
TCAAACTTTGATGAAATACAAGTTCAAACACCAAAATGAGCCTAATTGTCAAGTTCAGACA
Found at i:13172633 original size:160 final size:160
Alignment explanation
Indices: 13172368--13172665 Score: 415
Period size: 160 Copynumber: 1.9 Consensus size: 160
13172358 AGCCTAATTG
* * * * *
13172368 TCAAGTTCAGACACCAAAGTGAACCTACTTGCCATAAATGTGACAACTAAATCCATTTTGACACT
1 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAATGTGACAACTAAATCCATTTTGACACT
* * **
13172433 TGAAATTGACAAATGCATAAATTTAATGATGTGACACTATAAGATTGTACCA-GTTCATCACCTT
66 TCAAATTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATG-TCATCACCTT
13172497 TAGGAGTCACATTATCAAATTTTGATGAAAT
130 TAGGAGTCACATTATCAAATTTTGATGAAAT
13172528 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAACT-TGACAACTAAATCCATTTTGATC-
1 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAA-TGTGACAACTAAATCCATTTTGA-CA
* * *
13172591 C-TCAAATTTGACAAATGTATAAGTTAAATGACATGGCACTATAAGATTGTACCATGTCATCACC
64 CTTCAAA-TTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATGTCATCACC
*
13172655 TTTAGGTGTCA
128 TTTAGGAGTCA
13172666 GTTATCTTCA
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
159 4 0.03
160 114 0.94
161 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (160 bp):
TCAAGTTCAAACACCAAAATGAACATAATTACCATAAATGTGACAACTAAATCCATTTTGACACT
TCAAATTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATGTCATCACCTTT
AGGAGTCACATTATCAAATTTTGATGAAAT
Found at i:13174494 original size:13 final size:13
Alignment explanation
Indices: 13174478--13174504 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13174468 TGATATCTAA
13174478 ATTTGATAAAAAT
1 ATTTGATAAAAAT
13174491 ATTTGATAAAAAT
1 ATTTGATAAAAAT
13174504 A
1 A
13174505 AAGTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
ATTTGATAAAAAT
Found at i:13174542 original size:17 final size:17
Alignment explanation
Indices: 13174522--13174554 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13174512 ATAAATGCAA
13174522 TATCTAAATATAAATAG
1 TATCTAAATATAAATAG
*
13174539 TATCTAAATATTAATA
1 TATCTAAATATAAATA
13174555 TGGTGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
TATCTAAATATAAATAG
Found at i:13177071 original size:12 final size:12
Alignment explanation
Indices: 13177042--13177078 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
13177032 TCGTGATATA
13177042 AATTTAATATTGT
1 AATTTAATATT-T
13177055 AATTTAATATTT
1 AATTTAATATTT
*
13177067 AATTTATTATTT
1 AATTTAATATTT
13177079 TAGTACTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (12 bp):
AATTTAATATTT
Found at i:13177080 original size:13 final size:13
Alignment explanation
Indices: 13177042--13177080 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
13177032 TCGTGATATA
*
13177042 AATTTAATATTGT
1 AATTTAATATTTT
13177055 AATTTAATA-TTT
1 AATTTAATATTTT
*
13177067 AATTTATTATTTT
1 AATTTAATATTTT
13177080 A
1 A
13177081 GTACTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
AATTTAATATTTT
Found at i:13182874 original size:12 final size:12
Alignment explanation
Indices: 13182857--13182919 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
13182847 GAAAACACCA
*
13182857 TATATATGTATG
1 TATATATATATG
13182869 TATATATATATG
1 TATATATATATG
*
13182881 TACATATATATG
1 TATATATATATG
* * *
13182893 TATGTATGTATA
1 TATATATATATG
*
13182905 TATATA-AAATG
1 TATATATATATG
13182916 TATA
1 TATA
13182920 AACTGTGTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 6 0.15
12 35 0.85
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (12 bp):
TATATATATATG
Found at i:13182877 original size:16 final size:16
Alignment explanation
Indices: 13182856--13182910 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
13182846 AGAAAACACC
13182856 ATATATATGTATGTAT
1 ATATATATGTATGTAT
**
13182872 ATATATATGTACATAT
1 ATATATATGTATGTAT
*
13182888 ATATGTATGTATGTAT
1 ATATATATGTATGTAT
13182904 ATATATA
1 ATATATA
13182911 AAATGTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (16 bp):
ATATATATGTATGTAT
Found at i:13183972 original size:22 final size:19
Alignment explanation
Indices: 13183947--13183994 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
13183937 ACTCAACTAT
13183947 CAAATTTAAAAATTTGAAGAAC
1 CAAATTTAAAAA-TTG-A-AAC
*
13183969 CAAA-TTGAAAATTGAAAC
1 CAAATTTAAAAATTGAAAC
13183987 CAAATTTA
1 CAAATTTA
13183995 GATACCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 7 0.30
19 3 0.13
20 3 0.13
21 6 0.26
22 4 0.17
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.27
Consensus pattern (19 bp):
CAAATTTAAAAATTGAAAC
Found at i:13190214 original size:23 final size:23
Alignment explanation
Indices: 13190156--13190214 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
13190146 TTAATCACTC
* *
13190156 AATTTAAAAATGATTAAAAATATT
1 AATTTAAAAA-AATAAAAAATATT
** * *
13190180 TTTTTTATAAAATAAAAAATATT
1 AATTTAAAAAAATAAAAAATATT
13190203 AATTTAAAAAAA
1 AATTTAAAAAAA
13190215 GTATTTTTAT
Statistics
Matches: 25, Mismatches: 10, Indels: 1
0.69 0.28 0.03
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AATTTAAAAAAATAAAAAATATT
Found at i:13191049 original size:18 final size:19
Alignment explanation
Indices: 13191028--13191067 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
13191018 AAAAACTAAA
*
13191028 AAATCTTTAAA-AATATAT
1 AAATCTATAAAGAATATAT
*
13191046 AAATCTATAAAGTATATAT
1 AAATCTATAAAGAATATAT
13191065 AAA
1 AAA
13191068 AGCTCAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (19 bp):
AAATCTATAAAGAATATAT
Found at i:13196638 original size:17 final size:16
Alignment explanation
Indices: 13196610--13196652 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 16
13196600 TTATAAAAAA
13196610 TAAAAAATATAATTATTT
1 TAAAAAATATAA-T-TTT
13196628 TAAAAAA-ATAATTTT
1 TAAAAAATATAATTTT
13196643 TAAAAAATAT
1 TAAAAAATAT
13196653 CTACGTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.42
16 3 0.12
17 4 0.17
18 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAAAATATAATTTT
Found at i:13197841 original size:15 final size:15
Alignment explanation
Indices: 13197821--13197850 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13197811 TTAACCCTAG
*
13197821 TCCAAGGCATGCAAT
1 TCCAAGCCATGCAAT
13197836 TCCAAGCCATGCAAT
1 TCCAAGCCATGCAAT
13197851 ATTGTGTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (15 bp):
TCCAAGCCATGCAAT
Found at i:13198974 original size:2 final size:2
Alignment explanation
Indices: 13198969--13199002 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
13198959 TGAATTGGGA
*
13198969 AT AT AT AT AT AT AT AT AA AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13199003 AAACACATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:13206443 original size:17 final size:17
Alignment explanation
Indices: 13206421--13206454 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13206411 ATCCACTAAT
*
13206421 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
13206438 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
13206455 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:13211082 original size:17 final size:17
Alignment explanation
Indices: 13211060--13211093 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13211050 ATCCACTAAT
*
13211060 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
13211077 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
13211094 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:13216578 original size:56 final size:56
Alignment explanation
Indices: 13216510--13216631 Score: 235
Period size: 56 Copynumber: 2.2 Consensus size: 56
13216500 TTCGATTATG
13216510 AACTATAAAATGAACATTAATAAAAAAGAAGAAGTAAATTATACTAACATTCACTC
1 AACTATAAAATGAACATTAATAAAAAAGAAGAAGTAAATTATACTAACATTCACTC
*
13216566 TACTATAAAATGAACATTAATAAAAAAGAAGAAGTAAATTATACTAACATTCACTC
1 AACTATAAAATGAACATTAATAAAAAAGAAGAAGTAAATTATACTAACATTCACTC
13216622 AACTATAAAA
1 AACTATAAAA
13216632 AATTACAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.25
Consensus pattern (56 bp):
AACTATAAAATGAACATTAATAAAAAAGAAGAAGTAAATTATACTAACATTCACTC
Found at i:13217257 original size:3 final size:3
Alignment explanation
Indices: 13217249--13217273 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13217239 GCTCTTCTAG
13217249 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
13217274 ATTTTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13222195 original size:2 final size:2
Alignment explanation
Indices: 13222190--13222220 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13222180 TGAGATTGTA
13222190 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13222221 AATTAATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13229019 original size:29 final size:30
Alignment explanation
Indices: 13228967--13229048 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 30
13228957 AGAATTGAAT
* *
13228967 CAAATCAAAATTTCATGTATAAAATTACTTA
1 CAAATCAAAA-TTCATATATAAAATTACATA
*
13228998 C-AATCAAAATTCATATGTAAAATTACATA
1 CAAATCAAAATTCATATATAAAATTACATA
*
13229027 CTAAACCAAAATTCATATATAA
1 C-AAATCAAAATTCATATATAA
13229049 TTTTAAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 18 0.41
30 8 0.18
31 18 0.41
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (30 bp):
CAAATCAAAATTCATATATAAAATTACATA
Done.