Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 42 of 161
Found at i:12818239 original size:20 final size:20
Alignment explanation
Indices: 12818214--12818251 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12818204 GAGCTAGAGA
12818214 TATCGATACCAAATAAAATT
1 TATCGATACCAAATAAAATT
*
12818234 TATCGATACTAAATAAAA
1 TATCGATACCAAATAAAA
12818252 GGTATTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (20 bp):
TATCGATACCAAATAAAATT
Found at i:12818261 original size:20 final size:20
Alignment explanation
Indices: 12818214--12818263 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
12818204 GAGCTAGAGA
* **
12818214 TATCGATACCAAATAAAATT
1 TATCGATACTAAATAAAAGG
12818234 TATCGATACTAAATAAAAGG
1 TATCGATACTAAATAAAAGG
*
12818254 TATTGATACT
1 TATCGATACT
12818264 GGATCAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (20 bp):
TATCGATACTAAATAAAAGG
Found at i:12819574 original size:33 final size:32
Alignment explanation
Indices: 12819537--12819613 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
12819527 TGACCCTGCC
** * **
12819537 ATGGTCTTACATTTGTAGTGTCATAACCCAGTT
1 ATGGTCTTACATCAG-AATGTCATAACCCAACT
*
12819570 ATGGTCTTATCATCAGAATGTCATATCCCAACT
1 ATGGTCTTA-CATCAGAATGTCATAACCCAACT
12819603 ATGGTCTTACA
1 ATGGTCTTACA
12819614 CATGTATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGTCATAACCCAACT
Found at i:12819677 original size:105 final size:101
Alignment explanation
Indices: 12819558--12819751 Score: 262
Period size: 105 Copynumber: 1.9 Consensus size: 101
12819548 TTTGTAGTGT
* * * * *
12819558 CATAACCCAGTTATGGTCTTATCATCAGAATGTCATATCCCAACTATGGTCTTACACATGTATAT
1 CATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGTCTT--ACAT-T-TAA
*
12819623 ATACTACCATGGTCCAACCATGGTCTTACGTTCAAGGTGC
62 ACACTACCATGGTCCAACCATGGTCTTACGTTCAAGGTGC
* * *
12819663 CATAACCCAATTATGGTCTTTTCATTAAAATGCCATAGCCCAACTATGGTCTTACATTTAAACAT
1 CATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGTCTTACATTTAAACAC
*
12819728 TGCCATGGTCCAACCATGGTCTTA
66 TACCATGGTCCAACCATGGTCTTA
12819752 TCCGTCAATT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 27 0.34
102 1 0.01
103 4 0.05
105 47 0.59
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (101 bp):
CATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGTCTTACATTTAAACAC
TACCATGGTCCAACCATGGTCTTACGTTCAAGGTGC
Found at i:12819724 original size:33 final size:33
Alignment explanation
Indices: 12819636--12819751 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 33
12819626 CTACCATGGT
* * ** *
12819636 CCAACCATGGTCTTACGTTCAAGGTGCCATAAC
1 CCAACCATGGTCTTACATTTAAAATGCCATAGC
** *
12819669 CCAATTATGGTCTTTTCA-TTAAAATGCCATAGC
1 CCAACCATGGTC-TTACATTTAAAATGCCATAGC
* * *
12819702 CCAACTATGGTCTTACATTTAAACATTGCCATGGT
1 CCAACCATGGTCTTACATTTAAA-A-TGCCATAGC
12819737 CCAACCATGGTCTTA
1 CCAACCATGGTCTTA
12819752 TCCGTCAATT
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
32 4 0.06
33 37 0.56
34 4 0.06
35 21 0.32
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (33 bp):
CCAACCATGGTCTTACATTTAAAATGCCATAGC
Found at i:12843436 original size:40 final size:40
Alignment explanation
Indices: 12843347--12843610 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
12843337 TTGAATGATG
* *
12843347 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
12843386 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
12843426 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
12843465 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
12843505 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
12843545 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
12843586 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
12843611 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:12843628 original size:120 final size:118
Alignment explanation
Indices: 12843347--12843643 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
12843337 TTGAATGATG
* *
12843347 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
12843407 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
12843465 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
12843530 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
12843586 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
12843644 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:12856096 original size:24 final size:24
Alignment explanation
Indices: 12856069--12856123 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
12856059 CAACTTTTTT
*
12856069 CTCTTCCT-CTTTGGTATCTCCTTC
1 CTCTTCCTACTCTGGTATC-CCTTC
12856093 CTCTT-CTAGCTCTGGTATCCCTTC
1 CTCTTCCTA-CTCTGGTATCCCTTC
*
12856117 CTGTTCC
1 CTCTTCC
12856124 CTCACCGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 2 0.08
24 14 0.54
25 10 0.38
ACGTcount: A:0.05, C:0.38, G:0.11, T:0.45
Consensus pattern (24 bp):
CTCTTCCTACTCTGGTATCCCTTC
Found at i:12856285 original size:6 final size:6
Alignment explanation
Indices: 12856274--12856334 Score: 77
Period size: 6 Copynumber: 10.0 Consensus size: 6
12856264 GTACCCACAA
* * *
12856274 GGTGGT GGTGGTT GATGTT GGTGTT GGTGTT GGTGCT GGTGTT GGTGTT
1 GGTGTT GGT-GTT GGTGTT GGTGTT GGTGTT GGTGTT GGTGTT GGTGTT
*
12856323 GGTGTT GTTGTT
1 GGTGTT GGTGTT
12856335 TCTGCTGCTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
6 44 0.92
7 4 0.08
ACGTcount: A:0.02, C:0.02, G:0.49, T:0.48
Consensus pattern (6 bp):
GGTGTT
Found at i:12868355 original size:5 final size:5
Alignment explanation
Indices: 12868317--12868351 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
12868307 GGTTTTGGCT
* *
12868317 TTTGA TTTGG TTTGG TTTGG TTTGG TTTGG ATTGG
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG
12868352 ATTGTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.06, C:0.00, G:0.37, T:0.57
Consensus pattern (5 bp):
TTTGG
Found at i:12872131 original size:24 final size:24
Alignment explanation
Indices: 12872104--12872167 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
12872094 GCTCATGTGG
* * *
12872104 GCCAATAATGGGTAGCTCTGAAGA
1 GCCAATAACGGGAAGCTCCGAAGA
* *
12872128 GCCATTAACGGGAAGCTCCGAATA
1 GCCAATAACGGGAAGCTCCGAAGA
*
12872152 GCCATATATCGGGAAG
1 GCCA-ATAACGGGAAG
12872168 TTCAAGCGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (24 bp):
GCCAATAACGGGAAGCTCCGAAGA
Found at i:12877294 original size:69 final size:69
Alignment explanation
Indices: 12877206--12877441 Score: 258
Period size: 69 Copynumber: 3.4 Consensus size: 69
12877196 TGTTTTGACA
* * * * * *
12877206 GACTCTATTGGTTGTCATAGCTAAGCTATGGTCTTACACATTAAAATCCCCGTGTTTATTGTCCC
1 GACTCTATTGGTTGTCATAGCCAAGCTATGGTCTTACACCTTGAAATCCTCGTGTTTACTGTCCA
12877271 GATG
66 GATG
* ** *** * *
12877275 AACTCTATTGGTT-TCCATAGCTGAGCTATGAAATTACACCTTGAAATCTTTGTGTTTACTGTCC
1 GACTCTATTGGTTGT-CATAGCCAAGCTATGGTCTTACACCTTGAAATCCTCGTGTTTACTGTCC
* *
12877339 TGGTG
65 AGATG
* * * *
12877344 GACTCTATTGGTTGTCATAGCCAAACTATGGTCTTTCACCTTGAAATCCTCGTGTTTACTATCTA
1 GACTCTATTGGTTGTCATAGCCAAGCTATGGTCTTACACCTTGAAATCCTCGTGTTTACTGTCCA
12877409 GATG
66 GATG
**
12877413 GACTCTATTGGTTACCATAGCCAAGCTAT
1 GACTCTATTGGTTGTCATAGCCAAGCTAT
12877442 AGCATTACAC
Statistics
Matches: 135, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
68 1 0.01
69 133 0.99
70 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (69 bp):
GACTCTATTGGTTGTCATAGCCAAGCTATGGTCTTACACCTTGAAATCCTCGTGTTTACTGTCCA
GATG
Found at i:12884554 original size:21 final size:21
Alignment explanation
Indices: 12884528--12884593 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
12884518 AAAGGATTGT
12884528 GGAAAGTCTTTGAACTCTATG
1 GGAAAGTCTTTGAACTCTATG
** ** *
12884549 GGAAAGT-GGTG-GGT-TCT-
1 GGAAAGTCTTTGAACTCTATG
12884566 GGAAAGTCTTTGAACTCTATG
1 GGAAAGTCTTTGAACTCTATG
12884587 GGAAAGT
1 GGAAAGT
12884594 GCTGGGTTCT
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 2 0.06
20 4 0.13
21 14 0.45
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (21 bp):
GGAAAGTCTTTGAACTCTATG
Found at i:12884578 original size:38 final size:38
Alignment explanation
Indices: 12884527--12884603 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
12884517 GAAAGGATTG
*
12884527 TGGAAAGTCTTTGAACTCTATGGGAAAGTGGTGGGTTC
1 TGGAAAGTCTTTGAACTCTATGGGAAAGTGCTGGGTTC
12884565 TGGAAAGTCTTTGAACTCTATGGGAAAGTGCTGGGTTC
1 TGGAAAGTCTTTGAACTCTATGGGAAAGTGCTGGGTTC
12884603 T
1 T
12884604 TTCAATCCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.32
Consensus pattern (38 bp):
TGGAAAGTCTTTGAACTCTATGGGAAAGTGCTGGGTTC
Found at i:12886989 original size:19 final size:19
Alignment explanation
Indices: 12886921--12887001 Score: 92
Period size: 19 Copynumber: 4.2 Consensus size: 19
12886911 GTATCAAGGA
*
12886921 GCACCAAGGTGCTAAACAGG
1 GCACCAAAGTGC-AAACAGG
* *
12886941 GCA-CAAATGTGCATACAGAA
1 GCACCAAA-GTGCAAACAG-G
12886961 GCACCAAAGTGCAAACAGG
1 GCACCAAAGTGCAAACAGG
*
12886980 GCACCGAAGTGCAAACAGG
1 GCACCAAAGTGCAAACAGG
12886999 GCA
1 GCA
12887002 GTGAATTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
19 29 0.56
20 19 0.37
21 4 0.08
ACGTcount: A:0.40, C:0.25, G:0.27, T:0.09
Consensus pattern (19 bp):
GCACCAAAGTGCAAACAGG
Found at i:12886992 original size:39 final size:40
Alignment explanation
Indices: 12886920--12886997 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
12886910 AGTATCAAGG
* *
12886920 AGCACCAAGGTGCTAAACAGGGCACAAATGTGCATACAGA
1 AGCACCAAAGTGCTAAACAGGGCACAAATGTGCAAACAGA
*
12886960 AGCACCAAAGTGC-AAACAGGGCACCGAA-GTGCAAACAG
1 AGCACCAAAGTGCTAAACAGGGCA-CAAATGTGCAAACAG
12886998 GGCAGTGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 19 0.56
40 15 0.44
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (40 bp):
AGCACCAAAGTGCTAAACAGGGCACAAATGTGCAAACAGA
Found at i:12887065 original size:37 final size:41
Alignment explanation
Indices: 12887023--12887135 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 41
12887013 AATAGGGCAC
* *
12887023 AAATGTGCAATTAGGAGCACCGTAGTGC-AA-AA-AGGA-G
1 AAATGTGCTATCAGGAGCACCGTAGTGCTAACAAGAGGACG
*
12887060 AAATGTGCTATCAGGAGCACCGTAGTGCTAACAAGAGTACG
1 AAATGTGCTATCAGGAGCACCGTAGTGCTAACAAGAGGACG
*
12887101 AAA-GTACTATCAGGAGCACCGTAGTGCTAACAAGA
1 AAATGTGCTATCAGGAGCACCGTAGTGCTAACAAGA
12887136 TAAGTGCACA
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
37 26 0.38
38 2 0.03
39 2 0.03
40 34 0.50
41 4 0.06
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (41 bp):
AAATGTGCTATCAGGAGCACCGTAGTGCTAACAAGAGGACG
Found at i:12887089 original size:20 final size:20
Alignment explanation
Indices: 12887064--12887129 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
12887054 AAGGAGAAAT
12887064 GTGCTATCAGGAGCACCGTA
1 GTGCTATCAGGAGCACCGTA
* * * *
12887084 GTGCTAACAAGAGTA-CGAAA
1 GTGCTATCAGGAGCACCG-TA
*
12887104 GTACTATCAGGAGCACCGTA
1 GTGCTATCAGGAGCACCGTA
12887124 GTGCTA
1 GTGCTA
12887130 ACAAGATAAG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (20 bp):
GTGCTATCAGGAGCACCGTA
Found at i:12891089 original size:3 final size:3
Alignment explanation
Indices: 12891081--12891134 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
12891071 TATTTAATCC
12891081 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
12891129 TAT TAT
1 TAT TAT
12891135 AAACAACAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12897946 original size:15 final size:16
Alignment explanation
Indices: 12897922--12897957 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
12897912 ATTTAAAATT
*
12897922 TAAATTAAAAAT-AAA
1 TAAATAAAAAATAAAA
12897937 TAAATAAAAAATAAAA
1 TAAATAAAAAATAAAA
12897953 TAAAT
1 TAAAT
12897958 CCCCACTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAATAAAAAATAAAA
Found at i:12898571 original size:26 final size:25
Alignment explanation
Indices: 12898528--12898588 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
12898518 AATAAATACG
*
12898528 AAAAAAATCGTAAAACAAAATTAATT
1 AAAAAAAT-GTAAAACAAAATTAATA
* **
12898554 AAAAAAATGTTAATACAATTTTAATA
1 AAAAAAATG-TAAAACAAAATTAATA
12898580 AAAAAAATG
1 AAAAAAATG
12898589 AGAGTTGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (25 bp):
AAAAAAATGTAAAACAAAATTAATA
Found at i:12898623 original size:11 final size:11
Alignment explanation
Indices: 12898609--12898701 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 11
12898599 GAGGATTGAA
*
12898609 AATTGAGCGAG
1 AATTGAGAGAG
12898620 AATT-ATGAGAG
1 AATTGA-GAGAG
*
12898631 AATTGAGAGAA
1 AATTGAGAGAG
* *
12898642 AAAT-AGGAGAA
1 AATTGA-GAGAG
*
12898653 AATTGAAAGAG
1 AATTGAGAGAG
*
12898664 GATTGAGA-ATG
1 AATTGAGAGA-G
12898675 AATT-AGAGAG
1 AATTGAGAGAG
* * *
12898685 AAGTAAGAGTG
1 AATTGAGAGAG
12898696 AATTGA
1 AATTGA
12898702 AAAGGAAAGG
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
10 10 0.16
11 50 0.81
12 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.30, T:0.20
Consensus pattern (11 bp):
AATTGAGAGAG
Found at i:12901293 original size:18 final size:17
Alignment explanation
Indices: 12901260--12901298 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
12901250 TTGTATAAAT
12901260 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
12901278 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
12901295 TGTG
1 TGTG
12901299 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:12901551 original size:23 final size:23
Alignment explanation
Indices: 12901524--12901621 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
12901514 AATGTTATTG
12901524 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12901547 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* **
12901570 -CCAGTGGTAGCTTCAACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
12901592 ATCAGTGGCAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12901615 ATCAGTG
1 ATCAGTG
12901622 TGGCACTCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.28
23 46 0.72
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:12901590 original size:45 final size:45
Alignment explanation
Indices: 12901526--12901614 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
12901516 TGTTATTGAT
** * * *
12901526 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCAACTACATATCAGTGGCAGCTTCGGCTACATC
12901571 CAGTGGTAGCTTCAACTACATATCAGTGGCAGCTTCGGCTACAT
1 CAGTGGTAGCTTCAACTACATATCAGTGGCAGCTTCGGCTACAT
12901615 ATCAGTGTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (45 bp):
CAGTGGTAGCTTCAACTACATATCAGTGGCAGCTTCGGCTACATC
Found at i:12907993 original size:13 final size:13
Alignment explanation
Indices: 12907975--12907999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12907965 TTATCATCTA
12907975 TCATTTATTTATT
1 TCATTTATTTATT
12907988 TCATTTATTTAT
1 TCATTTATTTAT
12908000 CTACGCATTT
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:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTATTTATT
Found at i:12908726 original size:22 final size:22
Alignment explanation
Indices: 12908699--12908767 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
12908689 CCCTTGATCC
12908699 TTTTAACACTAT-TTTTATATAT
1 TTTTAA-ACTATCTTTTATATAT
*
12908721 TTTTAAACTGTCTTTT-T-TAT
1 TTTTAAACTATCTTTTATATAT
*
12908741 TATTTAAGACTTTCTTTTATATAT
1 T-TTTAA-ACTATCTTTTATATAT
12908765 TTT
1 TTT
12908768 ATTTTAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.10
21 10 0.25
22 19 0.47
23 3 0.08
24 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTTAAACTATCTTTTATATAT
Found at i:12909140 original size:38 final size:37
Alignment explanation
Indices: 12909056--12909150 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
12909046 TATACGTACT
*
12909056 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTACATATTT-ATAATTC
* *
12909094 T-TATATACTTACATATATTTATACATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TACATATTTATA-ATTC
*
12909130 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
12909151 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTACATATTTATAATTC
Found at i:12924630 original size:9 final size:9
Alignment explanation
Indices: 12924616--12924645 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
12924606 AAAATATTAT
12924616 ATTAATTTA
1 ATTAATTTA
*
12924625 ATTAATTTG
1 ATTAATTTA
12924634 ATTAATTTA
1 ATTAATTTA
12924643 ATT
1 ATT
12924646 TTACTTGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:12931003 original size:75 final size:71
Alignment explanation
Indices: 12930911--12931185 Score: 268
Period size: 73 Copynumber: 3.7 Consensus size: 71
12930901 TGCTTCTCAT
* * * *
12930911 TTTTTGGTAAATTGTAAATAAGTATATATTATTGATGTAAAATACAATAGAAAACAATGTAAACA
1 TTTTTCGTAGATTGTAAATAAG--TATATTATTGATGTAAAATACAATAGAAAATAAT-AAAACA
12930976 ATTTTTTTCA
63 ATTTTTTT-A
* *** * *
12930986 TTTTTCGTAGATTGTAAATAAGCATATTATTGA-G-AAGACATGTGATACAATATAATACAAACA
1 TTTTTCGTAGATTGTAAATAAGTATATTATTGATGTAA-A-ATACAATAGAAAATAATA-AAACA
*
12931049 ATTTTTTAA
63 ATTTTTTTA
* * * *
12931058 TTTTTTCGTAGATTGTAAATAAGTATATATTATTGATATAAAAAACAATAGAATATAATAATAAT
1 -TTTTTCGTAGATTGTAAATAAG--TATATTATTGATGTAAAATACAATAGAAAATAATAA-AAC
12931123 AATTTTTAATT-
62 AATTTTT--TTA
*
12931134 TTTTTTGTAGATTGTAAATAAGTATATTATTGATGTAAAATACAATAGAAAA
1 TTTTTCGTAGATTGTAAATAAGTATATTATTGATGTAAAATACAATAGAAAA
12931186 ACTTTTTTGA
Statistics
Matches: 165, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
71 2 0.01
72 3 0.02
73 82 0.50
74 1 0.01
75 73 0.44
76 1 0.01
77 3 0.02
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (71 bp):
TTTTTCGTAGATTGTAAATAAGTATATTATTGATGTAAAATACAATAGAAAATAATAAAACAATT
TTTTTA
Found at i:12931421 original size:6 final size:6
Alignment explanation
Indices: 12931412--12931437 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12931402 TCTCCATCTT
12931412 CACCTC CACCTC CACCTC CACCTC CA
1 CACCTC CACCTC CACCTC CACCTC CA
12931438 TCTTAATCTT
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:0.19, C:0.65, G:0.00, T:0.15
Consensus pattern (6 bp):
CACCTC
Found at i:12937313 original size:12 final size:12
Alignment explanation
Indices: 12937296--12937334 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12937286 CAACCTCCAT
12937296 CCCTTATAGTAC
1 CCCTTATAGTAC
*
12937308 CCCTTATTGTAC
1 CCCTTATAGTAC
* *
12937320 CTCTTATGGTAC
1 CCCTTATAGTAC
12937332 CCC
1 CCC
12937335 CACCTCCTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.36, G:0.10, T:0.36
Consensus pattern (12 bp):
CCCTTATAGTAC
Found at i:12949795 original size:24 final size:24
Alignment explanation
Indices: 12949767--12949815 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
12949757 TTTTTCCCAC
12949767 CCAAAATTCTCTAAACCTTTTCAA
1 CCAAAATTCTCTAAACCTTTTCAA
12949791 CCAAAATTCTCTAAACCTTTTCAA
1 CCAAAATTCTCTAAACCTTTTCAA
12949815 C
1 C
12949816 TCTCCAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.31, G:0.00, T:0.33
Consensus pattern (24 bp):
CCAAAATTCTCTAAACCTTTTCAA
Found at i:12952739 original size:26 final size:26
Alignment explanation
Indices: 12952704--12952789 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
12952694 GCAGCTCTTA
* *
12952704 TGAGCATCCCG-TTATATGGCTCTTCG
1 TGAGCTTCCCGATTA-ATGGCTCTTTG
*
12952730 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAATGGCTCTTTG
* *
12952756 TGAGCTTCCTGATTAATGCCTCTTTG
1 TGAGCTTCCCGATTAATGGCTCTTTG
12952782 -GAGCTTCC
1 TGAGCTTCC
12952790 TGATATTGGC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 8 0.15
26 42 0.79
27 3 0.06
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (26 bp):
TGAGCTTCCCGATTAATGGCTCTTTG
Found at i:12960336 original size:37 final size:37
Alignment explanation
Indices: 12960285--12960357 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
12960275 CGTCTGAACA
*
12960285 ATTCTTCATTTAAAAGAAAACTATTAAGTTTTTTTTT
1 ATTCTTCATCTAAAAGAAAACTATTAAGTTTTTTTTT
*
12960322 ATTCTTCATCTAAAAGAAAACTATTAGGTTTTTTTT
1 ATTCTTCATCTAAAAGAAAACTATTAAGTTTTTTTT
12960358 GTTGTTGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (37 bp):
ATTCTTCATCTAAAAGAAAACTATTAAGTTTTTTTTT
Found at i:12965008 original size:23 final size:24
Alignment explanation
Indices: 12964940--12964998 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
12964930 ACCCAAATTA
12964940 AATTT-TAAAAAATATTTTTATAC
1 AATTTATAAAAAATATTTTTATAC
* *
12964963 AAATTATAAAAAATATTTTTATAG
1 AATTTATAAAAAATATTTTTATAC
12964987 AATTTATAAAAA
1 AATTTATAAAAA
12964999 TTATATTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AATTTATAAAAAATATTTTTATAC
Found at i:12972350 original size:13 final size:13
Alignment explanation
Indices: 12972332--12972358 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12972322 TTTTTTAAAT
12972332 TTTAAAATTTAGA
1 TTTAAAATTTAGA
12972345 TTTAAAATTTAGA
1 TTTAAAATTTAGA
12972358 T
1 T
12972359 CCAACTGTCA
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:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTAAAATTTAGA
Found at i:12981332 original size:16 final size:17
Alignment explanation
Indices: 12981304--12981340 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
12981294 AAAAATTTAT
12981304 TTTAAAAATTAAAAAAA
1 TTTAAAAATTAAAAAAA
*
12981321 TTTAAAAA-TAAAAATA
1 TTTAAAAATTAAAAAAA
12981337 TTTA
1 TTTA
12981341 TTATATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTAAAAATTAAAAAAA
Found at i:12984067 original size:21 final size:23
Alignment explanation
Indices: 12984043--12984087 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
12984033 ACAAAAAAAC
12984043 ATGATTT-TAACATGTATT-TTT
1 ATGATTTCTAACATGTATTATTT
12984064 ATGATTTCTAACATGTATTATTT
1 ATGATTTCTAACATGTATTATTT
12984087 A
1 A
12984088 CATGTCAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (23 bp):
ATGATTTCTAACATGTATTATTT
Found at i:12987881 original size:531 final size:531
Alignment explanation
Indices: 12986878--12987940 Score: 2108
Period size: 531 Copynumber: 2.0 Consensus size: 531
12986868 ATTTAAAAGA
12986878 TATTTCAATTCTTACAATTTAACCTTGAAACTCAAAGGGTTACCTCTAAGGCTGTGTTTGTTTAC
1 TATTTCAATTCTTACAATTTAACCTTGAAACTCAAAGGGTTACCTCTAAGGCTGTGTTTGTTTAC
12986943 CTGTAAAACATTTTACGGAAAATATTTTCCTCCTTTTCTACTGTTTGTTTGGTGGAAAATAAACT
66 CTGTAAAACATTTTACGGAAAATATTTTCCTCCTTTTCTACTGTTTGTTTGGTGGAAAATAAACT
12987008 CCCATTGTAAAAGCTTTTCCAAAACACGAGAAAAGAACTCTTCATTTTAGGAAAATGTCTTACCG
131 CCCATTGTAAAAGCTTTTCCAAAACACGAGAAAAGAACTCTTCATTTTAGGAAAATGTCTTACCG
*
12987073 TTTATCATTTGGTAAGACATTTTCCAAAGTTTTTCTCTTCAGCAGTAAATGTAACCCAAAGCCTC
196 TTTATCATTTGGTAAGACATTTTCCAAAGTTTTTCTCTTCAACAGTAAATGTAACCCAAAGCCTC
12987138 TTCCCCTTCCCCCTTCCTTCCCACCCTGATTTAGTGCTTGCCGCCAGCCAGCAATGGTTCCCAAC
261 TTCCCCTTCCCCCTTCCTTCCCACCCTGATTTAGTGCTTGCCGCCAGCCAGCAATGGTTCCCAAC
12987203 ACCAACCGCCGGCATTCATCTTTGATTTTCCTCCTTTCCGCCTTTCGTTGTCGAAATCTACACTG
326 ACCAACCGCCGGCATTCATCTTTGATTTTCCTCCTTTCCGCCTTTCGTTGTCGAAATCTACACTG
12987268 CACCAATCGACGATGGCGTTCATCTTCCTCTCTCGAAGGTATGAATGAAAAGGAAGAAATATGTG
391 CACCAATCGACGATGGCGTTCATCTTCCTCTCTCGAAGGTATGAATGAAAAGGAAGAAATATGTG
12987333 GTTGTTTTTTAGAAGCAACATGTTGTTTTGGCCCAATTGGTTGCTGGTTAATCCCTCTTTTAATT
456 GTTGTTTTTTAGAAGCAACATGTTGTTTTGGCCCAATTGGTTGCTGGTTAATCCCTCTTTTAATT
12987398 TTTATGTTTTT
521 TTTATGTTTTT
12987409 TATTTCAATTCTTACAATTTAACCTTGAAACTCAAAGGGTTACCTCTAAGGCTGTGTTTGTTTAC
1 TATTTCAATTCTTACAATTTAACCTTGAAACTCAAAGGGTTACCTCTAAGGCTGTGTTTGTTTAC
12987474 CTGTAAAACATTTTACGGAAAATATTTTCCTCCTTTTCTACTGTTTGTTTGGTGGAAAATAAACT
66 CTGTAAAACATTTTACGGAAAATATTTTCCTCCTTTTCTACTGTTTGTTTGGTGGAAAATAAACT
*
12987539 CCCATTGTAAAAGCTTTTCCAAAACACGGGAAAAGAACTCTTCATTTTAGGAAAATGTCTTACCG
131 CCCATTGTAAAAGCTTTTCCAAAACACGAGAAAAGAACTCTTCATTTTAGGAAAATGTCTTACCG
12987604 TTTATCATTTGGTAAGACATTTTCCAAAGTTTTTCTCTTCAACAGTAAATGTAACCCAAAGCCTC
196 TTTATCATTTGGTAAGACATTTTCCAAAGTTTTTCTCTTCAACAGTAAATGTAACCCAAAGCCTC
12987669 TTCCCCTTCCCCCTTCCTTCCCACCCTGATTTAGTGCTTGCCGCCAGCCAGCAATGGTTCCCAAC
261 TTCCCCTTCCCCCTTCCTTCCCACCCTGATTTAGTGCTTGCCGCCAGCCAGCAATGGTTCCCAAC
12987734 ACCAACCGCCGGCATTCATCTTTGATTTTCCTCCTTTCCGCCTTTCGTTGTCGAAATCTACACTG
326 ACCAACCGCCGGCATTCATCTTTGATTTTCCTCCTTTCCGCCTTTCGTTGTCGAAATCTACACTG
12987799 CACCAATCGACGATGGCGTTCATCTTCCTCTCTCGAAGGTATGAATGAAAAGGAAGAAATATGTG
391 CACCAATCGACGATGGCGTTCATCTTCCTCTCTCGAAGGTATGAATGAAAAGGAAGAAATATGTG
12987864 GTTGTTTTTTAGAAGCAACATGTTGTTTTGGCCCAATTGGTTGCTGGTTAATCCCTCTTTTAATT
456 GTTGTTTTTTAGAAGCAACATGTTGTTTTGGCCCAATTGGTTGCTGGTTAATCCCTCTTTTAATT
12987929 TTTATGTTTTT
521 TTTATGTTTTT
12987940 T
1 T
12987941 TTATTTACCG
Statistics
Matches: 530, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
531 530 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (531 bp):
TATTTCAATTCTTACAATTTAACCTTGAAACTCAAAGGGTTACCTCTAAGGCTGTGTTTGTTTAC
CTGTAAAACATTTTACGGAAAATATTTTCCTCCTTTTCTACTGTTTGTTTGGTGGAAAATAAACT
CCCATTGTAAAAGCTTTTCCAAAACACGAGAAAAGAACTCTTCATTTTAGGAAAATGTCTTACCG
TTTATCATTTGGTAAGACATTTTCCAAAGTTTTTCTCTTCAACAGTAAATGTAACCCAAAGCCTC
TTCCCCTTCCCCCTTCCTTCCCACCCTGATTTAGTGCTTGCCGCCAGCCAGCAATGGTTCCCAAC
ACCAACCGCCGGCATTCATCTTTGATTTTCCTCCTTTCCGCCTTTCGTTGTCGAAATCTACACTG
CACCAATCGACGATGGCGTTCATCTTCCTCTCTCGAAGGTATGAATGAAAAGGAAGAAATATGTG
GTTGTTTTTTAGAAGCAACATGTTGTTTTGGCCCAATTGGTTGCTGGTTAATCCCTCTTTTAATT
TTTATGTTTTT
Found at i:12988563 original size:173 final size:173
Alignment explanation
Indices: 12988274--12988624 Score: 639
Period size: 173 Copynumber: 2.0 Consensus size: 173
12988264 AACTTCTGCC
** * *
12988274 TCATTCATGTCATTCTAATTCCTGATCTGCTTACATTTTGCTTAGCTCAGGTACACTGCCTCCTA
1 TCATTCATGTCAGCCTAATTCCTGATCTGCTTACATGTCGCTTAGCTCAGGTACACTGCCTCCTA
12988339 TGTACTTCTTGTGGTAGGTGATTTTTCATTAGAATCGTTTGGGGAATTGCATCATTGCATTTTAT
66 TGTACTTCTTGTGGTAGGTGATTTTTCATTAGAATCGTTTGGGGAATTGCATCATTGCATTTTAT
12988404 CTTTCTGGAGTACTATTGTGTTGGCTCATTGTAGCACTTTTAG
131 CTTTCTGGAGTACTATTGTGTTGGCTCATTGTAGCACTTTTAG
*
12988447 TCATTCATGTCAGCCTAATTCCTGATCTGCTTACATGTCGCTTAGCTCAGGTACACTGCCTCCTG
1 TCATTCATGTCAGCCTAATTCCTGATCTGCTTACATGTCGCTTAGCTCAGGTACACTGCCTCCTA
12988512 TGTACTTCTTGTGGTAGGTGATTTTTCATTAGAATCGTTTGGGGAATTGCATCATTGCATTTTAT
66 TGTACTTCTTGTGGTAGGTGATTTTTCATTAGAATCGTTTGGGGAATTGCATCATTGCATTTTAT
*
12988577 CTTTCTGGAGTATTATTGTGTTGGCTCATTGTAGCACTTTTAG
131 CTTTCTGGAGTACTATTGTGTTGGCTCATTGTAGCACTTTTAG
*
12988620 GCATT
1 TCATT
12988625 TTTATTAGTT
Statistics
Matches: 171, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 171 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (173 bp):
TCATTCATGTCAGCCTAATTCCTGATCTGCTTACATGTCGCTTAGCTCAGGTACACTGCCTCCTA
TGTACTTCTTGTGGTAGGTGATTTTTCATTAGAATCGTTTGGGGAATTGCATCATTGCATTTTAT
CTTTCTGGAGTACTATTGTGTTGGCTCATTGTAGCACTTTTAG
Found at i:12990252 original size:22 final size:24
Alignment explanation
Indices: 12990202--12990252 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
12990192 TTGCAATGCT
12990202 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
12990227 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
12990248 TTTAT
1 TTTAT
12990253 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:12990447 original size:20 final size:20
Alignment explanation
Indices: 12990422--12990461 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12990412 AATATTTTCT
*
12990422 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
12990442 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
12990462 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:12990469 original size:34 final size:35
Alignment explanation
Indices: 12990410--12990476 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
12990400 CAAACACCAG
* *
12990410 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
12990445 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
12990477 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:12994203 original size:131 final size:132
Alignment explanation
Indices: 12993726--12994359 Score: 628
Period size: 132 Copynumber: 4.8 Consensus size: 132
12993716 TTAATTGGAG
* * * * ** * * * * * *
12993726 TTAGGTTACGACCTTAAATTAGCTAATATTAACAATATTAGCTGCAATTTTAAACCAAAGAGTTG
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTTG
* * *
12993791 TTCATAGTTGCGATATGAGATCAACTAACTCAAATAAAATTTGTTCATAATCTTAAATCGAATGA
66 TTCAGAGTTGCGATATGAGATCAGCTAACTCAAATAAAATTTGTTCACAATCTTAAATCGAATGA
*
12993856 AA
131 AC
* * * * * * *
12993858 TTAGTTTTGTGATCTTAAATCAACGAGCCTTAATAATATCAATTGCGATATTAAATCAATGAGTT
1 TTAG-GTTGCGATCTTAAATCAGCGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTT
* * * * * *
12993923 GTTC-GAAGTTGCTAT-TCGAGATCAGCTAACTTAATTAAAATTTGTTCACGATTTTAAATTGAA
65 GTTCAG-AGTTGCGATAT-GAGATCAGCTAACTCAAATAAAATTTGTTCACAATCTTAAATCGAA
12993986 TGAAC
128 TGAAC
* * * * ** * ** **
12993991 TTAGGTTGCTATATTAAATCAGCAAACATTAACAATATCATTTGCGATCTTAAATCAGTGAACTG
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTTG
** * * * *
12994056 TTTGGAGTTGTGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGA
66 TTCAGAGTTGCGATATGAGATCAGCTAACTCAAATAAAATTTGTTCACAATCTTAAATCGAATGA
12994121 AC
131 AC
* * * * * *
12994123 TTAGATTACGAT-TTAAATCAGTGAACTTTAACAATATCAACTGTGATCTTAAATCAACGAGTTG
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTTG
* * **
12994187 TTCAGAGTTGCAATATGAGATCAGCTAACTTAAATAAAATTTGTTCATGAT-TCTAAATCGAATG
66 TTCAGAGTTGCGATATGAGATCAGCTAACTCAAATAAAATTTGTTCACAATCT-TAAATCGAATG
12994251 AAC
130 AAC
* * * * *
12994254 TTAGGTTGCGATCTTAAATCAGCGAGCCTTAACAATATCAGCTGCAATATTAAATCAACAAGCTG
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTTG
* * *
12994319 TTCAGAGTTACGATCTAAGATCAGCTAACTCAAATAAAATT
66 TTCAGAGTTGCGATATGAGATCAGCTAACTCAAATAAAATT
12994360 ATTCATAAAA
Statistics
Matches: 403, Mismatches: 92, Indels: 14
0.79 0.18 0.03
Matches are distributed among these distances:
130 1 0.00
131 107 0.27
132 192 0.48
133 103 0.26
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (132 bp):
TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTTG
TTCAGAGTTGCGATATGAGATCAGCTAACTCAAATAAAATTTGTTCACAATCTTAAATCGAATGA
AC
Found at i:12994233 original size:263 final size:265
Alignment explanation
Indices: 12993796--12994359 Score: 708
Period size: 263 Copynumber: 2.1 Consensus size: 265
12993786 AGTTGTTCAT
* * *
12993796 AGTTGCGATATGAGATCAACTAACTCAAATAAAATTTGTTCATAATCTTAAATCGAATGAAATTA
1 AGTTGCGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGAAATTA
* ** * * * *
12993861 GTTTTGTGATCTTAAATCAACGAGCCTTAATAATATCAATTGCGATATTAAATCAATGAGTTGTT
66 GTATTACGATCTTAAATCAACGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTTGTT
* * * *
12993926 CGAAGTTGCTATTCGAGATCAGCTAACTTAATTAAAATTTGTTCACGATTTTAAATTGAATGAAC
131 CGAAGTTGCAATTCGAGATCAGCTAACTTAAATAAAATTTGTTCACGATTCTAAATCGAATGAAC
*
12993991 TTAGGTTGCTATATTAAATCAGCAAACATTAACAATATCATTTGCGATCTTAAATCAGTGAACTG
196 TTAGGTTGCGATATTAAATCAGCAAACATTAACAATATCATTTGCGATCTTAAATCAGTGAACTG
12994056 TTTGG
261 TTTGG
* *
12994061 AGTTGTGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGAACTTA
1 AGTTGCGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGAAATTA
** * * *
12994126 G-ATTACGAT-TTAAATCAGTGAACTTTAACAATATCAACTGTGATCTTAAATCAACGAGTTGTT
66 GTATTACGATCTTAAATCAACGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTTGTT
*
12994189 C-AGAGTTGCAATAT-GAGATCAGCTAACTTAAATAAAATTTGTTCATGATTCTAAATCGAATGA
131 CGA-AGTTGCAAT-TCGAGATCAGCTAACTTAAATAAAATTTGTTCACGATTCTAAATCGAATGA
* * * * ** * * **
12994252 ACTTAGGTTGCGATCTTAAATCAGCGAGCCTTAACAATATCAGCTGCAATATTAAATCA-ACAAG
194 ACTTAGGTTGCGATATTAAATCAGCAAACATTAACAATATCATTTGCGATCTTAAATCAGTGAA-
**
12994316 CTGTTCAG
258 CTGTTTGG
* * *
12994324 AGTTACGATCT-AAGATCAGCTAACTCAAATAAAATT
1 AGTTGCGATATGAA-ATCAACTAACTCAAATAAAATT
12994360 ATTCATAAAA
Statistics
Matches: 256, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
262 5 0.02
263 184 0.72
264 6 0.02
265 61 0.24
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (265 bp):
AGTTGCGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGAAATTA
GTATTACGATCTTAAATCAACGAACCTTAACAATATCAACTGCGATATTAAATCAACGAGTTGTT
CGAAGTTGCAATTCGAGATCAGCTAACTTAAATAAAATTTGTTCACGATTCTAAATCGAATGAAC
TTAGGTTGCGATATTAAATCAGCAAACATTAACAATATCATTTGCGATCTTAAATCAGTGAACTG
TTTGG
Found at i:12999524 original size:6 final size:7
Alignment explanation
Indices: 12999505--12999529 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12999495 TTTGTCTATG
12999505 TATTTTT
1 TATTTTT
12999512 TATTTTT
1 TATTTTT
12999519 TATTTTT
1 TATTTTT
12999526 TATT
1 TATT
12999530 CAAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:13006126 original size:25 final size:24
Alignment explanation
Indices: 13006091--13006172 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
13006081 AACTCTTTCA
13006091 AGCCATATAACGAGAAGCTCATGTG
1 AGCCATATAACGAGAAGCTCAT-TG
* * * *
13006116 AGCCATGTAACAAGAAACTCCTCTG
1 AGCCATATAACGAGAAGCTCAT-TG
* * *
13006141 AGCTATATAATGGGAAGCTCATTAG
1 AGCCATATAACGAGAAGCTCATT-G
13006166 AGCCATA
1 AGCCATA
13006173 ATCAGGAAGT
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (24 bp):
AGCCATATAACGAGAAGCTCATTG
Found at i:13006242 original size:49 final size:50
Alignment explanation
Indices: 13006164--13006293 Score: 133
Period size: 50 Copynumber: 2.6 Consensus size: 50
13006154 GAAGCTCATT
* * *
13006164 AGAGCCA-TAATCAGGAAGTTCA-AGCGAGCCA-ATATCGGAAAGCTCCGG
1 AGAGCCATTAATTAGGAAGTTCATA-AGAGCCAGATATCGAAAAGCTCCGG
* *
13006212 AGAGCCATTAATTAGGAAGTTCATAAGAGCCAGTTATCGAAAAGCTTCGG
1 AGAGCCATTAATTAGGAAGTTCATAAGAGCCAGATATCGAAAAGCTCCGG
* ** *
13006262 AGAGTCAATTAA-TAAAAAGCTCATAAGAGCCA
1 AGAG-CCATTAATTAGGAAGTTCATAAGAGCCA
13006294 CAAACGGGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 7 0.10
49 20 0.29
50 36 0.52
51 6 0.09
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (50 bp):
AGAGCCATTAATTAGGAAGTTCATAAGAGCCAGATATCGAAAAGCTCCGG
Found at i:13011846 original size:23 final size:23
Alignment explanation
Indices: 13011804--13011849 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13011794 CTTTCTTATT
** *
13011804 GTAGTAATTTTCGGGGTATTACA
1 GTAGTAATTTTCAAGATATTACA
13011827 GTAGTAATTTTCAAGATATTACA
1 GTAGTAATTTTCAAGATATTACA
13011850 CTTTAAGGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (23 bp):
GTAGTAATTTTCAAGATATTACA
Found at i:13014677 original size:25 final size:26
Alignment explanation
Indices: 13014620--13014689 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
13014610 TTCATATTCA
*
13014620 GGAATGCTCATGTGAG-CATATAAATG
1 GGAA-GCTCATGTGAGCCATATAAACG
* * *
13014646 GGTAGCTCTTTTGAGCCATAT-AACG
1 GGAAGCTCATGTGAGCCATATAAACG
13014671 GGAAGCTCATGTGAGCCAT
1 GGAAGCTCATGTGAGCCAT
13014690 GTAATGAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 28 0.78
26 8 0.22
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (26 bp):
GGAAGCTCATGTGAGCCATATAAACG
Found at i:13014824 original size:49 final size:49
Alignment explanation
Indices: 13014770--13014884 Score: 126
Period size: 49 Copynumber: 2.3 Consensus size: 49
13014760 CCAATATCGA
* *
13014770 AAAGCTCCGGAGAGCCATTAATCAGGAAGCTCATAAGAGCCACAAACTGG
1 AAAGCTCCGGAGAGCCATTAATCAGGAAGCTCACAAGAACCACAAA-TGG
** * * * *
13014820 -AAGCTCAAGAGAGTCATTAATCGGGAAGGTCACAAGAACCATAAATGG
1 AAAGCTCCGGAGAGCCATTAATCAGGAAGCTCACAAGAACCACAAATGG
13014868 AAAGCT-CGTGAGAGCCA
1 AAAGCTCCG-GAGAGCCA
13014885 GATATCAGGA
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
48 3 0.06
49 49 0.94
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (49 bp):
AAAGCTCCGGAGAGCCATTAATCAGGAAGCTCACAAGAACCACAAATGG
Found at i:13015943 original size:30 final size:31
Alignment explanation
Indices: 13015881--13015944 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
13015871 TTATTTAATT
*
13015881 AATTTATCATCTTTTATTATTTCATCTTTCC
1 AATTTATCATCTTTTATTATTTAATCTTTCC
13015912 AATTTAGTCAT-TTTCT-TTATTTAAT-TTTCC
1 AATTTA-TCATCTTT-TATTATTTAATCTTTCC
13015942 AAT
1 AAT
13015945 GATGACTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 17 0.57
32 5 0.17
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.58
Consensus pattern (31 bp):
AATTTATCATCTTTTATTATTTAATCTTTCC
Found at i:13026374 original size:16 final size:17
Alignment explanation
Indices: 13026337--13026374 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13026327 AATTTAATAC
13026337 TTTTATCTCTTAAACTAA
1 TTTTATCTCTTAAAC-AA
*
13026355 TTTTATCTCTTTAA-AA
1 TTTTATCTCTTAAACAA
13026371 TTTT
1 TTTT
13026375 CTTAATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
18 13 0.68
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTATCTCTTAAACAA
Found at i:13026853 original size:69 final size:69
Alignment explanation
Indices: 13026766--13026894 Score: 204
Period size: 69 Copynumber: 1.9 Consensus size: 69
13026756 ACCTTTTTCT
* * * *
13026766 TTCTTTTATTTTCAATTCCACATCGTTAACTTTGATTTTGTAACATTTTGATTTAACAACATTTA
1 TTCTTTTATGTTCAATTCCAAATCATTAACTTTGATTTTGTAACATTTTGATATAACAACATTTA
13026831 AGAA
66 AGAA
* *
13026835 TTCTTTTATGTTCGATTCCAAATCATTAACTTTGATTTTGTAATATTTTGATATAACAAC
1 TTCTTTTATGTTCAATTCCAAATCATTAACTTTGATTTTGTAACATTTTGATATAACAAC
13026895 TGTTAGAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (69 bp):
TTCTTTTATGTTCAATTCCAAATCATTAACTTTGATTTTGTAACATTTTGATATAACAACATTTA
AGAA
Found at i:13030518 original size:13 final size:13
Alignment explanation
Indices: 13030500--13030531 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
13030490 GAAAGTTCTT
13030500 TGCAGATTCAATA
1 TGCAGATTCAATA
13030513 TGCAGATTCAATA
1 TGCAGATTCAATA
13030526 TGCAGA
1 TGCAGA
13030532 ATGTTAAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (13 bp):
TGCAGATTCAATA
Found at i:13038234 original size:25 final size:24
Alignment explanation
Indices: 13038206--13038281 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
13038196 TTTTAAAATA
*
13038206 AAATATAATAAATTATTATAAATTT
1 AAATATAATAAATTATAAT-AATTT
**
13038231 AAAT-TAATTAAGCTATAATAATTT
1 AAATATAA-TAAATTATAATAATTT
* * *
13038255 AAAAATAATAACTTAT-CTAATTT
1 AAATATAATAAATTATAATAATTT
13038278 AAAT
1 AAAT
13038282 TTTGTAGAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
23 9 0.22
24 17 0.41
25 15 0.37
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (24 bp):
AAATATAATAAATTATAATAATTT
Found at i:13038325 original size:28 final size:29
Alignment explanation
Indices: 13038276--13038330 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
13038266 CTTATCTAAT
13038276 TTAAATTTTGTAGAATAAAAAA-ACATCA
1 TTAAATTTTGTAGAATAAAAAACACATCA
**
13038304 TTAAGATTTT-TAGAATTTAAAACACAT
1 TTAA-ATTTTGTAGAATAAAAAACACAT
13038331 GCAAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (29 bp):
TTAAATTTTGTAGAATAAAAAACACATCA
Found at i:13038399 original size:15 final size:14
Alignment explanation
Indices: 13038376--13038409 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13038366 TAGTTCTCTC
13038376 AAATAAATAAAAATT
1 AAATAAATAAAAA-T
*
13038391 AAATGAATAAAAAT
1 AAATAAATAAAAAT
13038405 AAATA
1 AAATA
13038410 GTATTTGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:13039186 original size:16 final size:16
Alignment explanation
Indices: 13039162--13039228 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
13039152 GGTTCATTGG
*
13039162 AATGAAATAATGTTGT
1 AATGAAATAAAGTTGT
*
13039178 AATGGAATAAAGTTGT
1 AATGAAATAAAGTTGT
* *
13039194 AATGGAATAAAGCTGT
1 AATGAAATAAAGTTGT
*
13039210 AATGAAATAGAGTTGT
1 AATGAAATAAAGTTGT
13039226 AAT
1 AAT
13039229 CAGTAATTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.31
Consensus pattern (16 bp):
AATGAAATAAAGTTGT
Found at i:13044766 original size:19 final size:20
Alignment explanation
Indices: 13044742--13044825 Score: 100
Period size: 19 Copynumber: 4.2 Consensus size: 20
13044732 GTACATCGTT
13044742 AACAGAAGCTCGAA-AGCTG
1 AACAGAAGCTCGAAGAGCTG
13044761 AACAGAAGCTCGAA-AGCTG
1 AACAGAAGCTCGAAGAGCTG
* * * *
13044780 AACAGAAACTCATAAGAGTTA
1 AACAGAAGCTC-GAAGAGCTG
13044801 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCG-AAGAGCTG
13044822 AACA
1 AACA
13044826 AAAACTCGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 29 0.54
20 2 0.04
21 23 0.43
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (20 bp):
AACAGAAGCTCGAAGAGCTG
Found at i:13044806 original size:21 final size:21
Alignment explanation
Indices: 13044775--13044867 Score: 87
Period size: 21 Copynumber: 4.4 Consensus size: 21
13044765 GAAGCTCGAA
*
13044775 AGCTGAACAGAAACTCATAAG
1 AGCTAAACAGAAACTCATAAG
* * *
13044796 AGTTAAACAGAAGCTCGTAAG
1 AGCTAAACAGAAACTCATAAG
* * * *
13044817 AGCTGAACAAAAACTCGTATG
1 AGCTAAACAGAAACTCATAAG
* * *
13044838 AGTTAAATAGAAGCTCATAAG
1 AGCTAAACAGAAACTCATAAG
13044859 AGCTAAACA
1 AGCTAAACA
13044868 TAAAGTAAAA
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.18
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATAAG
Found at i:13044831 original size:42 final size:42
Alignment explanation
Indices: 13044761--13044867 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
13044751 TCGAAAGCTG
*
13044761 AACAGAAGCTCG-AA-AGCTGAACAGAAACTCATAAGAGTTA
1 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTA
* *
13044801 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCGTATGAGTTA
1 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTA
* * *
13044843 AATAGAAGCTCATAAGAGCTAAACA
1 AACAGAAGCTCGTAAGAGCTGAACA
13044868 TAAAGTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 12 0.20
41 2 0.03
42 45 0.76
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTA
Found at i:13046383 original size:20 final size:20
Alignment explanation
Indices: 13046354--13046391 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13046344 GATCATTAGA
*
13046354 TTAATTAAAATAAGGTTTGT
1 TTAATCAAAATAAGGTTTGT
13046374 TTAATCAAAATAAGGTTT
1 TTAATCAAAATAAGGTTT
13046392 ATTAAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
TTAATCAAAATAAGGTTTGT
Found at i:13049997 original size:57 final size:57
Alignment explanation
Indices: 13049909--13050018 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 57
13049899 AATGCAGATC
* *
13049909 AGAAATTCCAAACATTGAAAGCAATACTCAATAGGATTAAAGAAAAACTTGTTGATT
1 AGAAATTCCAAAAATTGAAAGCAATACTCAATAAGATTAAAGAAAAACTTGTTGATT
*
13049966 AGAAATTCCAAAAATTGGAAGCAATACTCAATAAGATTAAAGAAAAACTTGTT
1 AGAAATTCCAAAAATTGAAAGCAATACTCAATAAGATTAAAGAAAAACTTGTT
13050019 AAACAGTCGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (57 bp):
AGAAATTCCAAAAATTGAAAGCAATACTCAATAAGATTAAAGAAAAACTTGTTGATT
Found at i:13050519 original size:12 final size:12
Alignment explanation
Indices: 13050474--13050524 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
13050464 GTGATATTTA
*
13050474 AAATTTTAATAT
1 AAATATTAATAT
*
13050486 AATTATT-ATATT
1 AAATATTAATA-T
*
13050498 TAATATTTAATAT
1 AAATA-TTAATAT
13050511 AAATATTAATAT
1 AAATATTAATAT
13050523 AA
1 AA
13050525 TTTTATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 3 0.10
12 18 0.58
13 7 0.23
14 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATATTAATAT
Found at i:13050522 original size:26 final size:26
Alignment explanation
Indices: 13050467--13050518 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
13050457 ATTATTAGTG
*
13050467 ATATTTAAAATTTTAATATAATTATT
1 ATATTTAAAATTTTAATATAAATATT
*
13050493 ATATTTAATA-TTTAATATAAATATT
1 ATATTTAAAATTTTAATATAAATATT
13050518 A
1 A
13050519 ATATAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATTTAAAATTTTAATATAAATATT
Found at i:13050533 original size:25 final size:25
Alignment explanation
Indices: 13050478--13050529 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
13050468 TATTTAAAAT
* *
13050478 TTTAATATAATTATTATATTTAATA
1 TTTAATATAAATATTATATATAATA
13050503 TTTAATATAAATATTA-ATATAAT-
1 TTTAATATAAATATTATATATAATA
13050526 TTTA
1 TTTA
13050530 TAATTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 6 0.24
25 15 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTAATATAAATATTATATATAATA
Found at i:13051994 original size:18 final size:18
Alignment explanation
Indices: 13051973--13052009 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
13051963 CTTTTTCCTC
*
13051973 TTTTCTTTTCCTTTCTTTT
1 TTTTCCTTT-CTTTCTTTT
13051992 TTTTCCTTTCTTTCTTTT
1 TTTTCCTTTCTTTCTTTT
13052010 ACTTCGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCCTTTCTTTCTTTT
Found at i:13052001 original size:14 final size:14
Alignment explanation
Indices: 13051959--13052009 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
13051949 CGTTCGTTTC
*
13051959 TCTTCTTTTTCC--
1 TCTTTTTTTTCCTT
13051971 TCTTTTCTTTTCCTT
1 TCTTTT-TTTTCCTT
13051986 TCTTTTTTTTCCTT
1 TCTTTTTTTTCCTT
13052000 TCTTTCTTTT
1 TCTTT-TTTT
13052010 ACTTCGTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
12 5 0.15
13 6 0.18
14 13 0.38
15 10 0.29
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTTTTTTTTCCTT
Found at i:13055962 original size:19 final size:19
Alignment explanation
Indices: 13055934--13056027 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
13055924 AATTTTTGAG
13055934 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
13055953 GATATACAATCCTAGATAT
1 GATATGCAATCTTAGATAT
13055972 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13055991 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
13056012 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
13056028 ATATATGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 50 0.72
21 19 0.28
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13056014 original size:40 final size:38
Alignment explanation
Indices: 13055934--13056027 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 38
13055924 AATTTTTGAG
13055934 GATATGCAATCTTAGATATGATATACAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCCTAGATAT
*
13055972 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATA--CAATCCTAGATAT
13056012 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
13056028 ATATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
38 25 0.47
40 28 0.53
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATACAATCCTAGATAT
Found at i:13062706 original size:24 final size:27
Alignment explanation
Indices: 13062674--13062722 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
13062664 ATGATTATCG
13062674 TATTAATGTTATTTA-AAT-TGAATGT
1 TATTAATGTTATTTATAATGTGAATGT
13062699 TATT-ATGTTATTTATAATGTGAAT
1 TATTAATGTTATTTATAATGTGAAT
13062723 AGATCGATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 7 0.32
26 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
TATTAATGTTATTTATAATGTGAATGT
Found at i:13074453 original size:19 final size:19
Alignment explanation
Indices: 13074409--13074481 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 19
13074399 TTTGAGGATA
*
13074409 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATT
**
13074428 TATAATCTTAGATATGATT
1 TGCAATCTTAGATATGATT
13074447 TGCAATCTTAGAATATATGATTT
1 TGCAATCTTAG---ATATGA-TT
*
13074470 TGTAATCTTAGA
1 TGCAATCTTAGA
13074482 GATTTAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 25 0.57
20 1 0.02
22 6 0.14
23 12 0.27
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (19 bp):
TGCAATCTTAGATATGATT
Found at i:13074467 original size:22 final size:23
Alignment explanation
Indices: 13074439--13074481 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
13074429 ATAATCTTAG
13074439 ATATGA-TTTGCAATCTTAGAAT
1 ATATGATTTTGCAATCTTAGAAT
*
13074461 ATATGATTTTGTAATCTTAGA
1 ATATGATTTTGCAATCTTAGA
13074482 GATTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (23 bp):
ATATGATTTTGCAATCTTAGAAT
Found at i:13075254 original size:25 final size:26
Alignment explanation
Indices: 13075221--13075270 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
13075211 TACATGTATA
13075221 TATATTTTTTAAAACGAATATTTTCC
1 TATATTTTTTAAAACGAATATTTTCC
* *
13075247 TATATTTTTT-TAATGAATATTTTC
1 TATATTTTTTAAAACGAATATTTTC
13075271 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTTTTTAAAACGAATATTTTCC
Found at i:13085433 original size:30 final size:32
Alignment explanation
Indices: 13085373--13085436 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
13085363 CACTTATTTT
13085373 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
13085406 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
13085437 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:13085696 original size:41 final size:41
Alignment explanation
Indices: 13085651--13086134 Score: 891
Period size: 41 Copynumber: 11.8 Consensus size: 41
13085641 ACCGGCTCTT
*
13085651 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13085692 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13085733 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13085774 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13085815 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13085856 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13085897 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13085938 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13085979 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13086020 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13086061 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
13086102 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
13086135 TAACGATAAA
Statistics
Matches: 435, Mismatches: 4, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
39 2 0.00
40 2 0.00
41 426 0.98
42 2 0.00
43 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:13086329 original size:2 final size:2
Alignment explanation
Indices: 13086322--13086346 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13086312 ATACATCCGA
13086322 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13086347 ACTTAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13087656 original size:13 final size:13
Alignment explanation
Indices: 13087638--13087662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13087628 ACAAACGATA
13087638 AAATTTTCACACG
1 AAATTTTCACACG
13087651 AAATTTTCACAC
1 AAATTTTCACAC
13087663 AAGTAAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:13092618 original size:44 final size:43
Alignment explanation
Indices: 13092543--13092752 Score: 122
Period size: 44 Copynumber: 4.8 Consensus size: 43
13092533 CCAAGCCTTG
* * * * * *
13092543 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGTAGATCTTA
* * *
13092587 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG-TAGATCTTA
* * ** * *
13092631 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ACGTAGATCTTA
* * * * * *
13092675 TCTCCCTCAGTAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGTAGATCTTA
*
13092719 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
13092753 GCGAATCTTA
Statistics
Matches: 120, Mismatches: 35, Indels: 23
0.67 0.20 0.13
Matches are distributed among these distances:
42 5 0.04
43 10 0.08
44 93 0.77
45 7 0.06
46 5 0.04
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGTAGATCTTA
Found at i:13092706 original size:132 final size:132
Alignment explanation
Indices: 13092469--13092857 Score: 706
Period size: 132 Copynumber: 2.9 Consensus size: 132
13092459 CTGCATTGAC
13092469 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
13092534 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
13092599 GT
131 GT
* *
13092601 AGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
13092666 CAAGCCTTGTCTCCCTCAGTAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
13092731 GT
131 GT
13092733 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
13092798 CAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTGAAGATTGTAAATCCTATCTCCCT
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
13092858 GAAGTTGCAA
Statistics
Matches: 244, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 244 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:13092761 original size:44 final size:44
Alignment explanation
Indices: 13092581--13092765 Score: 128
Period size: 44 Copynumber: 4.2 Consensus size: 44
13092571 AAGATTGTAG
13092581 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
* ** *
13092625 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGA-CAA
** * * * * * * * * * *
13092669 GCCTTGTCTCCCTCAGTAGTAGCGGAGAAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGACAA
* *
13092713 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
13092757 ATCTTATCT
1 ATCTTATCT
13092766 TTCCAAGATA
Statistics
Matches: 101, Mismatches: 30, Indels: 20
0.67 0.20 0.13
Matches are distributed among these distances:
42 4 0.04
43 9 0.09
44 79 0.78
45 6 0.06
46 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
Found at i:13092897 original size:44 final size:43
Alignment explanation
Indices: 13092849--13093214 Score: 252
Period size: 44 Copynumber: 8.5 Consensus size: 43
13092839 TTGTAAATCC
* *
13092849 TATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCTCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCT-AGATCT
* * ** *** *
13092893 TATCTCTCTAAAGTTGCAG-AAAGCAGA-TCGCATCTAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAGATCT
* * *
13092933 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTAGATCT
* * ** *
13092977 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAG-TCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-ACCTAGATCT
* *
13093022 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TAGATCT
*
13093066 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TAGATCT
* * *** *
13093110 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCTAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAGATCT
* * * *
13093150 TATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCTAGATCT
13093194 TATC-CTCCTGAAGTTGCAGTG
1 TATCTC-CCTGAAGTTGCAGTG
13093215 AGGCAGACTG
Statistics
Matches: 256, Mismatches: 49, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
40 41 0.16
41 17 0.07
42 10 0.04
43 16 0.06
44 136 0.53
45 35 0.14
46 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAGATCT
Found at i:13092991 original size:84 final size:87
Alignment explanation
Indices: 13092849--13093223 Score: 206
Period size: 84 Copynumber: 4.3 Consensus size: 87
13092839 TTGTAAATCC
* * * *
13092849 TATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCTCAGATCTTATCTCTCTAAAGTTGCAG-A
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCTAAGATCTTATCTCTCTAAAGTTGCAGTA
*
13092913 AAGCAGA-TCG-CAT-CTAGTCT
66 AAGCAGACT-GACATGCAAGTCT
* *
13092933 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TCTTATC-CTCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AACCTAAGATCTTATCTCT-CTAAAGTTGCA
*** *
13092995 GTGGGGCAGACTGAAGATGGCAAGTCT
63 GTAAAGCAGACTG-ACAT-GCAAGTCT
* * * * * *
13093022 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA-ATCCTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCTA-AGATCTTATCTCTCTAAAGTTGCAGT
** * * * ** *
13093086 GGAGCGGA-TTAAAACCTTAGATCT
65 AAAGCAGACTGACATGC-AAG-TCT
* * *** * * * *
13093110 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCT-AG-TCTTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCTAAGATCTTATCTCTCTAAAGTTGCAGTA
*
13093171 AAGCAGACT-AAATAAGCAAGTCT
66 AAGCAGACTGACAT--GCAAGTCT
13093194 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT
13093224 GAAGATGGCA
Statistics
Matches: 230, Mismatches: 38, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
83 3 0.01
84 100 0.43
85 16 0.07
86 9 0.04
87 15 0.07
88 23 0.10
89 63 0.27
90 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCTAAGATCTTATCTCTCTAAAGTTGCAGTA
AAGCAGACTGACATGCAAGTCT
Found at i:13093111 original size:133 final size:127
Alignment explanation
Indices: 13092933--13093182 Score: 299
Period size: 133 Copynumber: 1.9 Consensus size: 127
13092923 CATCTAGTCT
*
13092933 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AACCAAGTCTTATCTCT-CTGAAGTTGCAG-
* * * * *
13092997 GGGGCAGA-CTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
63 AGAGCAGATC-G--CAT--CAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGCCGAT
13093061 AATCC
123 AATCC
* * *
13093066 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTTAGATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACC-AAG-TCTTATCTCTCTGAAGTTGCAGA
*
13093130 GAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAA
64 GAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAA
13093183 TAAGCAAGTC
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
128 37 0.36
130 2 0.02
131 3 0.03
132 9 0.09
133 50 0.49
134 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACCAAGTCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGCCGATAATCC
Found at i:13093215 original size:44 final size:44
Alignment explanation
Indices: 13092928--13093223 Score: 256
Period size: 44 Copynumber: 6.8 Consensus size: 44
13092918 GATCGCATCT
*
13092928 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* *
13092972 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AA-ATAAGCA
* ***
13093017 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG-A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * * * * *
13093060 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGC-A
* * ** *
13093104 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCAT---CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAATAAGCA
*
13093145 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
13093189 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT
13093224 GAAGATGGCA
Statistics
Matches: 205, Mismatches: 29, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
40 21 0.10
41 11 0.05
42 2 0.01
43 16 0.08
44 117 0.57
45 36 0.18
46 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
Found at i:13093424 original size:19 final size:19
Alignment explanation
Indices: 13093400--13093473 Score: 94
Period size: 19 Copynumber: 3.8 Consensus size: 19
13093390 ATTTTTGAGA
13093400 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
**
13093419 ATATGCAATCCAAGATATG
1 ATATGCAATCTTAGATATG
**
13093438 ATATATATAATCTTAGATATG
1 --ATATGCAATCTTAGATATG
13093459 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
13093474 ATATATGATT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 30 0.67
21 15 0.33
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:13093620 original size:9 final size:9
Alignment explanation
Indices: 13093606--13093632 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
13093596 CATTGTGACA
13093606 AAAAAAAAG
1 AAAAAAAAG
13093615 AAAAAAAAG
1 AAAAAAAAG
13093624 AAAAAAAAG
1 AAAAAAAAG
13093633 GAGGAGGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:13094973 original size:98 final size:98
Alignment explanation
Indices: 13094843--13095034 Score: 314
Period size: 98 Copynumber: 2.0 Consensus size: 98
13094833 TTAAAAATAA
* * * * *
13094843 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCGCGCCCTAACGTATTGGGTGTGATTTC
13094908 TTAAATCTTGGA-AAATGAGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAATG-GATGTTCTTTTAAAG
13094941 TAAAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCGCGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCGCGCCCTAACGTATTGGGTGTGATTTC
*
13095006 TTAAATCTTGGATAAGTGGATGTTCTTTT
66 TTAAATCTTGGATAAATGGATGTTCTTTT
13095035 GTATGAGGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 83 0.95
99 4 0.05
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCGCGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
Found at i:13096151 original size:24 final size:25
Alignment explanation
Indices: 13096122--13096170 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
13096112 ATATAAATAT
13096122 GAAAATATTC-ATTAAAAAATATAG
1 GAAAATATTCGATTAAAAAATATAG
*
13096146 GAAAATATTCGTTTTAAAAAATATA
1 GAAAATATTCG-ATTAAAAAATATA
13096171 TATACATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
26 12 0.55
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
GAAAATATTCGATTAAAAAATATAG
Found at i:13096963 original size:19 final size:19
Alignment explanation
Indices: 13096939--13097051 Score: 156
Period size: 19 Copynumber: 5.8 Consensus size: 19
13096929 AATCATATAT
13096939 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
13096958 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
13096977 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
13096996 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
13097017 TCT-TGAATTGCATATCATA
1 TCTAAG-ATTGCATATCATA
13097036 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
13097052 CTAAAAAATT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
19 64 0.78
20 2 0.02
21 16 0.20
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13097027 original size:40 final size:40
Alignment explanation
Indices: 13096939--13097050 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
13096929 AATCATATAT
*
13096939 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAATATTGCATATCATATCTAAGATTGCATATATCATA
13096977 TCTAATATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAATATTGCATATCATATCTAAGATTGCATATATCATA
*
13097017 TCTTGA-ATTGCATATCATATCTAAGATTGCATAT
1 TC-TAATATTGCATATCATATCTAAGATTGCATAT
13097051 CCTAAAAAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 27 0.39
40 40 0.58
41 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (40 bp):
TCTAATATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:13097613 original size:19 final size:20
Alignment explanation
Indices: 13097589--13097634 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
13097579 AAAAAAAAAA
* *
13097589 TCAAAATAATTGTTAAAATT
1 TCAAAATAATTATAAAAATT
*
13097609 T-AAAATATTTATAAAAATT
1 TCAAAATAATTATAAAAATT
13097628 TCAAAAT
1 TCAAAAT
13097635 TTATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (20 bp):
TCAAAATAATTATAAAAATT
Found at i:13097623 original size:18 final size:17
Alignment explanation
Indices: 13097602--13097666 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
13097592 AAATAATTGT
13097602 TAAAATTTAAAATATTTA
1 TAAAATTTAAAA-ATTTA
*
13097620 TAAAAATTTCAAAATTTA
1 T-AAAATTTAAAAATTTA
* *
13097638 T--ATTTTAAAAAATTA
1 TAAAATTTAAAAATTTA
13097653 TAATAATTTAAAAA
1 TAA-AATTTAAAAA
13097667 AATTATATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
15 12 0.32
18 16 0.42
19 10 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTTAAAAATTTA
Found at i:13097673 original size:34 final size:34
Alignment explanation
Indices: 13097607--13097674 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
13097597 ATTGTTAAAA
* * *
13097607 TTTAAAATATTTATAAAAATTTCAAAATTTATAT
1 TTTAAAATAATTATAAAAATTTAAAAAATTATAT
*
13097641 TTTAAAA-AATTATAATAATTTAAAAAAATTATAT
1 TTTAAAATAATTATAAAAATTT-AAAAAATTATAT
13097675 AAATAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (34 bp):
TTTAAAATAATTATAAAAATTTAAAAAATTATAT
Found at i:13097676 original size:18 final size:18
Alignment explanation
Indices: 13097630--13097676 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
13097620 TAAAAATTTC
*
13097630 AAAATT-TAT-ATTTTAA
1 AAAATTATATAATTTAAA
13097646 AAAATTATAATAATTTAAA
1 AAAATTAT-ATAATTTAAA
13097665 AAAATTATATAA
1 AAAATTATATAA
13097677 ATAATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 6 0.22
17 1 0.04
18 6 0.22
19 14 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATATAATTTAAA
Found at i:13098730 original size:14 final size:14
Alignment explanation
Indices: 13098713--13098763 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
13098703 AATTTTTTGT
*
13098713 TATTATCATTTTTA
1 TATTATTATTTTTA
**
13098727 TATTATTATAATTA
1 TATTATTATTTTTA
13098741 TATTATTATTTATTAA
1 TATTATTATTT-TT-A
13098757 TATTATT
1 TATTATT
13098764 CAAAAAAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 20 0.67
15 2 0.07
16 8 0.27
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:13100513 original size:18 final size:18
Alignment explanation
Indices: 13100480--13100514 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13100470 TTTTAAGAAG
*
13100480 CACTTTTGGGACAAAAAA
1 CACTTTTGAGACAAAAAA
*
13100498 CACTTTTGAGATAAAAA
1 CACTTTTGAGACAAAAA
13100515 TATTCCTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (18 bp):
CACTTTTGAGACAAAAAA
Found at i:13100864 original size:19 final size:19
Alignment explanation
Indices: 13100840--13100914 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
13100830 AATCTTCGAG
13100840 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13100859 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
* *
13100878 GACATATGCAACCTTAGACAT
1 G--ATATGCAATCTTAGATAT
*
13100899 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
13100915 AGATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 32 0.67
21 16 0.33
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13100947 original size:22 final size:23
Alignment explanation
Indices: 13100903--13100947 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13100893 AGACATGATA
*
13100903 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
13100926 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
13100948 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:13101139 original size:19 final size:21
Alignment explanation
Indices: 13101115--13101153 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
13101105 CTTACTGTTT
*
13101115 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
13101134 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
13101154 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:13101598 original size:4 final size:4
Alignment explanation
Indices: 13101548--13101613 Score: 55
Period size: 4 Copynumber: 16.8 Consensus size: 4
13101538 AATTATTTCT
* * * * * *
13101548 TTTA TTT- TTTA ATTA GTT- TTTA TTTA TATA TATA TTTG TTGTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
13101595 TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
13101614 TAAAACAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 5 0.10
4 43 0.84
5 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:13119870 original size:44 final size:43
Alignment explanation
Indices: 13119822--13120283 Score: 324
Period size: 44 Copynumber: 10.7 Consensus size: 43
13119812 ATTTTGATCC
*
13119822 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCTGTCT
* * * *
13119866 GCTCCACTGCAACATCAGGGAGATAAGACTGG--ATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCTG-TCT
* ** ** *
13119907 GCTCTACTGCAACTTCAGAAAGATAAGATCTATGGTT-TT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTCTTCTGTCT
*
13119951 GCTCCACTGCAACTTTAGGGAGATAAGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCTGTCT
* * * *
13119995 GTTCCACTGCAACTTCAGGGAGATAAGACTGG--ATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCTG-TCT
* * **
13120036 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTCTTCTGTCT
* * *
13120080 GCTCCACAGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCTGTCT
* * * * * *
13120124 GCTCCACTGTAACTTCCGGGAGATAAGACTAG--ATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCTG-TCT
* * **
13120165 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTCTTCTGTCT
** * * *
13120209 GCTCCACTATAACTTTAGGGAGATAGGATTGGTTTCTTCTATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCTGTCT
*
13120253 GCTCCACTACAACTTCAGGGAGATAAGATTG
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG
13120284 AATATGATCT
Statistics
Matches: 325, Mismatches: 63, Indels: 60
0.73 0.14 0.13
Matches are distributed among these distances:
40 3 0.01
41 97 0.30
42 8 0.02
43 6 0.02
44 208 0.64
45 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCTGTCT
Found at i:13119936 original size:129 final size:129
Alignment explanation
Indices: 13119773--13120298 Score: 791
Period size: 129 Copynumber: 4.1 Consensus size: 129
13119763 AGTCTGATAT
* * * ** *
13119773 GATCTGCTCTACTGCAACTTTAGAGAGATGAGATCCATCATTTTGATCCGCTCCACTGCAACTTC
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTC
*
13119838 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACATCAGGGAGATAAGACTGGATGC
66 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC
* *
13119902 GATCTGCTCTACTGCAACTTCAGAAAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTT
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTC
* *
13119967 AGGGAGATAAGATTGGTTTCTTCTGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTGGATGC
66 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC
* * *
13120031 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACAGCAACTTC
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTC
* * * *
13120096 AGGGAGATAGGACTGGTTTCTTCTGTCTGCTCCACTGTAACTTCCGGGAGATAAGACTAGATGC
66 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC
* * ** *
13120160 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTATAACTTT
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTC
* * * * **
13120225 AGGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTACAACTTCAGGGAGATAAGATTGAATAT
66 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC
13120289 GATCTGCTCT
1 GATCTGCTCT
13120299 TTTTTACCTG
Statistics
Matches: 361, Mismatches: 36, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 361 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (129 bp):
GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTC
AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC
Found at i:13119957 original size:85 final size:82
Alignment explanation
Indices: 13119817--13120280 Score: 318
Period size: 85 Copynumber: 5.4 Consensus size: 82
13119807 CCATCATTTT
* * * * ** *
13119817 GATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACATC
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGG-TT-TT-AATCTGCTCCACTGCAACTTC
13119882 AGGGAGATAAGACTGGATGC
63 AGGGAGATAAGACTGGATGC
* * * *
13119902 GATCTGCTCTACTGCAACTTCAGAAAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGA-C--TGGTTTTAATCTGCTCCACTGCAACTTC
* * *
13119967 AGGGAGATAAGATTGGTTTCTTC
63 AGGGAGATAAGACTGG---ATGC
* * * *** *
13119990 TG-TCTGTTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAG
1 -GATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGTTTTAATCTGCTCCACTGCAACTTCAG
* * **
13120054 AGAGATAAGATCTGTGGTTTT
65 GGAGATAAGA-C--TGGATGC
* * * * ** *
13120075 AATCTGCTCCACAGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTGCTCCACTGTAACTTC
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGG-TT-TT-AATCTGCTCCACTGCAACTTC
* *
13120140 CGGGAGATAAGACTAGATGC
63 AGGGAGATAAGACTGGATGC
* ** *
13120160 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTATAACTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGA-C--TGGTTTTAATCTGCTCCACTGCAACTTC
* * * *
13120225 AGGGAGATAGGATTGGTTTCTTC
63 AGGGAGATAAGACTGG---ATGC
* * *
13120248 TATCTGCTCCACTACAACTTCAGGGAGATAAGA
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGA
13120281 TTGAATATGA
Statistics
Matches: 294, Mismatches: 65, Indels: 37
0.74 0.16 0.09
Matches are distributed among these distances:
85 185 0.63
86 6 0.02
87 6 0.02
88 96 0.33
89 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (82 bp):
GATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGTTTTAATCTGCTCCACTGCAACTTCAGG
GAGATAAGACTGGATGC
Found at i:13120482 original size:44 final size:45
Alignment explanation
Indices: 13120408--13120514 Score: 148
Period size: 44 Copynumber: 2.4 Consensus size: 45
13120398 TCCACTGTCG
13120408 CTCAGGGAGATAAGACCTGCCATCTTCAGTCTGCCCCACTGCAAC
1 CTCAGGGAGATAAGACCTGCCATCTTCAGTCTGCCCCACTGCAAC
* * *
13120453 TTCA-GGAGGATAAGACCTG-CTTAC-TCAGTCTGCTCCACTGCAAC
1 CTCAGGGA-GATAAGACCTGCCAT-CTTCAGTCTGCCCCACTGCAAC
13120497 CTCAGGGAGATAAGACCT
1 CTCAGGGAGATAAGACCT
13120515 AATGCGATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
44 37 0.67
45 18 0.33
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.21
Consensus pattern (45 bp):
CTCAGGGAGATAAGACCTGCCATCTTCAGTCTGCCCCACTGCAAC
Found at i:13120620 original size:43 final size:43
Alignment explanation
Indices: 13120443--13120860 Score: 176
Period size: 44 Copynumber: 9.6 Consensus size: 43
13120433 TCAGTCTGCC
* * * * * *
13120443 CCACTGCAACTTCAGGAGGATAAGACCTGCTTAC-TCAGTCTGCT
1 CCACTGCAACTTCAGG-GGATAAGATCT-ATTGCTTTAATCTACT
* * * *
13120487 CCACTGCAACCTCAGGGAGATAAGACCTAATGC---GATCTACT
1 CCACTGCAACTTCAGGG-GATAAGATCTATTGCTTTAATCTACT
* * * *
13120528 CCACTGCAAATTCAGAGAGATAAGATCTATTGTTTTAATCTGCT
1 CCACTGCAACTTCAG-GGGATAAGATCTATTGCTTTAATCTACT
*
13120572 CCACTGCAACTTCAGGGGATAGGAT-TATTGGCTTTAATCTACT
1 CCACTGCAACTTCAGGGGATAAGATCTATT-GCTTTAATCTACT
* * * * * *
13120615 CCACTGCAACTTTAGGGAGATAAGATCTGCCA-T-CTTCAGTTTGCC
1 CCACTGCAACTTCAGGG-GATAAGATCT---ATTGCTTTAATCTACT
* * * * * * * *
13120660 CCACTGTAACTTTAGGGGGATAAGACCTGCTTAC-TCAGTCTGCT
1 CCACTGCAACTTCA-GGGGATAAGATCT-ATTGCTTTAATCTACT
** * * * * *
13120704 CCACTAAAACCTCAATGAGATAAGACCTAATGC---AATCTACT
1 CCACTGCAACTTC-AGGGGATAAGATCTATTGCTTTAATCTACT
** * ** * *
13120745 CTGCTGCAACTTCAGAGAGATAAGATCTATTATTTTAAACCACT
1 CCACTGCAACTTCAG-GGGATAAGATCTATTGCTTTAATCTACT
* * *
13120789 CTACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGG-GATAAGATCTATT-GCTTTAATCTACT
* *
13120833 TCACTGCAACTTCAGGGATATAAGATCT
1 CCACTGCAACTTCAGGG-GATAAGATCT
13120861 GCCATCTTCA
Statistics
Matches: 284, Mismatches: 68, Indels: 43
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.00
41 57 0.20
42 5 0.02
43 45 0.16
44 138 0.49
45 33 0.12
46 3 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGGATAAGATCTATTGCTTTAATCTACT
Found at i:13120684 original size:217 final size:218
Alignment explanation
Indices: 13120409--13120905 Score: 789
Period size: 217 Copynumber: 2.3 Consensus size: 218
13120399 CCACTGTCGC
* * * *
13120409 TCAGGGAGATAAGACCTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACCTGCT
1 TCAGGGAGATAAGATCTGCCATCTTCAGTCTGCCCCACTGTAACTTTAGGGGGATAAGACCTGCT
** * *
13120474 TACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTAATGCGATCTACTCCACTGCAAAT
66 TACTCAGTCTGCTCCACTAAAACCTCAAGGAGATAAGACCTAATGCAATCTACTCCACTGCAAAT
* * **
13120539 TCAGAGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTCAGGG-GATAGGATTATTGG
131 TCAGAGAGATAAGATCTATTATTTTAAACCACTCCACTGCAACTTCAGGGAGATAGGATTATTGG
13120603 CTTTAATCTACTCCACTGCAACT
196 CTTTAATCTACTCCACTGCAACT
* *
13120626 TTAGGGAGATAAGATCTGCCATCTTCAGTTTGCCCCACTGTAACTTTAGGGGGATAAGACCTGCT
1 TCAGGGAGATAAGATCTGCCATCTTCAGTCTGCCCCACTGTAACTTTAGGGGGATAAGACCTGCT
* ** *
13120691 TACTCAGTCTGCTCCACTAAAACCTCAATGAGATAAGACCTAATGCAATCTACTCTGCTGCAACT
66 TACTCAGTCTGCTCCACTAAAACCTCAAGGAGATAAGACCTAATGCAATCTACTCCACTGCAAAT
*
13120756 TCAGAGAGATAAGATCTATTATTTTAAACCACTCTACTGCAACTTCAGGGAGATAGGATTATTGG
131 TCAGAGAGATAAGATCTATTATTTTAAACCACTCCACTGCAACTTCAGGGAGATAGGATTATTGG
* *
13120821 CTTTAATCTGCTTCACTGCAACT
196 CTTTAATCTACTCCACTGCAACT
*
13120844 TCAGGGATATAAGATCTGCCATCTTCAGTCTGCCCCACTGTAACTTTAGGGGGATAAGACCT
1 TCAGGGAGATAAGATCTGCCATCTTCAGTCTGCCCCACTGTAACTTTAGGGGGATAAGACCT
13120906 TATGATTTTA
Statistics
Matches: 255, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
217 161 0.63
218 94 0.37
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (218 bp):
TCAGGGAGATAAGATCTGCCATCTTCAGTCTGCCCCACTGTAACTTTAGGGGGATAAGACCTGCT
TACTCAGTCTGCTCCACTAAAACCTCAAGGAGATAAGACCTAATGCAATCTACTCCACTGCAAAT
TCAGAGAGATAAGATCTATTATTTTAAACCACTCCACTGCAACTTCAGGGAGATAGGATTATTGG
CTTTAATCTACTCCACTGCAACT
Found at i:13122196 original size:52 final size:51
Alignment explanation
Indices: 13122131--13122233 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 51
13122121 ATTATTATTA
* * * *
13122131 TTTTAGACTCAAAGCGCCTTTTGCGGGTTTTCACTTTGGTCTCTCCTTTTT
1 TTTTAGAATCAAAGCGCCCTTTGCAGGTTTTCACTTTGGTCCCTCCTTTTT
*
13122182 TTTTAGGAATCAAAGCGCCCTTTGCAGGTTTTCACTTTGGTCCCTTCTTTTT
1 TTTTA-GAATCAAAGCGCCCTTTGCAGGTTTTCACTTTGGTCCCTCCTTTTT
13122234 CAAGTAAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 5 0.11
52 41 0.89
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (51 bp):
TTTTAGAATCAAAGCGCCCTTTGCAGGTTTTCACTTTGGTCCCTCCTTTTT
Found at i:13138418 original size:13 final size:13
Alignment explanation
Indices: 13138400--13138433 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13138390 ATCACTTGTG
*
13138400 AAGCACTTTTTCA
1 AAGCACTTTTTAA
13138413 AAGCACTTTTTAA
1 AAGCACTTTTTAA
13138426 AAGCACTT
1 AAGCACTT
13138434 CTCAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (13 bp):
AAGCACTTTTTAA
Found at i:13138699 original size:16 final size:18
Alignment explanation
Indices: 13138667--13138702 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
13138657 TTTAAATAAA
13138667 AATTTTATATAGTTTTTT
1 AATTTTATATAGTTTTTT
13138685 AATTTTAT-T-GTTTTTT
1 AATTTTATATAGTTTTTT
13138701 AA
1 AA
13138703 AAAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
AATTTTATATAGTTTTTT
Found at i:13140595 original size:17 final size:17
Alignment explanation
Indices: 13140575--13140650 Score: 50
Period size: 17 Copynumber: 4.4 Consensus size: 17
13140565 ATTTTCCTTA
13140575 TTCACATATTATATTAT
1 TTCACATATTATATTAT
*
13140592 TTCACACT-TTAT-TAAACT
1 TTCACA-TATTATAT-TA-T
* * *
13140610 TTTACCATATTTTCCTTA-
1 TTCA-CATATTAT-ATTAT
13140628 TTCACATATTATATTAT
1 TTCACATATTATATTAT
13140645 TTCACA
1 TTCACA
13140651 CTTTATTACT
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
16 4 0.09
17 24 0.55
18 9 0.20
19 5 0.11
20 1 0.02
21 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
TTCACATATTATATTAT
Found at i:13140609 original size:53 final size:53
Alignment explanation
Indices: 13140549--13140658 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
13140539 TAACACACTC
13140549 ATTAAACTTTTACCATATTTTCCTTATTCACATATTATATTATTTCACACTTT
1 ATTAAACTTTTACCATATTTTCCTTATTCACATATTATATTATTTCACACTTT
13140602 ATTAAACTTTTACCATATTTTCCTTATTCACATATTATATTATTTCACACTTT
1 ATTAAACTTTTACCATATTTTCCTTATTCACATATTATATTATTTCACACTTT
13140655 ATTA
1 ATTA
13140659 CTAATTTACC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (53 bp):
ATTAAACTTTTACCATATTTTCCTTATTCACATATTATATTATTTCACACTTT
Found at i:13147922 original size:15 final size:15
Alignment explanation
Indices: 13147902--13147942 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13147892 CTTTCCTTGG
13147902 TTTCTTTTCTTTTTC
1 TTTCTTTTCTTTTTC
*
13147917 TTTCTTTCTATTTTTC
1 TTTCTTT-TCTTTTTC
13147933 -TTC-TTTCTTT
1 TTTCTTTTCTTT
13147943 CAGTTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 2 0.09
15 10 0.43
16 7 0.30
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTTCTTTTTC
Found at i:13147936 original size:19 final size:18
Alignment explanation
Indices: 13147914--13147952 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
13147904 TCTTTTCTTT
*
13147914 TTCTTTCTTTCTATTTTTC
1 TTCTTTCTTTC-AGTTTTC
13147933 TTCTTTCTTTCAGTTTTC
1 TTCTTTCTTTCAGTTTTC
13147951 TT
1 TT
13147953 TTCTGTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TTCTTTCTTTCAGTTTTC
Found at i:13155490 original size:14 final size:15
Alignment explanation
Indices: 13155465--13155495 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
13155455 TTTAATATAT
13155465 AAAAATTATAAAGAA
1 AAAAATTATAAAGAA
13155480 AAAAATT-TAAAGAA
1 AAAAATTATAAAGAA
13155494 AA
1 AA
13155496 TGCATAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAATTATAAAGAA
Found at i:13157550 original size:34 final size:35
Alignment explanation
Indices: 13157495--13157561 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
13157485 CAAACACCAG
*
13157495 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
13157530 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
13157562 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:13163743 original size:27 final size:27
Alignment explanation
Indices: 13163705--13163767 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
13163695 CCACATTGGT
13163705 AGGCGGCACCAGTCACGCTTCCTTGAC
1 AGGCGGCACCAGTCACGCTTCCTTGAC
13163732 AGGCGGCACCAGTCACGCTTCCTTGAC
1 AGGCGGCACCAGTCACGCTTCCTTGAC
13163759 AGGCGGCAC
1 AGGCGGCAC
13163768 TGGTGCCAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.37, G:0.29, T:0.16
Consensus pattern (27 bp):
AGGCGGCACCAGTCACGCTTCCTTGAC
Found at i:13163937 original size:4 final size:4
Alignment explanation
Indices: 13163923--13163975 Score: 58
Period size: 4 Copynumber: 13.5 Consensus size: 4
13163913 GAATAGAAGG
*
13163923 AGAA A-AA AGAA AGAA ATGAGA AGAA AGAA AGAA A-AA AAAA AGAA A-AA
1 AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA AGAA AGAA AGAA AGAA
13163970 AGAA AG
1 AGAA AG
13163976 GGAAGGTATG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
3 9 0.21
4 28 0.65
5 4 0.09
6 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (4 bp):
AGAA
Done.