Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 11 of 214
Found at i:3227114 original size:21 final size:20
Alignment explanation
Indices: 3227081--3227123 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
3227071 ATCGTGTTTC
*
3227081 AAAAATTTTCGTGTTTTCAA
1 AAAAATTTCCGTGTTTTCAA
3227101 AAAAATTTCCCGTGTTTTCAA
1 AAAAATTT-CCGTGTTTTCAA
3227122 AA
1 AA
3227124 TTCTCGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
AAAAATTTCCGTGTTTTCAA
Found at i:3227204 original size:75 final size:74
Alignment explanation
Indices: 3227120--3227284 Score: 208
Period size: 75 Copynumber: 2.2 Consensus size: 74
3227110 CCGTGTTTTC
* * * *
3227120 AAAATTCTCGTATTT-TAAAATTTTCTTGTTTTCAAAAAATGATT-TCTGTGTTTCATAAATTTT
1 AAAATTCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAA--ATTGACCGTGTTTCATAAATTTT
**
3227183 TTTGTTTTAAAA
64 CGTG-TTTAAAA
*
3227195 AAAATTCTCGTCTTTCAAAAATTTTCGTGTTTTCAAAAAAATTGACCGTGTTTCATAAATTTTCG
1 AAAATTCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTGACCGTGTTTCATAAATTTTCG
*
3227260 TGTTTCAAA
66 TGTTTAAAA
*
3227269 AAAATTCTCGTGTTTC
1 AAAATTCTCGTATTTC
3227285 GTTTTTATCA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
74 24 0.30
75 33 0.42
76 22 0.28
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (74 bp):
AAAATTCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTGACCGTGTTTCATAAATTTTCG
TGTTTAAAA
Found at i:3227233 original size:38 final size:37
Alignment explanation
Indices: 3227081--3227284 Score: 179
Period size: 37 Copynumber: 5.5 Consensus size: 37
3227071 ATCGTGTTTC
* *
3227081 AAAAATTTTCGTGTTTTCAAAAAAATTTCCCGTGTTTTC--
1 AAAAATTCTCGTG-TTTC--AAAAATTT-TCGTGTTTTCAA
* * *
3227120 -AAAATTCTCGTATTT-TAAAATTTTCTTGTTTTCAA
1 AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAA
* ** *
3227155 AAAATGATT-TCTGTGTTTCATAAATTTTTTTGTTTTAAA
1 AAAA--ATTCTC-GTGTTTCAAAAATTTTCGTGTTTTCAA
*
3227194 AAAAATTCTCGTCTTTCAAAAATTTTCGTGTTTTCAA
1 AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAA
*
3227231 AAAAATTGAC-CGTGTTTCATAAATTTTCGTG-TTTCAA
1 AAAAATT--CTCGTGTTTCAAAAATTTTCGTGTTTTCAA
3227268 AAAAATTCTCGTGTTTC
1 AAAAATTCTCGTGTTTC
3227285 GTTTTTATCA
Statistics
Matches: 137, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
33 8 0.06
34 7 0.05
35 1 0.01
36 11 0.08
37 50 0.36
38 39 0.28
39 21 0.15
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (37 bp):
AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAA
Found at i:3227338 original size:16 final size:17
Alignment explanation
Indices: 3227317--3227429 Score: 59
Period size: 20 Copynumber: 6.3 Consensus size: 17
3227307 TTTCAAAAAC
*
3227317 AAATTTT-GTGTTTTAA
1 AAATTTTCGTGTTTCAA
3227333 AAATTTTCGTGTTTCAAAA
1 AAATTTTCGTGTTTC--AA
** *
3227352 AGAAAATTCGTGTTTTAAAA
1 A-AATTTTCGTG-TTT-CAA
* *
3227372 AAAATCTCGTGTTTC-A
1 AAATTTTCGTGTTTCAA
*
3227388 AAATTTTCGTGTTTTTAAAA
1 AAATTTTCGTG--TTT-CAA
* *
3227408 AAAATTTCGTGTTTCTA
1 AAATTTTCGTGTTTCAA
3227425 AAATT
1 AAATT
3227430 CTTGTATTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
16 17 0.23
17 11 0.15
18 9 0.12
19 11 0.15
20 22 0.30
21 3 0.04
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (17 bp):
AAATTTTCGTGTTTCAA
Found at i:3227339 original size:38 final size:37
Alignment explanation
Indices: 3227294--3227372 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
3227284 CGTTTTTATC
* * *
3227294 AAAATTTTTATGTTTTCAAAAACAAATTTTGTGTTTTA
1 AAAATTTTCATG-TTTCAAAAACAAAATTCGTGTTTTA
* *
3227332 AAAATTTTCGTGTTTCAAAAAGAAAATTCGTGTTTTA
1 AAAATTTTCATGTTTCAAAAACAAAATTCGTGTTTTA
3227369 AAAA
1 AAAA
3227373 AAATCTCGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 26 0.72
38 10 0.28
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (37 bp):
AAAATTTTCATGTTTCAAAAACAAAATTCGTGTTTTA
Found at i:3227365 original size:37 final size:38
Alignment explanation
Indices: 3227307--3227390 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
3227297 ATTTTTATGT
* * * *
3227307 TTTCAAAAACAAATTTTGTGTTTT-AAAAATTTTCGTG
1 TTTCAAAAACAAAATTCGTGTTTTAAAAAAATCTCGTG
*
3227344 TTTCAAAAAGAAAATTCGTGTTTTAAAAAAAATCTCGTG
1 TTTCAAAAACAAAATTCGTGTTTT-AAAAAAATCTCGTG
3227383 TTTCAAAA
1 TTTCAAAA
3227391 TTTTCGTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 21 0.52
39 19 0.47
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (38 bp):
TTTCAAAAACAAAATTCGTGTTTTAAAAAAATCTCGTG
Found at i:3227398 original size:55 final size:57
Alignment explanation
Indices: 3227304--3227427 Score: 155
Period size: 55 Copynumber: 2.2 Consensus size: 57
3227294 AAAATTTTTA
* *
3227304 TGTTTTCAAAAACAAATTTTGTGTTTTAAAAATTTTCGTG-TTTCAAAAAGAAAATTCG
1 TGTTTT-AAAAACAAATCTCGTGTTTTAAAAATTTTCGTGTTTTCAAAAA-AAAATTCG
* * *
3227362 TGTTTTAAAAA-AAATCTCGTG-TTTCAAAATTTTCGTGTTTTTAAAAAAAATTTCG
1 TGTTTTAAAAACAAATCTCGTGTTTTAAAAATTTTCGTGTTTTCAAAAAAAAATTCG
3227417 TGTTTCTAAAA
1 TGTTT-TAAAA
3227428 TTCTTGTATT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
55 27 0.46
56 21 0.36
57 5 0.08
58 6 0.10
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (57 bp):
TGTTTTAAAAACAAATCTCGTGTTTTAAAAATTTTCGTGTTTTCAAAAAAAAATTCG
Found at i:3227411 original size:36 final size:35
Alignment explanation
Indices: 3227358--3227462 Score: 133
Period size: 36 Copynumber: 2.9 Consensus size: 35
3227348 AAAAAGAAAA
3227358 TTCGTGTTTTAAAAAAAATCTCGTGTTTCAAAATT-
1 TTCGTGTTTTAAAAAAAAT-TCGTGTTTCAAAATTC
3227393 TTCGTGTTTTTAAAAAAAATTTCGTGTTTCTAAAATTC
1 TTCGTG-TTTTAAAAAAAA-TTCGTGTTTC-AAAATTC
* *
3227431 TT-GTATTTAAAAAAAAATTCGTGTTTTCAAAA
1 TTCGTGTTTTAAAAAAAATTCGTG-TTTCAAAA
3227463 AAAAAAGAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
35 16 0.25
36 36 0.57
37 9 0.14
38 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (35 bp):
TTCGTGTTTTAAAAAAAATTCGTGTTTCAAAATTC
Found at i:3232838 original size:1 final size:1
Alignment explanation
Indices: 3232832--3232899 Score: 64
Period size: 1 Copynumber: 68.0 Consensus size: 1
3232822 TATTATGCCT
* * * * * * * *
3232832 AAAAAAACAAAAAAAAAACAAACAAAAAAAACAAAAAAACAAAAAAAAACAAAAAAGAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3232897 AAA
1 AAA
3232900 TCAAGATGAA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:3232847 original size:10 final size:10
Alignment explanation
Indices: 3232832--3232887 Score: 78
Period size: 10 Copynumber: 5.4 Consensus size: 10
3232822 TATTATGCCT
3232832 AAAAAAACAAA
1 AAAAAAAC-AA
3232843 AAAAAAACAA
1 AAAAAAACAA
3232853 ACAAAAAA-AA
1 A-AAAAAACAA
3232863 CAAAAAAACAA
1 -AAAAAAACAA
3232874 AAAAAAACAA
1 AAAAAAACAA
3232884 AAAA
1 AAAA
3232888 GAAAAAGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
10 25 0.60
11 17 0.40
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:3232862 original size:17 final size:16
Alignment explanation
Indices: 3232832--3232899 Score: 84
Period size: 17 Copynumber: 4.1 Consensus size: 16
3232822 TATTATGCCT
3232832 AAAAAAAC-AAAAAAA
1 AAAAAAACAAAAAAAA
*
3232847 AAACAAACAAAAAAAA
1 AAAAAAACAAAAAAAA
3232863 CAAAAAAACAAAAAAAA
1 -AAAAAAACAAAAAAAA
*
3232880 ACAAAAAAGAAAAAGAAA
1 A-AAAAAACAAAAA-AAA
3232898 AA
1 AA
3232900 TCAAGATGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
15 7 0.15
16 8 0.17
17 27 0.59
18 4 0.09
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAAAAAA
Found at i:3232863 original size:24 final size:23
Alignment explanation
Indices: 3232832--3232899 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 23
3232822 TATTATGCCT
*
3232832 AAAAAAACAAAAAAAAAACAAACA
1 AAAAAAACAAAAAAAAAA-AAAAA
3232856 AAAAAAACAAAAAAACAAAAAAAA
1 AAAAAAACAAAAAAA-AAAAAAAA
* *
3232880 ACAAAAAAGAAAAAGAAAAA
1 A-AAAAAACAAAAAAAAAAA
3232900 TCAAGATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 24 0.62
25 15 0.38
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAAAAAAAAAAAAAA
Found at i:3232867 original size:18 final size:18
Alignment explanation
Indices: 3232832--3232887 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
3232822 TATTATGCCT
3232832 AAAAAAAC--AAAAAAA-
1 AAAAAAACAAAAAAAAAC
*
3232847 AAACAAAC-AAAAAAAAC
1 AAAAAAACAAAAAAAAAC
3232864 AAAAAAACAAAAAAAAAC
1 AAAAAAACAAAAAAAAAC
3232882 AAAAAA
1 AAAAAA
3232888 GAAAAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 7 0.19
16 7 0.19
17 7 0.19
18 15 0.42
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAAAAAAAC
Found at i:3232873 original size:32 final size:31
Alignment explanation
Indices: 3232832--3232899 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
3232822 TATTATGCCT
3232832 AAAAAAACAAAAAAAAAACAAACAAA-AAAAAC
1 AAAAAAAC-AAAAAAAAACAAA-AAAGAAAAAC
*
3232864 AAAAAAACAAAAAAAAACAAAAAAGAAAAAG
1 AAAAAAACAAAAAAAAACAAAAAAGAAAAAC
3232895 AAAAA
1 AAAAA
3232900 TCAAGATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 3 0.09
31 23 0.68
32 8 0.24
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (31 bp):
AAAAAAACAAAAAAAAACAAAAAAGAAAAAC
Found at i:3233865 original size:19 final size:19
Alignment explanation
Indices: 3233841--3233879 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3233831 TTTTTAATTT
3233841 CGGTTTTTTTTTAAATCAA
1 CGGTTTTTTTTTAAATCAA
3233860 CGGTTTTTTTTTAAATCAA
1 CGGTTTTTTTTTAAATCAA
3233879 C
1 C
3233880 TCATAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (19 bp):
CGGTTTTTTTTTAAATCAA
Found at i:3233942 original size:92 final size:94
Alignment explanation
Indices: 3233781--3233953 Score: 296
Period size: 92 Copynumber: 1.9 Consensus size: 94
3233771 TTTTCCAAAT
*
3233781 ATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGGT-
1 ATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTAGGTC
**
3233845 TTTTTTTTAAATCAACGGTTTTTTTTTAA
66 TTTTTTAAAAATCAACGGTTTTTTTTTAA
*
3233874 ATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
1 ATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTAGGTC
3233938 TTTTTTAAAAATCAAC
66 TTTTTTAAAAATCAAC
3233954 TCATAATACA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 46 0.61
93 29 0.39
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (94 bp):
ATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTAGGTC
TTTTTTAAAAATCAACGGTTTTTTTTTAA
Found at i:3233975 original size:74 final size:74
Alignment explanation
Indices: 3233862--3235123 Score: 1232
Period size: 75 Copynumber: 16.7 Consensus size: 74
3233852 TAAATCAACG
** *
3233862 GTTTTTTTTTAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
*
3233926 TTAATTTAT
66 TTAATTTCT
* * *
3233935 GTCTTTTTTAAAAATCAACTCATAATAC-AGAGGTGGGTTGAGCCTCGGGTCACGCTGAGGTTTT
1 GT-TTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
3233999 TTTAATTTCT
65 TTTAATTTCT
*
3234009 GTCTTTTTT-AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 GT-TTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
3234073 TTTAATTTCGTT
65 TTTAATTTC--T
* * **
3234085 TTTTTTTTTAAAATCAACTCATAAT-ATAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
*
3234149 TTAATTTAT
66 TTAATTTCT
* ** * *
3234158 GTCTTTTTTAAAAAATCAACTCATAATAC-AGATATGAGTTGAGCCTAGGGTCACGCTGAGGCAT
1 GT-TTTTTT-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
*
3234222 TTTTAATTTAT
64 TTTTAATTTCT
* * *
3234233 GTCTTTTTAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGATAT
1 GT-TTTTT-TAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
*
3234297 TTTTAATTTAT
64 TTTTAATTTCT
*
3234308 GTCTTTTTTAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
1 GT-TTTTTT-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
*
3234372 TTTTAATTTAT
64 TTTTAATTTCT
* **
3234383 GTCTTTTTT-TAAATCAACTCATAATATGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 GT-TTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
3234447 TTTAATTTCT
65 TTTAATTTCT
*
3234457 GTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 GTTTTTTT-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--
3234522 TTTTTAATTT-T
63 TTTTTAATTTCT
* * * ** * *
3234533 -TTTTTCATAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGT
1 GTTTTT--T--TAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGT
3234597 ATTTCTTTTAAATTTCT
62 A--T-TTTT-AATTTCT
* * * * * ** *
3234614 G-TTTCTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTC-GGACAATACCGAGGTATT
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC-ACGCTGAGGTA--
3234677 TCTTTTAAATTTCT
63 T-TTTT-AATTTCT
** * ** * *
3234691 GTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GACCATGCCGAGGTATTT
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T
3234755 CTTTTAAATTTCT
64 -TTTT-AATTTCT
* * ** * *
3234768 G-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTT
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T
3234832 CTTTTAAATTTCT
64 -TTTT-AATTTCT
* * * * * * ** * *
3234845 G-TTTTTCAAAAATCAACTTATATTGCTAGAGATGAGTTGAGCCTTGGACCATGCCGAGGTATTT
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T
3234909 CTTTTAAATTTCT
64 -TTTT-AATTTCT
* * * *
3234922 G-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCGGGTCACGCCGAGGTATTT
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
3234986 TTCAA-TTCAT
66 TT-AATTTC-T
* * * * * *
3234996 G-TTTTTCAAAAATCAACTCATACTGCGAGGGGTAAGTTGAGCCTCGGGTCGCATGCCGAGGTAT
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA-
3235060 TCTTTTCAAATTT-T
63 T-TTTT--AATTTCT
* * * *
3235074 G-TTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGGTC
1 GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
3235124 GCACGCCGAG
Statistics
Matches: 1077, Mismatches: 79, Indels: 63
0.88 0.06 0.05
Matches are distributed among these distances:
73 47 0.04
74 223 0.21
75 312 0.29
76 75 0.07
77 259 0.24
78 143 0.13
79 7 0.01
80 7 0.01
81 4 0.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (74 bp):
GTTTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
TTAATTTCT
Found at i:3234671 original size:77 final size:77
Alignment explanation
Indices: 3233872--3235117 Score: 1047
Period size: 77 Copynumber: 16.5 Consensus size: 77
3233862 GTTTTTTTTT
* * ** * *
3233872 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
* *
3233932 TATGTCTTTTTTAA
66 TCTG--TTTTTCAA
* * * ** * *
3233946 AAATCAACTCATAATAC-AGAGGTGGGTTGAGCCTCGGGTCACGCTGAGG--TTT-TTTT-AATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
**
3234006 TCTGTCTTTTTTA
66 TCTGT-TTTTCAA
* * ** * *
3234019 AAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
* **
3234080 TCGTTTTTTTTTTTA
66 TC---TGTTTTTCAA
* ** ** * * *
3234095 AAATCAACTCATAAT-ATAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTAATT-TA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTT--TTAAA
* *
3234157 TGTCT-TTTTTAAA
64 TTTCTGTTTTTCAA
* * ** * ** * * *
3234170 AAATCAACTCATAATAC-AGATATGAGTTGAGCCTAGGGTCACGCTGAGGCA--T-TTTT-AATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
* *
3234230 TATGTCTTTTTAAAA
66 TCTG--TTTTT-CAA
* * ** * * * *
3234245 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGATATTT-TTAATT-TA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTT--TTAAA
* *
3234307 TGTCT-TTTTTAAA
64 TTTCTGTTTTTCAA
* * ** * *
3234320 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
* ***
3234380 TATGTCTTTTTTT
66 TCTGT-TTTTCAA
* ** ** * *
3234393 AAATCAACTCATAATATGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
3234454 TCTGTTTTTTTCAA
66 TCTG--TTTTTCAA
** * *
3234468 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTT-AATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
3234531 T-T-TTTTTCATAAAAA
66 TCTGTTTTTC-----AA
*
3234546 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
*
3234611 TCTGTTTCTCAA
66 TCTGTTTTTCAA
* * *
3234623 AAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCGGACAATACCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
3234688 TCTGTTTTTCAAA
66 TCTGTTTTTC-AA
3234701 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GACCATGCCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
3234765 TCTGTTTTTCAA
66 TCTGTTTTTCAA
3234777 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
3234842 TCTGTTTTTCAA
66 TCTGTTTTTCAA
* * * *
3234854 AAATCAACTTATATTGCTAGAGATGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
3234919 TCTGTTTTTCAA
66 TCTGTTTTTCAA
* ** * *
3234931 AAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCGGGTCACGCCGAGGTA--T-TTTTCAA-T
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
3234992 TCATGTTTTTCAA
66 TC-TGTTTTTCAA
* * * *
3235005 AAATCAACTCATACTGCGAGGGGTAAGTTGAGCCTCGGGTCGCATGCCGAGGTA-TTCTTTTCAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC-CATGCCGAGGTATTTCTTTT-AA
3235069 ATTT-TGTTTTTCAA
63 ATTTCTGTTTTTCAA
*
3235083 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3235118 TGGGTCGCAC
Statistics
Matches: 1044, Mismatches: 81, Indels: 90
0.86 0.07 0.07
Matches are distributed among these distances:
71 12 0.01
72 2 0.00
73 58 0.06
74 201 0.19
75 243 0.23
76 79 0.08
77 284 0.27
78 134 0.13
79 18 0.02
80 7 0.01
81 1 0.00
82 5 0.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (77 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
TCTGTTTTTCAA
Found at i:3234807 original size:154 final size:153
Alignment explanation
Indices: 3233872--3235138 Score: 1217
Period size: 154 Copynumber: 8.4 Consensus size: 153
3233862 GTTTTTTTTT
* * * *
3233872 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAATTTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTTTAATTTC
** * * * ** * *
3233934 TGTCTTTTTTAAAAATCAACTCATAATAC-AGAGGTGGGTTGAGCCTCGGGTCACGCTGAGG--T
66 TGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTAT
**
3233996 TT-TTTT-AATTTCTGTCTTTTTTA
130 TTCTTTTAAATTTCTGT-TTTTCAA
* * *
3234019 AAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTTTAATTTC
* *** * ** ** * *
3234082 GTTTTTTTTTTTAAAATCAACTCATAAT-ATAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
66 --TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTA
* * *
3234146 TTT-TTAATT-TATGTCT-TTTTTAAA
129 TTTCTT--TTAAATTTCTGTTTTTCAA
* * ** * * * *
3234170 AAATCAACTCATAATAC-AGATATGAGTTGAGCCTAGGGTCACGCTGAGGCA--TTTTTAATTTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTTTAATTTC
* * * ** * * *
3234232 TGTCTTTTTAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGATA
66 TG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTA
* * *
3234296 TTT-TTAATT-TATGTCT-TTTTTAAA
129 TTTCTT--TTAAATTTCTGTTTTTCAA
* * * *
3234320 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAATTTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTTTAATTTC
*** * ** ** * *
3234382 TGTCTTTT-TTTAAATCAACTCATAATATGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-
66 TGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTAT
3234445 -T-TTTT-AATTTCTGTTTTTTTCAA
130 TTCTTTTAAATTTCTG--TTTTTCAA
*
3234468 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTTTAATTTC
*
3234532 T-TTTTTCATAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGG
66 TGTTTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGG
*
3234596 TATTTCTTTTAAATTTCTGTTTCTCAA
127 TATTTCTTTTAAATTTCTGTTTTTCAA
* * **
3234623 AAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTC-GGACAATACCGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-ACGCCGAGGTATTT-TTTT-AAT
3234687 TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GACCATGCCGAGGT
63 TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGT
3234751 ATTTCTTTTAAATTTCTGTTTTTCAA
128 ATTTCTTTTAAATTTCTGTTTTTCAA
** *
3234777 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT-TTTT-AATT
* * * *
3234842 TCTGTTTTTC-AAAAATCAACTTATATTGCTAGAGATGAGTTGAGCCTTGGACCATGCCGAGGTA
64 TCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTA
3234906 TTTCTTTTAAATTTCTGTTTTTCAA
129 TTTCTTTTAAATTTCTGTTTTTCAA
* *
3234931 AAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCGGGTCACGCCGAGGTA-TTTTTCAA-TTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTTTAATTTC
* * * *
3234994 ATGTTTTTC-AAAAATCAACTCATACTGCGAGGGGTAAGTTGAGCCTCGGGTCGCATGCCGAGGT
66 -TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC-CATGCCGAGGT
3235058 A-TTCTTTTCAAATTT-TGTTTTTCAA
128 ATTTCTTTT-AAATTTCTGTTTTTCAA
* * *
3235083 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGGTCGCACGCCGAGCTATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCCGAGGTATT
3235139 CTCGATTTCT
Statistics
Matches: 1000, Mismatches: 78, Indels: 76
0.87 0.07 0.07
Matches are distributed among these distances:
145 7 0.01
147 20 0.02
148 88 0.09
149 125 0.12
150 184 0.18
151 78 0.08
152 61 0.06
153 105 0.10
154 209 0.21
155 95 0.09
156 8 0.01
157 13 0.01
158 1 0.00
159 6 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (153 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTTTAATTTC
TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATT
TCTTTTAAATTTCTGTTTTTCAA
Found at i:3234819 original size:231 final size:226
Alignment explanation
Indices: 3233872--3235117 Score: 1156
Period size: 231 Copynumber: 5.5 Consensus size: 226
3233862 GTTTTTTTTT
* * ** * *
3233872 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-T-TTTT-AATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTCTTTTAAATTT
* * * * * * * *
3233933 ATGTCTTTTTTAAAAATCAACTCATAATAC-AGAGGTGGGTTGAGCCTCGGGTCACGCTGAGG--
66 CTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCCGAGGTA
** * *
3233995 TTT-TTTT-AATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
128 TTTCTTTTAAATTTCTGT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* **
3234058 TCACGCTGAGGTA--TTTTTAATTTCGTTTTTTTTTTTA
192 TCACGCCGAGGTATTTTTTTAATTTC----TTTTTTCAA
* ** ** * *
3234095 AAATCAACTCATAAT-ATAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-T-TTTT-AATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTCTTTTAAATTT
* * * * ** * * * * *
3234156 ATGTCTTTTTTAAAAAATCAACTCATAATAC-AGATATGAGTTGAGCCTAGGGTCACGCTGAGGC
66 CTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CGGACATGCCGAGGT
* * * *
3234220 A--T-TTTT-AATTTATGTCTTTTTAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
127 ATTTCTTTTAAATTTCTG--TTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * * *
3234280 GGGTCACGCTGAGATATTTTTAATTTATGTCTTTTTTAAA
189 GGGTCACGCCGAGGTATTTTT--TTAATTTCTTTTTTCAA
* * ** * *
3234320 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-T-TTTT-AATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTCTTTTAAATTT
* *** * ** * * *
3234381 ATGTCTTTTTTTAAATCAACTCATAATATGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-
66 CTGT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCCGAGGTAT
3234445 -T-TTTT-AATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
129 TTCTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
3234507 TCACGCTGAGGTATTTTTTTAATTT-TTTTTTCATAAAAA
192 TCACGCCGAGGTATTTTTTTAATTTCTTTTTTC-----AA
*
3234546 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTA-TTCTTTTAAATT
* * *
3234611 TCTGTTTCTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCGGACAATACCGAGGTAT
65 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-ATGCCGAGGTAT
**
3234676 TTCTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAC
129 TTCTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
3234740 CATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAA
193 CACGCCGAGGTATTT-TTTT-AATTTCT-TTTTTCAA
3234777 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTA-TTCTTTTAAATT
* * * *
3234842 TCTGTTTTTCAAAAATCAACTTATATTGCTAGAGATGAGTTGAGCCTTGGACCATGCCGAGGTAT
65 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-CATGCCGAGGTAT
*
3234907 TTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCGGGTC
129 TTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
3234972 ACGCCGAGGTA-TTTTTCAA-TTCATGTTTTTCAA
194 ACGCCGAGGTATTTTTTTAATTTC-T-TTTTTCAA
* * * *
3235005 AAATCAACTCATACTGCGAGGGGTAAGTTGAGCCTCGGGTCGCATGCCGAGGTATTCTTTTCAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC-CATGCCGAGGTATTCTTTT-AAA
*
3235070 TTT-TGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
63 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3235118 TGGGTCGCAC
Statistics
Matches: 902, Mismatches: 78, Indels: 80
0.85 0.07 0.08
Matches are distributed among these distances:
221 6 0.01
222 6 0.01
223 99 0.11
224 148 0.16
225 106 0.12
226 36 0.04
227 35 0.04
228 45 0.05
229 65 0.07
230 104 0.12
231 164 0.18
232 22 0.02
233 46 0.05
234 13 0.01
235 1 0.00
236 6 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (226 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTCTTTTAAATTT
CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACATGCCGAGGTATTT
CTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
GCCGAGGTATTTTTTTAATTTCTTTTTTCAA
Found at i:3235417 original size:29 final size:29
Alignment explanation
Indices: 3235327--3235451 Score: 130
Period size: 29 Copynumber: 4.2 Consensus size: 29
3235317 TTTATTTTTG
*
3235327 CATTTTGACCCCTAAACTTTTCCAAAATTG
1 CATTTTGACCCCTAAACTTTT-CAAAATTA
*
3235357 CATTTTGACCCCTAAACTTTTCAAAATCA
1 CATTTTGACCCCTAAACTTTTCAAAATTA
**
3235386 CATTTCT-ACCCCTAAACTTTTCTGAATTA
1 CATTT-TGACCCCTAAACTTTTCAAAATTA
* *
3235415 CA-TTTGAGCCCTTAAA-ATTTCTATAAATTA
1 CATTTTGA-CCCCTAAACTTTTC-A-AAATTA
3235445 CATTTTG
1 CATTTTG
3235452 GCACCATATT
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
27 1 0.01
28 7 0.09
29 39 0.49
30 29 0.36
31 4 0.05
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (29 bp):
CATTTTGACCCCTAAACTTTTCAAAATTA
Found at i:3235690 original size:12 final size:12
Alignment explanation
Indices: 3235673--3235706 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3235663 CCAAGCAAGA
*
3235673 AGCAAAAAAAAG
1 AGCAAAAAAAAC
*
3235685 AGCAAAAACAAC
1 AGCAAAAAAAAC
3235697 AGCAAAAAAA
1 AGCAAAAAAA
3235707 GGCATACCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (12 bp):
AGCAAAAAAAAC
Found at i:3235842 original size:16 final size:16
Alignment explanation
Indices: 3235823--3235853 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3235813 ACAACAAGCA
3235823 AAAGAGAAAAAAAGAG
1 AAAGAGAAAAAAAGAG
*
3235839 AAAGAGAAAAGAAGA
1 AAAGAGAAAAAAAGA
3235854 AAGATGGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAAAAAGAG
Found at i:3235965 original size:4 final size:4
Alignment explanation
Indices: 3235956--3236028 Score: 60
Period size: 4 Copynumber: 17.8 Consensus size: 4
3235946 GGCTGATCGG
* *
3235956 GAAA GAAA GAAA AAAGA GAAA GAAAA GAGAA GAAA GAAA GAGAA -AGA
1 GAAA GAAA GAAA GAA-A GAAA G-AAA GA-AA GAAA GAAA GA-AA GAAA
* *
3236003 GAAA AAAA GAAA GAAA -ACA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA
3236029 GAAGGAAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
3 3 0.05
4 39 0.71
5 13 0.24
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:3235977 original size:13 final size:13
Alignment explanation
Indices: 3235959--3236019 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
3235949 TGATCGGGAA
3235959 AGAAAGAAAAAAG
1 AGAAAGAAAAAAG
3235972 AGAAAG--AAAAG
1 AGAAAGAAAAAAG
3235983 AG-AAGAAAGAAAG
1 AGAAAGAAA-AAAG
*
3235996 AGAAAGAGAAAAAA
1 AGAAAGA-AAAAAG
3236010 AGAAAGAAAA
1 AGAAAGAAAA
3236020 CAGAAAGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
10 3 0.07
11 7 0.17
12 1 0.02
13 15 0.36
14 14 0.33
15 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAAG
Found at i:3235991 original size:31 final size:30
Alignment explanation
Indices: 3235956--3236044 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 30
3235946 GGCTGATCGG
3235956 GAAAGAAAGAAAAAAGAGAAAGAAAAGAGAA
1 GAAAGAAAGAAAAAAGAGAAAGAAAAGA-AA
*
3235987 GAAAGAAAG-AGAAAGAGAAA-AAAAGAAA
1 GAAAGAAAGAAAAAAGAGAAAGAAAAGAAA
* * *
3236015 GAAA-ACAGAAAGAAGAAGGAAGAAAA-AAA
1 GAAAGAAAGAAAAAAG-AGAAAGAAAAGAAA
3236044 G
1 G
3236045 TGAGATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.06
28 10 0.20
29 14 0.28
30 14 0.28
31 9 0.18
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (30 bp):
GAAAGAAAGAAAAAAGAGAAAGAAAAGAAA
Found at i:3235995 original size:24 final size:24
Alignment explanation
Indices: 3235957--3236044 Score: 94
Period size: 24 Copynumber: 3.7 Consensus size: 24
3235947 GCTGATCGGG
3235957 AAAGA-AAGAAA-AAAGAGAAAGA
1 AAAGAGAAGAAAGAAAGAGAAAGA
3235979 AAAGAGAAGAAAGAAAGAGAAAGA
1 AAAGAGAAGAAAGAAAGAGAAAGA
* *
3236003 GAAA-AAAAGAAAGAAAACAGAAAGA
1 -AAAGAGAAGAAAG-AAAGAGAAAGA
*
3236028 AGAAG-GAAGAAAAAAAG
1 A-AAGAGAAGAAAGAAAG
3236045 TGAGATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 5 0.09
23 6 0.11
24 23 0.42
25 21 0.38
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (24 bp):
AAAGAGAAGAAAGAAAGAGAAAGA
Found at i:3236001 original size:6 final size:6
Alignment explanation
Indices: 3235968--3236006 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
3235958 AAGAAAGAAA
*
3235968 AAAGAG AAAGA- AAAGAG AAGAAAG AAAGAG AAAGAG AAA
1 AAAGAG AAAGAG AAAGAG AA-AGAG AAAGAG AAAGAG AAA
3236007 AAAAGAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:3236031 original size:38 final size:37
Alignment explanation
Indices: 3235959--3236043 Score: 106
Period size: 38 Copynumber: 2.4 Consensus size: 37
3235949 TGATCGGGAA
* *
3235959 AGAAAGAAAAAAGAGAAAGAAAAGAGAAGAAAGAAAG
1 AGAAAGAAAAAAAAGAAAGAAAACAGAAGAAAGAAAG
3235996 AGAAAGAGAAAAAAAGAAAGAAAACAGAA-AGAAG-AAG
1 AGAAAGA-AAAAAAAGAAAGAAAACAGAAGA-AAGAAAG
3236033 -G-AAGAAAAAAA
1 AGAAAGAAAAAAA
3236044 GTGAGATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 6 0.14
35 4 0.09
36 1 0.02
37 11 0.25
38 22 0.50
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (37 bp):
AGAAAGAAAAAAAAGAAAGAAAACAGAAGAAAGAAAG
Found at i:3236795 original size:17 final size:17
Alignment explanation
Indices: 3236775--3236975 Score: 109
Period size: 17 Copynumber: 10.8 Consensus size: 17
3236765 CTTAAAAAAA
3236775 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
3236792 TCGTGTTTTCAAAAAAATTT
1 TCGTG-TTTC--AAAAATTT
* *
3236812 CCCGTGTTTTC-AAAATTC
1 -TCGTG-TTTCAAAAATTT
*
3236830 TCGTATTTC-AAAATTT
1 TCGTGTTTCAAAAATTT
*
3236846 TCTTGTTTTCAAAAAAAATGATT
1 TCGTG-TTTC---AAAAAT--TT
*
3236869 TCCGTGTTTCATAAATTT
1 T-CGTGTTTCAAAAATTT
* * *
3236887 TTGTGTTTAAAAAAAAATTC
1 TCGTGTTT---CAAAAATTT
*
3236907 TCGTCTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
3236924 TCGTGTTTTCAAAAAAATTGA
1 TCGTG-TTTC--AAAAATT-T
* *
3236945 CCGTGTTTCATAAATTT
1 TCGTGTTTCAAAAATTT
3236962 TCGTGTTTCAAAAA
1 TCGTGTTTCAAAAA
3236976 AAATTCTCGT
Statistics
Matches: 141, Mismatches: 24, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
16 13 0.09
17 41 0.29
18 23 0.16
20 36 0.26
21 18 0.13
23 7 0.05
24 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:3236817 original size:21 final size:20
Alignment explanation
Indices: 3236784--3236826 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
3236774 ATCGTGTTTC
*
3236784 AAAAATTTTCGTGTTTTCAA
1 AAAAATTTCCGTGTTTTCAA
3236804 AAAAATTTCCCGTGTTTTCAA
1 AAAAATTT-CCGTGTTTTCAA
3236825 AA
1 AA
3236827 TTCTCGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
AAAAATTTCCGTGTTTTCAA
Found at i:3236959 original size:75 final size:75
Alignment explanation
Indices: 3236823--3236985 Score: 247
Period size: 75 Copynumber: 2.1 Consensus size: 75
3236813 CCGTGTTTTC
*
3236823 AAAATTCTCGTATTTCAAAATTTTCTTGTTTTCAAAAAAAATGATTTCCGTGTTTCATAAATTTT
1 AAAATTCTCGTATTTCAAAATTTTCGTGTTTTCAAAAAAAATGA--TCCGTGTTTCATAAATTTT
*
3236888 TGTGTTTAAAAA
64 CGTGTTTAAAAA
* *
3236900 AAAATTCTCGTCTTTCAAAAATTTTCGTGTTTTCAAAAAAATTGA-CCGTGTTTCATAAATTTTC
1 AAAATTCTCGTATTTC-AAAATTTTCGTGTTTTCAAAAAAAATGATCCGTGTTTCATAAATTTTC
*
3236964 GTGTTTCAAAA
65 GTGTTTAAAAA
3236975 AAAATTCTCGT
1 AAAATTCTCGT
3236986 GCTTCGTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
75 39 0.49
77 15 0.19
78 26 0.32
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (75 bp):
AAAATTCTCGTATTTCAAAATTTTCGTGTTTTCAAAAAAAATGATCCGTGTTTCATAAATTTTCG
TGTTTAAAAA
Found at i:3237044 original size:16 final size:17
Alignment explanation
Indices: 3237023--3237058 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3237013 TTTCAAAAAC
*
3237023 AAATTTT-GTGTTTTAA
1 AAATTTTCGTGTTTCAA
3237039 AAATTTTCGTGTTTCAA
1 AAATTTTCGTGTTTCAA
3237056 AAA
1 AAA
3237059 GAAAATTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (17 bp):
AAATTTTCGTGTTTCAA
Found at i:3237054 original size:37 final size:38
Alignment explanation
Indices: 3236823--3237079 Score: 188
Period size: 37 Copynumber: 6.6 Consensus size: 38
3236813 CCGTGTTTTC
* *
3236823 AAAATTCTCGTATTTC-AAAATTTTCTTGTTTTCAAAA
1 AAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
* * * *
3236860 AAAATGATTTCCGTGTTTCATAAATTTTTGTG-TTTAAAAA
1 AAAAT--TCT-CGTGTTTCAAAAATTTTCGTGTTTTCAAAA
*
3236900 AAAATTCTCGTCTTTCAAAAATTTTCGTGTTTTC-AAA
1 AAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
*
3236937 AAAATTGAC-CGTGTTTCATAAATTTTCGTG-TTTCAAAA
1 AAAATT--CTCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
* **
3236975 AAAATTCTCGTGCTTCGTTTTTATCAAAATTTTTATGTTTTCAAAA
1 AAAATTCTC--G--T-G-TTTCA--AAAATTTTCGTGTTTTCAAAA
* *
3237021 ACAAATT-TTGTGTTTTAAAAATTTTCGTG-TTTCAAAA
1 A-AAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
*
3237058 AGAAAAT-TCGTGTTTTCAAAAA
1 A-AAATTCTCGTG-TTTCAAAAA
3237080 AAAACCTCGT
Statistics
Matches: 176, Mismatches: 24, Indels: 39
0.74 0.10 0.16
Matches are distributed among these distances:
36 1 0.01
37 54 0.31
38 51 0.29
39 4 0.02
40 24 0.14
41 11 0.06
42 2 0.01
43 4 0.02
44 1 0.01
45 9 0.05
46 10 0.06
47 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (38 bp):
AAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
Found at i:3237105 original size:37 final size:36
Alignment explanation
Indices: 3237064--3237170 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 36
3237054 AAAAAGAAAA
*
3237064 TTCGTGTTTTCAAAAAAAAACCTCGTGTTTCAAAATT-
1 TTCGTGTTTT-AAAAAAAAA-ATCGTGTTTCAAAATTC
**
3237101 TTCGTGTTTTTAAAAAAAATTTCGTGTTTCTAAAATTC
1 TTCGTG-TTTTAAAAAAAAAATCGTGTTTC-AAAATTC
*
3237139 TT-GT-ATTTAAAAAAAAAATCGTGTTTTCAAAA
1 TTCGTGTTTTAAAAAAAAAATCGTG-TTTCAAAA
3237171 AAAAAAGTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
35 20 0.33
36 13 0.21
37 22 0.36
38 6 0.10
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.41
Consensus pattern (36 bp):
TTCGTGTTTTAAAAAAAAAATCGTGTTTCAAAATTC
Found at i:3237126 original size:36 final size:34
Alignment explanation
Indices: 3237060--3237170 Score: 123
Period size: 35 Copynumber: 3.1 Consensus size: 34
3237050 TTTCAAAAAG
* *
3237060 AAAATTCGTGTTTTCAAAAAAAAACCTCGTGTTTC
1 AAAATTCGTGTTTTTAAAAAAAAA-ATCGTGTTTC
**
3237095 AAAATTTTCGTGTTTTTAAAAAAAATTTCGTGTTTC
1 AAAA--TTCGTGTTTTTAAAAAAAAAATCGTGTTTC
* *
3237131 TAAAATTCTTGTATTTAAAAAAAAAATCGTGTTTTC
1 -AAAATTCGTGTTTTTAAAAAAAAAATCGTG-TTTC
3237167 AAAA
1 AAAA
3237171 AAAAAAGTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
35 30 0.46
36 13 0.20
37 22 0.34
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.40
Consensus pattern (34 bp):
AAAATTCGTGTTTTTAAAAAAAAAATCGTGTTTC
Found at i:3237126 original size:57 final size:58
Alignment explanation
Indices: 3237010--3237129 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 58
3237000 AAAATTTTTA
* ** *
3237010 TGTTTTCAAAAACAAATTTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAGAAAATTCG
1 TGTTTTCAAAAAAAAACCTCGTGTTTTAAAAATTTTCGTGTTTCAAAAAGAAAATTCG
* * *
3237068 TGTTTTCAAAAAAAAACCTCGTG-TTTCAAAATTTTCGTGTTTTTAAAAA-AAATTTCG
1 TGTTTTCAAAAAAAAACCTCGTGTTTTAAAAATTTTCGTG-TTTCAAAAAGAAAATTCG
3237125 TGTTT
1 TGTTT
3237130 CTAAAATTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 27 0.50
58 27 0.50
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (58 bp):
TGTTTTCAAAAAAAAACCTCGTGTTTTAAAAATTTTCGTGTTTCAAAAAGAAAATTCG
Found at i:3237134 original size:20 final size:19
Alignment explanation
Indices: 3237013--3237135 Score: 85
Period size: 20 Copynumber: 6.4 Consensus size: 19
3237003 ATTTTTATGT
*
3237013 TTTCAAAAACAAATTTTGTG
1 TTTCAAAAA-AAATTTCGTG
* *
3237033 TTT--TAAAAATTTTCGTG
1 TTTCAAAAAAAATTTCGTG
*
3237050 TTTCAAAAAGAAAATTCGTG
1 TTTCAAAAA-AAATTTCGTG
**
3237070 TTTTCAAAAAAAAACCTCGTG
1 -TTTC-AAAAAAAATTTCGTG
*
3237091 TTTC---AAAATTTTCGTG
1 TTTCAAAAAAAATTTCGTG
*
3237107 TTTTTAAAAAAAATTTCGTG
1 -TTTCAAAAAAAATTTCGTG
3237127 TTTCTAAAA
1 TTTC-AAAA
3237136 TTCTTGTATT
Statistics
Matches: 79, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
16 9 0.11
17 14 0.18
18 3 0.04
19 6 0.08
20 30 0.38
21 12 0.15
22 5 0.06
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
TTTCAAAAAAAATTTCGTG
Found at i:3238334 original size:131 final size:132
Alignment explanation
Indices: 3238101--3238358 Score: 482
Period size: 131 Copynumber: 2.0 Consensus size: 132
3238091 ATATAAAAAC
* *
3238101 ATAATTAAATATTTAAATTAACTTTTAATCCAGTGCGATTTTTAGTTGATAAAAACATTAACCCA
1 ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
3238166 CGTTAGACTATATGATTATATAAGTATATATATGGTAACACTTCTTAATTAC-ATTTTTTTTGAA
66 CGTTAGACTATATGATTATATAAGTATATATATGGTAACACTTCTTAATTACAATTTTTTTTGAA
3238230 TT
131 TT
3238232 ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
1 ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
*
3238297 CGTTAGACTATATGGTTATATAAGTATATATATGGTAACACTTCTTAATTACAATTTTTTTT
66 CGTTAGACTATATGATTATATAAGTATATATATGGTAACACTTCTTAATTACAATTTTTTTT
3238359 TTTGAATTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
131 114 0.93
132 9 0.07
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (132 bp):
ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
CGTTAGACTATATGATTATATAAGTATATATATGGTAACACTTCTTAATTACAATTTTTTTTGAA
TT
Found at i:3245198 original size:35 final size:35
Alignment explanation
Indices: 3245109--3245179 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
3245099 GTTTACAATT
*
3245109 ATATTGATACACTATTAATATTTATCAATTTTTAC
1 ATATGGATACACTATTAATATTTATCAATTTTTAC
3245144 ATATGGATACACTATTAATATTTATCAATTTTTAC
1 ATATGGATACACTATTAATATTTATCAATTTTTAC
3245179 A
1 A
3245180 AGGTTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.46
Consensus pattern (35 bp):
ATATGGATACACTATTAATATTTATCAATTTTTAC
Found at i:3248353 original size:18 final size:20
Alignment explanation
Indices: 3248323--3248359 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3248313 TAAAGTATTT
3248323 AATTTATAGCATAA-ATAAC
1 AATTTATAGCATAATATAAC
3248342 AATTTA-AGCATAATATAA
1 AATTTATAGCATAATATAA
3248360 GGAACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTTATAGCATAATATAAC
Found at i:3263839 original size:45 final size:45
Alignment explanation
Indices: 3263759--3263878 Score: 120
Period size: 45 Copynumber: 2.7 Consensus size: 45
3263749 GCAGATTTTT
* * * * *
3263759 ATATG-CGAACTCATATATGCT-AACTCGTAGAAGAAAATTCATAG
1 ATATGACGAACTCATACATG-TGAATTCATAGTAGAAAATTCATAA
*
3263803 ATGTGGA-GAACTCATACATGTGAATTCATAGTAGAAAATTCATAA
1 ATAT-GACGAACTCATACATGTGAATTCATAGTAGAAAATTCATAA
* **
3263848 ATATGACGGACTCATACATGTGGGTTCATAG
1 ATATGACGAACTCATACATGTGAATTCATAG
3263879 ACATAGTGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
44 6 0.10
45 56 0.90
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (45 bp):
ATATGACGAACTCATACATGTGAATTCATAGTAGAAAATTCATAA
Found at i:3263991 original size:31 final size:31
Alignment explanation
Indices: 3263840--3263997 Score: 140
Period size: 31 Copynumber: 5.1 Consensus size: 31
3263830 ATAGTAGAAA
* *
3263840 ATTCATAAATAT-GACGGACTCATACATGTGG
1 ATTCATAGATATGGA-GAACTCATACATGTGG
* * * * * ****
3263871 GTTCATAGACATAGTGAACTTATACATACAA
1 ATTCATAGATATGGAGAACTCATACATGTGG
* * *
3263902 ATTCATAGATATGGCGAACTCATACAAGCGG
1 ATTCATAGATATGGAGAACTCATACATGTGG
* *
3263933 ATTCATAGATATAGCA-AACTCATACATGTTG
1 ATTCATAGATAT-GGAGAACTCATACATGTGG
3263964 ATTCATAGATATGGAGAACTCATACATGTGG
1 ATTCATAGATATGGAGAACTCATACATGTGG
3263995 ATT
1 ATT
3263998 GTGTCACGGA
Statistics
Matches: 98, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
30 2 0.02
31 94 0.96
32 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (31 bp):
ATTCATAGATATGGAGAACTCATACATGTGG
Found at i:3263997 original size:62 final size:62
Alignment explanation
Indices: 3263838--3263997 Score: 178
Period size: 62 Copynumber: 2.6 Consensus size: 62
3263828 TCATAGTAGA
* * * ** *
3263838 AAATTCATAAATAT-GACGGACTCATACATGTGGGTTCATAGACATAGTGAACTTATACATAC
1 AAATTCATAGATATGGA-GAACTCATACATGTGGATTCATAGACATAGCAAACTCATACATAC
* * * * **
3263900 AAATTCATAGATATGGCGAACTCATACAAGCGGATTCATAGATATAGCAAACTCATACATGT
1 AAATTCATAGATATGGAGAACTCATACATGTGGATTCATAGACATAGCAAACTCATACATAC
**
3263962 TGATTCATAGATATGGAGAACTCATACATGTGGATT
1 AAATTCATAGATATGGAGAACTCATACATGTGGATT
3263998 GTGTCACGGA
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
62 79 0.99
63 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (62 bp):
AAATTCATAGATATGGAGAACTCATACATGTGGATTCATAGACATAGCAAACTCATACATAC
Found at i:3270115 original size:29 final size:30
Alignment explanation
Indices: 3270069--3270156 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 30
3270059 TGATTTAATA
*
3270069 TGCAATTATATGCATG-AACTTTAATTTGG
1 TGCAATTATATACATGAAACTTTAATTTGG
* * *
3270098 TGCAATTATACACGTGAAACTCTAATTGTGG
1 TGCAATTATATACATGAAACTTTAATT-TGG
* * * *
3270129 TTCAAATGTATACTTGAAACTTTAATTT
1 TGCAATTATATACATGAAACTTTAATTT
3270157 TGATTTAATC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 13 0.28
30 10 0.21
31 24 0.51
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (30 bp):
TGCAATTATATACATGAAACTTTAATTTGG
Found at i:3270606 original size:17 final size:17
Alignment explanation
Indices: 3270580--3270613 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3270570 AGACATAACT
*
3270580 AAAGTTTTAAAATTAAA
1 AAAGTATTAAAATTAAA
3270597 AAAGTATTAAAATTAAA
1 AAAGTATTAAAATTAAA
3270614 TGATCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
AAAGTATTAAAATTAAA
Found at i:3276126 original size:7 final size:7
Alignment explanation
Indices: 3276116--3276141 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3276106 TTGGGGTAGA
3276116 TGGGAGG
1 TGGGAGG
3276123 TGGGAGG
1 TGGGAGG
3276130 TGGGAGG
1 TGGGAGG
3276137 TGGGA
1 TGGGA
3276142 TGGGAAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:3276177 original size:31 final size:30
Alignment explanation
Indices: 3276142--3276201 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
3276132 GGAGGTGGGA
* *
3276142 TGGGAAGAGAATGAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* *
3276173 TGGGAGGGAGTAAAAATTTTAGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
3276202 TAAAATGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:3276428 original size:9 final size:9
Alignment explanation
Indices: 3276414--3276450 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
3276404 TATAGTTTGA
3276414 TATTCGAAT
1 TATTCGAAT
3276423 TATTCGAAT
1 TATTCGAAT
*
3276432 TATTCGAGT
1 TATTCGAAT
3276441 TATTCGAAT
1 TATTCGAAT
3276450 T
1 T
3276451 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:3283818 original size:21 final size:20
Alignment explanation
Indices: 3283794--3283835 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
3283784 AATGTTATTA
3283794 ATATAAAAGTA-AATACAAATT
1 ATATAAAA-TATAATA-AAATT
*
3283815 ATATCAAATATAATAAAATT
1 ATATAAAATATAATAAAATT
3283835 A
1 A
3283836 AACTTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (20 bp):
ATATAAAATATAATAAAATT
Found at i:3285610 original size:13 final size:13
Alignment explanation
Indices: 3285594--3285632 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3285584 TAGGGTCAAA
*
3285594 GTGTAGGTTGAGT
1 GTGTAGGTTGAGC
3285607 GTGTAGGTTGAGC
1 GTGTAGGTTGAGC
3285620 GTGTAGGTTGAGC
1 GTGTAGGTTGAGC
3285633 AATTGTGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.05, G:0.46, T:0.33
Consensus pattern (13 bp):
GTGTAGGTTGAGC
Found at i:3285890 original size:25 final size:25
Alignment explanation
Indices: 3285852--3285908 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
3285842 TTTTCTCATG
* *
3285852 TTCTCTTCTCCCTCTTTCATTTT-TT
1 TTCTCTTATCCCTCTCTC-TTTTCTT
*
3285877 TTCTCTTATTCCTCTCTCTTTTCTT
1 TTCTCTTATCCCTCTCTCTTTTCTT
*
3285902 TTTTCTT
1 TTCTCTT
3285909 TATCAGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (25 bp):
TTCTCTTATCCCTCTCTCTTTTCTT
Found at i:3287808 original size:16 final size:15
Alignment explanation
Indices: 3287776--3287811 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3287766 TTTAATTTTC
3287776 AAAATTTCAAAAAAA
1 AAAATTTCAAAAAAA
* *
3287791 AAAATTTTAAAAATA
1 AAAATTTCAAAAAAA
3287806 AAAATT
1 AAAATT
3287812 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATTTCAAAAAAA
Found at i:3287841 original size:30 final size:31
Alignment explanation
Indices: 3287807--3287908 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
3287797 TTAAAAATAA
*
3287807 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
3287837 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
3287867 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
3287897 AAATTTCATTTT
1 AAATTTCATTTT
3287909 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:3288159 original size:20 final size:21
Alignment explanation
Indices: 3288134--3288182 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
3288124 GAATCTCCAA
* *
3288134 AAAAAAAGTTTCAAAAA-GAG
1 AAAAAAAGCTTCAAAAATAAG
3288154 AAAAAAAGCTTCAAAAATAAG
1 AAAAAAAGCTTCAAAAATAAG
3288175 AAAAAAAG
1 AAAAAAAG
3288183 GGAGAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAAAAGCTTCAAAAATAAG
Found at i:3288287 original size:3 final size:3
Alignment explanation
Indices: 3288279--3288337 Score: 64
Period size: 3 Copynumber: 18.0 Consensus size: 3
3288269 GCTCGGTTTT
*
3288279 GAA GAA GAA GAA GAA GGAA GAA GAA GAA GAA GAAA GAAA GAGA GAA GAC
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA G-AA G-AA GA-A GAA GAA
3288328 GAAA GAA GAA
1 G-AA GAA GAA
3288338 AAAAAAAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
3 35 0.70
4 15 0.30
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3288315 original size:13 final size:13
Alignment explanation
Indices: 3288279--3288347 Score: 70
Period size: 13 Copynumber: 5.2 Consensus size: 13
3288269 GCTCGGTTTT
3288279 GAAGAAGAAG-AA
1 GAAGAAGAAGAAA
3288291 GAAGGAAGAAG-AA
1 GAA-GAAGAAGAAA
3288304 GAAGAAGAAAGAAA
1 GAAGAAG-AAGAAA
*
3288318 GAGAGAAGACGAAA
1 GA-AGAAGAAGAAA
* *
3288332 GAAGAAAAAAAAA
1 GAAGAAGAAGAAA
3288345 GAA
1 GAA
3288348 AAAAAAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
12 7 0.14
13 26 0.53
14 11 0.22
15 5 0.10
ACGTcount: A:0.68, C:0.01, G:0.30, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAA
Found at i:3288430 original size:18 final size:18
Alignment explanation
Indices: 3288393--3288435 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3288383 AACCGGGTAT
* * *
3288393 AACCCGACCCGATCCGGC
1 AACCCAACCCGACCCAGC
3288411 AACCCAACCCGACCCAGC
1 AACCCAACCCGACCCAGC
3288429 AAGCCCA
1 AA-CCCA
3288436 TTAGCCAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.30, C:0.51, G:0.16, T:0.02
Consensus pattern (18 bp):
AACCCAACCCGACCCAGC
Found at i:3288643 original size:23 final size:23
Alignment explanation
Indices: 3288617--3288694 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
3288607 GCAGCCCAGC
*
3288617 AGAAAAAAAAAGGAAGAAAAAGA
1 AGAAAAAAAAAAGAAGAAAAAGA
*
3288640 AGAAAAAAGAAAAAAAGAAAAAAGGA
1 AGAAAAAA-AAAAGAAG-AAAAA-GA
*
3288666 A-AAAAGAAAAAAGAA-AAAAGGA
1 AGAAAA-AAAAAAGAAGAAAAAGA
3288688 AGAAAAA
1 AGAAAAA
3288695 GGGGGTTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.09
23 16 0.35
24 6 0.13
25 15 0.33
26 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAAAAGAAGAAAAAGA
Found at i:3288651 original size:7 final size:7
Alignment explanation
Indices: 3288634--3288685 Score: 77
Period size: 7 Copynumber: 7.0 Consensus size: 7
3288624 AAAAGGAAGA
3288634 AAAAGAAG
1 AAAA-AAG
3288642 AAAAAAG
1 AAAAAAG
3288649 AAAAAAAG
1 -AAAAAAG
3288657 AAAAAAGG
1 AAAAAA-G
3288665 AAAAAAG
1 AAAAAAG
3288672 AAAAAAG
1 AAAAAAG
3288679 AAAAAAG
1 AAAAAAG
3288686 GAAGAAAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 24 0.57
8 18 0.43
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:3288652 original size:15 final size:14
Alignment explanation
Indices: 3288634--3288685 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 14
3288624 AAAAGGAAGA
3288634 AAAAGAAGAAAAAAG
1 AAAA-AAGAAAAAAG
3288649 AAAAAAAGAAAAAAGG
1 -AAAAAAGAAAAAA-G
3288665 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAG
3288679 AAAAAAG
1 AAAAAAG
3288686 GAAGAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.23
15 22 0.63
16 5 0.14
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:3288653 original size:8 final size:8
Alignment explanation
Indices: 3288630--3288695 Score: 75
Period size: 8 Copynumber: 8.4 Consensus size: 8
3288620 AAAAAAAAGG
3288630 AAGAAAAA
1 AAGAAAAA
3288638 GAAG-AAAA
1 -AAGAAAAA
3288646 AAGAAAAA
1 AAGAAAAA
3288654 AAG-AAAA
1 AAGAAAAA
*
3288661 AAGGAAAA
1 AAGAAAAA
3288669 AAG-AAAA
1 AAGAAAAA
3288676 AAGAAAAA
1 AAGAAAAA
*
3288684 AGGAAGAAA
1 AAGAA-AAA
3288693 AAG
1 AAG
3288696 GGGGTTCAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
7 17 0.33
8 26 0.51
9 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:3288653 original size:30 final size:30
Alignment explanation
Indices: 3288617--3288695 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
3288607 GCAGCCCAGC
3288617 AGAAAAAAAAAGGAAGAAAAAGAAGAAAAA
1 AGAAAAAAAAAGGAAGAAAAAGAAGAAAAA
** *
3288647 AGAAAAAAAGAAAAAAGGAAAA-AAGAAAAA
1 AGAAAAAAA-AAGGAAGAAAAAGAAGAAAAA
3288677 AG---AAAAAAGGAAGAAAAAG
1 AGAAAAAAAAAGGAAGAAAAAG
3288696 GGGGTTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
26 9 0.22
27 4 0.10
30 19 0.46
31 9 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (30 bp):
AGAAAAAAAAAGGAAGAAAAAGAAGAAAAA
Found at i:3289284 original size:20 final size:22
Alignment explanation
Indices: 3289247--3289290 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
3289237 AATTTTGTGT
*
3289247 AAAAAAATCCAGTGTTTTCAAAA
1 AAAAAAATCCAGT-TTTCCAAAA
3289270 AAAAAAATCCA-TTTTCCAAAA
1 AAAAAAATCCAGTTTTCCAAAA
3289291 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
23 11 0.55
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAAAAATCCAGTTTTCCAAAA
Found at i:3289360 original size:18 final size:17
Alignment explanation
Indices: 3289286--3289448 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
3289276 ATCCATTTTC
* *
3289286 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
3289304 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
3289322 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
3289338 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
3289355 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
3289373 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
3289390 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
3289408 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
3289425 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
3289443 CAAAAA
1 CAAAAA
3289449 AAAATATCGT
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:3289448 original size:35 final size:34
Alignment explanation
Indices: 3289286--3289448 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
3289276 ATCCATTTTC
* * * *
3289286 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
3289322 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
3289355 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
3289390 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
3289425 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
3289449 AAAATATCGT
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:3289461 original size:38 final size:37
Alignment explanation
Indices: 3289409--3289537 Score: 120
Period size: 35 Copynumber: 3.4 Consensus size: 37
3289399 TCTTGTTTTC
*
3289409 AAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAA
1 AAAAATATC-GTGTTTT-AAAATTTTCGTGTTTTCAAAA
*
3289448 AAAAATATCGTGTTTCATAAATTTT-G-GTTTT-AAAA
1 AAAAATATCGTGTTTTA-AAATTTTCGTGTTTTCAAAA
** * *
3289483 AAAAATATTATGTCTTAAAATTCTCGTGTTTTCAAAA
1 AAAAATATCGTGTTTTAAAATTTTCGTGTTTTCAAAA
*
3289520 CAAGAAATTCTCGTGTTT
1 -AA-AAA-TATCGTGTTT
3289538 CAATCGGATC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
34 6 0.08
35 18 0.25
36 10 0.14
37 6 0.08
38 15 0.21
39 11 0.15
40 6 0.08
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (37 bp):
AAAAATATCGTGTTTTAAAATTTTCGTGTTTTCAAAA
Found at i:3296191 original size:123 final size:123
Alignment explanation
Indices: 3295969--3296463 Score: 663
Period size: 123 Copynumber: 4.0 Consensus size: 123
3295959 AGGAAAATCA
* *
3295969 ACTCATATCACGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
1 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
* *
3296034 GAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
66 GAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
* *
3296092 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGC
1 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
* * ** ** *
3296157 TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTAT-TTTTCAAAAATC
66 GAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGT-ATTT---TTAGT-TTATGTTTT---AAATT
*
3296221 A
123 G
* *
3296222 ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
1 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
*
3296287 GAGAAGTGAGTTGAGCCT-AGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
66 GAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
*
3296344 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTC-AAAATCAACTCATATTGC
1 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
* * ** * * *
3296408 TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCTGTTGTTAAA
66 GAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTTAGTTTATGTT-TTAAA
3296464 AAAAAATCAA
Statistics
Matches: 325, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
121 34 0.10
122 72 0.22
123 94 0.29
124 8 0.02
125 7 0.02
127 7 0.02
128 8 0.02
129 12 0.04
130 83 0.26
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (123 bp):
ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
GAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
Found at i:3296483 original size:251 final size:253
Alignment explanation
Indices: 3295962--3296501 Score: 949
Period size: 251 Copynumber: 2.1 Consensus size: 253
3295952 CTTTCCAAGG
**
3295962 AAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
*
3296027 ATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
66 ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
* *
3296092 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGC
131 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
****
3296157 TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTATTTTTCA
196 TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTATTAAAAA
3296215 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
3296280 ATATTGCGAGAAGTGAGTTGAGCCT-AGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
66 ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
3296344 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTC-AAAATCAACTCATATTGC
131 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
* *
3296408 TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCTGTTGTTAAAAA
196 TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTATTAAAAA
**
3296466 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3296502 CAGGACACGC
Statistics
Matches: 274, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
251 104 0.38
252 82 0.30
253 88 0.32
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (253 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTATTAAAAA
Found at i:3296654 original size:73 final size:72
Alignment explanation
Indices: 3296372--3296901 Score: 688
Period size: 72 Copynumber: 7.2 Consensus size: 72
3296362 GAGTTAAGCC
* * **
3296372 TTTT-AATTTATGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
3296435 CTGAGGTAA
65 CTGAGGT-A
* *
3296444 TTTT-AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTT-TT---CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
3296508 ACGCTGAGGTA
62 ACGCTGAGGTA
* *
3296519 ATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
3296584 TGAGGTA
66 TGAGGTA
*
3296591 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
*
3296656 TTGAGGTA
65 CTGAGGTA
* * * * *
3296664 ATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAAGT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
3296729 TGAGGTA
66 TGAGGTA
* **
3296736 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATA
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
*
3296801 CTTAGGTA
65 CTGAGGTA
* * * * **
3296809 TTGTCAATTTTTTGTATGTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAA-TTTCTG--T-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
*
3296874 ATGCTGAGGTA
62 ACGCTGAGGTA
*
3296885 TTTTCCATTTCTGTTTT
1 TTTTCAATTTCTGTTTT
3296902 TCAATTTATG
Statistics
Matches: 412, Mismatches: 35, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
71 2 0.00
72 149 0.36
73 129 0.31
74 5 0.01
75 16 0.04
76 111 0.27
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
TGAGGTA
Found at i:3296679 original size:145 final size:146
Alignment explanation
Indices: 3296376--3296905 Score: 725
Period size: 145 Copynumber: 3.6 Consensus size: 146
3296366 TAAGCCTTTT
* * **
3296376 AATTTATGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
* *
3296440 GTAATTTT-AATTTCTG-TTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
66 GT-ATTTTCAATTTCTGCTT-TT---CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* *
3296503 AGGACACGCTGAGGTAATTTC
126 AAGACACGTTGAGGTAATTTC
* *
3296524 AATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
3296588 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
66 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
3296653 ACGTTGAGGTAATTTC
131 ACGTTGAGGTAATTTC
* * *
3296669 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAG
1 AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
3296733 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
66 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
3296798 ATAC-TT-AGGT-ATTGTC
131 --ACGTTGAGGTAATT-TC
* * ** *
3296814 AATTTTTTGTATGTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCT
1 AA-TTTTTGT-T-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
* *
3296879 GAGGTATTTTCCATTTCTGTTTTTCAA
63 GAGGTATTTTCAATTTCTGCTTTTCAA
3296906 TTTATGTTTT
Statistics
Matches: 349, Mismatches: 23, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
144 3 0.01
145 188 0.54
146 8 0.02
147 16 0.05
148 62 0.18
149 72 0.21
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (146 bp):
AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
ACGTTGAGGTAATTTC
Found at i:3296972 original size:86 final size:86
Alignment explanation
Indices: 3296823--3297040 Score: 330
Period size: 86 Copynumber: 2.5 Consensus size: 86
3296813 CAATTTTTTG
* *
3296823 TATG-TTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATT
1 TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
* **
3296887 TTCCATTTCTGTTTTTCAATT
66 TTCAATTTCTACTTTTCAATT
* * *
3296908 TATGTTTTCAAAAATCAATTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
3296973 TTCAATTTCTACTTTTCAATT
66 TTCAATTTCTACTTTTCAATT
* *
3296994 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCT
1 TATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3297041 TTTAATTTTT
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 4 0.03
86 76 0.64
87 39 0.33
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (86 bp):
TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
TTCAATTTCTACTTTTCAATT
Found at i:3297177 original size:58 final size:56
Alignment explanation
Indices: 3296984--3297210 Score: 248
Period size: 58 Copynumber: 4.1 Consensus size: 56
3296974 TCAATTTCTA
* *
3296984 CTTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGC
1 CTTTTCAATTTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
3297039 CTTTT-AATTTTTGTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* ****** *
3297095 CTTTTTCTATTTTTCAAAAAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC
1 C-TTTTCAATTTTT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
3297153 CTTTTGCAAATTCTGTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3297208 CTT
1 CTT
3297211 GGCTCACGTG
Statistics
Matches: 143, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
54 13 0.09
55 41 0.29
56 34 0.24
57 8 0.06
58 47 0.33
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (56 bp):
CTTTTCAATTTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:3297203 original size:55 final size:55
Alignment explanation
Indices: 3296984--3297210 Score: 251
Period size: 55 Copynumber: 4.1 Consensus size: 55
3296974 TCAATTTCTA
*
3296984 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGC
1 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
3297039 CTTTT-AATTTTTGTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* ******** *
3297095 CTTTTTCTATTTTTCAAAAAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC
1 C-TTTTC-A-ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
3297153 CTTTTGCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3297208 CTT
1 CTT
3297211 GGCTCACGTG
Statistics
Matches: 139, Mismatches: 26, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
54 13 0.09
55 41 0.29
56 37 0.27
57 9 0.06
58 35 0.25
59 1 0.01
60 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (55 bp):
CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:3297517 original size:30 final size:31
Alignment explanation
Indices: 3297483--3297584 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
3297473 AAAAAAATAA
*
3297483 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
3297513 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
3297543 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
3297573 AAATTTCATTTT
1 AAATTTCATTTT
3297585 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:3297836 original size:20 final size:21
Alignment explanation
Indices: 3297811--3297858 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
3297801 AATCTCCAAA
* *
3297811 AAAAAAAGTTTCAAAAA-GAG
1 AAAAAAAGCTTCAAAAATAAG
3297831 AAAAAAAGCTTCAAAAATAAG
1 AAAAAAAGCTTCAAAAATAAG
3297852 AAAAAAA
1 AAAAAAA
3297859 AAAGGGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAAAAAGCTTCAAAAATAAG
Found at i:3297968 original size:3 final size:3
Alignment explanation
Indices: 3297960--3298017 Score: 71
Period size: 3 Copynumber: 17.7 Consensus size: 3
3297950 CTCGGTTTTA
3297960 AAG AAG AAG AAG AAGG AAG AAG AAG AAG AAG AAAG AAAG AGAG AAG AAG
1 AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG -AAG -AAG A-AG AAG AAG
3298009 AAAG AAG AA
1 -AAG AAG AA
3298018 AAAAAAGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
3 35 0.69
4 16 0.31
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3297980 original size:10 final size:9
Alignment explanation
Indices: 3297960--3298017 Score: 71
Period size: 10 Copynumber: 5.9 Consensus size: 9
3297950 CTCGGTTTTA
3297960 AAGAAGAAG
1 AAGAAGAAG
3297969 AAGAAGGAAG
1 AAGAA-GAAG
3297979 AAGAAGAAG
1 AAGAAGAAG
3297988 AAGAAAGAAAG
1 AAG-AAG-AAG
3297999 AGAGAAGAAG
1 A-AGAAGAAG
3298009 AAAGAAGAA
1 -AAGAAGAA
3298018 AAAAAAGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
9 12 0.27
10 22 0.50
11 8 0.18
12 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
AAGAAGAAG
Found at i:3297980 original size:13 final size:13
Alignment explanation
Indices: 3297959--3298026 Score: 81
Period size: 13 Copynumber: 5.5 Consensus size: 13
3297949 GCTCGGTTTT
3297959 AAAGAAGAAGAAG
1 AAAGAAGAAGAAG
*
3297972 AAGGAAGAAGAAG
1 AAAGAAGAAGAAG
3297985 -AAGAAG-A-AAG
1 AAAGAAGAAGAAG
3297995 AAAGAGAGAAGAAG
1 AAAGA-AGAAGAAG
*
3298009 AAAGAAGAA-AAA
1 AAAGAAGAAGAAG
3298021 AAAGAA
1 AAAGAA
3298027 AAAAAATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
10 3 0.06
11 5 0.10
12 15 0.31
13 17 0.35
14 8 0.17
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAGAAG
Found at i:3298107 original size:18 final size:18
Alignment explanation
Indices: 3298070--3298112 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3298060 AACCGGGTAT
* * *
3298070 AACCCGACCCGATCCGGC
1 AACCCAACCCGACCCAGC
3298088 AACCCAACCCGACCCAGC
1 AACCCAACCCGACCCAGC
3298106 AAGCCCA
1 AA-CCCA
3298113 TTAGCCAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.30, C:0.51, G:0.16, T:0.02
Consensus pattern (18 bp):
AACCCAACCCGACCCAGC
Found at i:3298323 original size:23 final size:23
Alignment explanation
Indices: 3298297--3298374 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
3298287 GCAGCCCAGC
*
3298297 AGAAAAAAAAAGGAAGAAAAAGA
1 AGAAAAAAAAAAGAAGAAAAAGA
*
3298320 AGAAAAAAGAAAAAAAGAAAAAAGGA
1 AGAAAAAA-AAAAGAAG-AAAAA-GA
*
3298346 A-AAAAGAAAAAAGAA-AAAAGGA
1 AGAAAA-AAAAAAGAAGAAAAAGA
3298368 AGAAAAA
1 AGAAAAA
3298375 GGGGGTTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.09
23 16 0.35
24 6 0.13
25 15 0.33
26 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAAAAGAAGAAAAAGA
Found at i:3298331 original size:7 final size:7
Alignment explanation
Indices: 3298314--3298365 Score: 77
Period size: 7 Copynumber: 7.0 Consensus size: 7
3298304 AAAAGGAAGA
3298314 AAAAGAAG
1 AAAA-AAG
3298322 AAAAAAG
1 AAAAAAG
3298329 AAAAAAAG
1 -AAAAAAG
3298337 AAAAAAGG
1 AAAAAA-G
3298345 AAAAAAG
1 AAAAAAG
3298352 AAAAAAG
1 AAAAAAG
3298359 AAAAAAG
1 AAAAAAG
3298366 GAAGAAAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 24 0.57
8 18 0.43
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:3298332 original size:15 final size:14
Alignment explanation
Indices: 3298314--3298365 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 14
3298304 AAAAGGAAGA
3298314 AAAAGAAGAAAAAAG
1 AAAA-AAGAAAAAAG
3298329 AAAAAAAGAAAAAAGG
1 -AAAAAAGAAAAAA-G
3298345 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAG
3298359 AAAAAAG
1 AAAAAAG
3298366 GAAGAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.23
15 22 0.63
16 5 0.14
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:3298333 original size:8 final size:8
Alignment explanation
Indices: 3298310--3298375 Score: 75
Period size: 8 Copynumber: 8.4 Consensus size: 8
3298300 AAAAAAAAGG
3298310 AAGAAAAA
1 AAGAAAAA
3298318 GAAG-AAAA
1 -AAGAAAAA
3298326 AAGAAAAA
1 AAGAAAAA
3298334 AAG-AAAA
1 AAGAAAAA
*
3298341 AAGGAAAA
1 AAGAAAAA
3298349 AAG-AAAA
1 AAGAAAAA
3298356 AAGAAAAA
1 AAGAAAAA
*
3298364 AGGAAGAAA
1 AAGAA-AAA
3298373 AAG
1 AAG
3298376 GGGGTTCAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
7 17 0.33
8 26 0.51
9 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:3298333 original size:30 final size:30
Alignment explanation
Indices: 3298297--3298375 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
3298287 GCAGCCCAGC
3298297 AGAAAAAAAAAGGAAGAAAAAGAAGAAAAA
1 AGAAAAAAAAAGGAAGAAAAAGAAGAAAAA
** *
3298327 AGAAAAAAAGAAAAAAGGAAAA-AAGAAAAA
1 AGAAAAAAA-AAGGAAGAAAAAGAAGAAAAA
3298357 AG---AAAAAAGGAAGAAAAAG
1 AGAAAAAAAAAGGAAGAAAAAG
3298376 GGGGTTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
26 9 0.22
27 4 0.10
30 19 0.46
31 9 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (30 bp):
AGAAAAAAAAAGGAAGAAAAAGAAGAAAAA
Found at i:3298967 original size:20 final size:22
Alignment explanation
Indices: 3298926--3298968 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3298916 AATTTTGTGT
*
3298926 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
3298948 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
3298968 A
1 A
3298969 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:3299038 original size:18 final size:17
Alignment explanation
Indices: 3298964--3299126 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
3298954 ATCCATTTTC
* *
3298964 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
3298982 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
3299000 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
3299016 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
3299033 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
3299051 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
3299068 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
3299086 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
3299103 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
3299121 CAAAAA
1 CAAAAA
3299127 AAAATATCGT
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:3299126 original size:35 final size:34
Alignment explanation
Indices: 3298964--3299126 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
3298954 ATCCATTTTC
* * * *
3298964 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
3299000 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
3299033 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
3299068 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
3299103 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
3299127 AAAATATCGT
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:3299139 original size:38 final size:37
Alignment explanation
Indices: 3299087--3299215 Score: 120
Period size: 35 Copynumber: 3.4 Consensus size: 37
3299077 TCTTGTTTTC
*
3299087 AAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAA
1 AAAAATATC-GTGTTTT-AAAATTTTCGTGTTTTCAAAA
*
3299126 AAAAATATCGTGTTTCATAAATTTT-G-GTTTT-AAAA
1 AAAAATATCGTGTTTTA-AAATTTTCGTGTTTTCAAAA
** * *
3299161 AAAAATATTATGTCTTAAAATTCTCGTGTTTTCAAAA
1 AAAAATATCGTGTTTTAAAATTTTCGTGTTTTCAAAA
*
3299198 CAAGAAATTCTCGTGTTT
1 -AA-AAA-TATCGTGTTT
3299216 CAATCGGATC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
34 6 0.08
35 18 0.25
36 10 0.14
37 6 0.08
38 15 0.21
39 11 0.15
40 6 0.08
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (37 bp):
AAAAATATCGTGTTTTAAAATTTTCGTGTTTTCAAAA
Found at i:3301060 original size:38 final size:38
Alignment explanation
Indices: 3301013--3301107 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
3301003 ATACAAAAAT
* * *
3301013 AGTAAACATGCTTAACATGTATTCAATTCAATAGTAGC
1 AGTAGACATGCTTAACATGTATTCAATTCAACAATAGC
* * *
3301051 AGTAGACATGTTTAACATGTATTCGATTTAACAATAGC
1 AGTAGACATGCTTAACATGTATTCAATTCAACAATAGC
*
3301089 AGTAGGCATGCTTAACATG
1 AGTAGACATGCTTAACATG
3301108 CAATCAGTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (38 bp):
AGTAGACATGCTTAACATGTATTCAATTCAACAATAGC
Found at i:3308458 original size:31 final size:31
Alignment explanation
Indices: 3308423--3308486 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
3308413 ATATTAATAT
3308423 AATATTTA-AATTTATTATTATATTT-TTTGAA
1 AATATTTAGAATTT-TTA-TATATTTCTTTGAA
*
3308454 AATATTTATGTATTTTTATATATTTCTTTGAA
1 AATATTTA-GAATTTTTATATATTTCTTTGAA
3308486 A
1 A
3308487 TCTTTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 15 0.52
32 10 0.34
33 4 0.14
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (31 bp):
AATATTTAGAATTTTTATATATTTCTTTGAA
Found at i:3314825 original size:28 final size:28
Alignment explanation
Indices: 3314793--3314846 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
3314783 ATGTTAAAAG
*
3314793 AAATTTTCATTTTTTTTAAAAATTATAC
1 AAATTTTAATTTTTTTTAAAAATTATAC
*
3314821 AAATTTTAATTTTTTTTAAATATTAT
1 AAATTTTAATTTTTTTTAAAAATTAT
3314847 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (28 bp):
AAATTTTAATTTTTTTTAAAAATTATAC
Found at i:3315221 original size:16 final size:16
Alignment explanation
Indices: 3315200--3315230 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3315190 TTAAAAAATA
3315200 TATAAAAATAATAATC
1 TATAAAAATAATAATC
*
3315216 TATAAAAATATTAAT
1 TATAAAAATAATAAT
3315231 AATATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TATAAAAATAATAATC
Found at i:3318653 original size:27 final size:27
Alignment explanation
Indices: 3318594--3318654 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
3318584 TAATACAAAG
* *
3318594 TAGTGGCGCCTATCTCAGAGGCGCCAA
1 TAGTGGTGCCTATCTCACAGGCGCCAA
* * *
3318621 TGGTGGTGCCTATCTGACAGGCGCCAT
1 TAGTGGTGCCTATCTCACAGGCGCCAA
3318648 TAGTGGT
1 TAGTGGT
3318655 ACCATGTTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.25
Consensus pattern (27 bp):
TAGTGGTGCCTATCTCACAGGCGCCAA
Found at i:3321756 original size:21 final size:21
Alignment explanation
Indices: 3321725--3321945 Score: 113
Period size: 21 Copynumber: 10.4 Consensus size: 21
3321715 AATTAATTAT
3321725 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
3321747 AAAAAATTACAATATTCAT--
1 AAAAAATTACAATATTCATAC
* * * *
3321766 ATAAAATTACAAAATTAATTAT
1 AAAAAATTACAATATTCA-TAC
3321788 AAAATAATTACAA-A--C--AC
1 AAAA-AATTACAATATTCATAC
* * * *
3321805 AAAAATTTATAACATAATCCTA-
1 AAAAAATTA-CA-ATATTCATAC
** * * * *
3321827 AATTACTAACAA-ATTAATTAT
1 AAAAAATTACAATATTCA-TAC
3321848 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
3321870 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
3321889 AAAATTAAAAAATTACAATATTCATAC
1 ------AAAAAATTACAATATTCATAC
3321916 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
3321937 AAAATATTA
1 AAAAAATTA
3321946 ATCTAAAATT
Statistics
Matches: 153, Mismatches: 23, Indels: 47
0.69 0.10 0.21
Matches are distributed among these distances:
16 4 0.03
17 6 0.04
18 1 0.01
19 35 0.23
20 6 0.04
21 48 0.31
22 21 0.14
23 13 0.08
27 19 0.12
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:3321773 original size:19 final size:19
Alignment explanation
Indices: 3321730--3321792 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
3321720 ATTATAAAAT
*
3321730 AATTACAATATTCATACAAAA
1 AATTACAATATTCAT--ATAA
3321751 AATTACAATATTCATATAA
1 AATTACAATATTCATATAA
* *
3321770 AATTACAAAATTAATTATAA
1 AATTACAATATTCA-TATAA
3321790 AAT
1 AAT
3321793 AATTACAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.39
20 8 0.21
21 15 0.39
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTACAATATTCATATAA
Found at i:3321938 original size:48 final size:47
Alignment explanation
Indices: 3321847--3321941 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 47
3321837 AAATTAATTA
3321847 TAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAAT
1 TAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAAT
3321894 TAAAA-AATTACAATATTCATACAAAAAATTACAATATTCATACAAAAT
1 TAAAATAATTACAATATTCATAC--AAAATTACAATATTCATACAAAAT
3321942 ATTAATCTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
46 17 0.37
47 5 0.11
48 24 0.52
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.31
Consensus pattern (47 bp):
TAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAAT
Found at i:3322020 original size:61 final size:62
Alignment explanation
Indices: 3321714--3322021 Score: 230
Period size: 61 Copynumber: 4.9 Consensus size: 62
3321704 ATTTGTCTAC
* * *
3321714 AAATTAATTATAAAATAATTACAATATTCATACAAAA-A--ATTACAATATTCATATAAAATTAC
1 AAATTAATTATAAAATAATTACAATATTCATACAAAATACTAATCCAA-A-AC-TAT-AAATTAC
3321776 A
62 A
* * *
3321777 AAATTAATTATAAAATAATTACAA-A--CACA-AAAATTTA-TAA--CATAA-TCCTAAATTACT
1 AAATTAATTATAAAATAATTACAATATTCATACAAAA--TACTAATCCAAAACT-ATAAATTAC-
3321834 AA
62 -A
* * *
3321836 CAAATTAATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATTAAAAAA
1 -AAATTAATTATAAAATAATTACAATATTCATACAAAA-TAC--TA---ATCCAAAACT-ATAAA
3321901 TTACA
58 TTACA
* * * * * *
3321906 ATATTCA-TACAAAA-AATTACAATATTCATACAAAATATTAATCTAAAATTATAAA-TACA
1 AAATTAATTATAAAATAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATTACA
3321965 AAATTAATTATAAAATAATTACAATATTCATACAAAATACTAATCCAAAACTATAAA
1 AAATTAATTATAAAATAATTACAATATTCATACAAAATACTAATCCAAAACTATAAA
3322022 CACTAAACAT
Statistics
Matches: 199, Mismatches: 23, Indels: 48
0.74 0.09 0.18
Matches are distributed among these distances:
57 8 0.04
58 1 0.01
59 14 0.07
60 38 0.19
61 49 0.25
62 2 0.01
63 31 0.16
64 6 0.03
66 4 0.02
67 21 0.11
68 6 0.03
69 6 0.03
70 1 0.01
71 4 0.02
72 8 0.04
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (62 bp):
AAATTAATTATAAAATAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATTACA
Found at i:3322043 original size:7 final size:7
Alignment explanation
Indices: 3322033--3322058 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3322023 ACTAAACATA
3322033 AATAATT
1 AATAATT
3322040 AATAATT
1 AATAATT
3322047 AATAATT
1 AATAATT
3322054 AATAA
1 AATAA
3322059 CAAAAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:3323504 original size:3 final size:3
Alignment explanation
Indices: 3323474--3323533 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
3323464 AAAATAAAAC
* * *
3323474 TAA TAA TATT TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
3323520 TAA TTA TCA TAA TA
1 TAA TAA TAA TAA TA
3323534 CAAAAATAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:3324990 original size:27 final size:27
Alignment explanation
Indices: 3324937--3324991 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
3324927 CATTGGCGCT
* **
3324937 TCCCTATGAGGCACTGTTAATGACACC
1 TCCCTATGAGACACAATTAATGACACC
* *
3324964 TCCCTATGAGACACAATTAGTGGCACC
1 TCCCTATGAGACACAATTAATGACACC
3324991 T
1 T
3324992 ACCTGACAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (27 bp):
TCCCTATGAGACACAATTAATGACACC
Found at i:3332897 original size:26 final size:29
Alignment explanation
Indices: 3332861--3332913 Score: 76
Period size: 26 Copynumber: 1.9 Consensus size: 29
3332851 AGAGGAACTG
3332861 TATTCTATTTT-A-TTTTAT-ATATAATT
1 TATTCTATTTTAATTTTTATAATATAATT
*
3332887 TATTTTATTTTAATTTTTATAATATAA
1 TATTCTATTTTAATTTTTATAATATAA
3332914 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 1 0.04
28 6 0.26
29 6 0.26
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTCTATTTTAATTTTTATAATATAATT
Found at i:3337886 original size:11 final size:11
Alignment explanation
Indices: 3337845--3337890 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
3337835 TTCACGAACA
3337845 AACTCGTTTAT
1 AACTCGTTTAT
*
3337856 AAGCTTGTTTATT
1 AA-CTCGTTTA-T
3337869 AACTCGTTTAT
1 AACTCGTTTAT
*
3337880 GACTCGTTTAT
1 AACTCGTTTAT
3337891 TTATTAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 13 0.43
12 14 0.47
13 3 0.10
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (11 bp):
AACTCGTTTAT
Found at i:3339311 original size:21 final size:22
Alignment explanation
Indices: 3339287--3339381 Score: 77
Period size: 23 Copynumber: 4.2 Consensus size: 22
3339277 GAGTGCCTGG
* *
3339287 GTGGC-ATTTTGATTGGCCTTT
1 GTGGCAATTCTGATTAGCCTTT
*
3339308 GTGGCGAATTCTGGTTAGCCTTT
1 GTGGC-AATTCTGATTAGCCTTT
* * *
3339331 GTGGCGAATTATG-TTTGACATTT
1 GTGGC-AATTCTGATTAG-CCTTT
*
3339354 GTGGCTAATTCTAATTAGCCTTT
1 GTGGC-AATTCTGATTAGCCTTT
3339377 GTGGC
1 GTGGC
3339382 GTATTCAGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.08
22 3 0.05
23 48 0.81
24 3 0.05
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (22 bp):
GTGGCAATTCTGATTAGCCTTT
Found at i:3339329 original size:23 final size:22
Alignment explanation
Indices: 3339302--3339387 Score: 91
Period size: 23 Copynumber: 3.8 Consensus size: 22
3339292 ATTTTGATTG
3339302 GCCTTTGTGGCGAATTCTGGTTA
1 GCCTTTGTGGCGAATTCT-GTTA
* *
3339325 GCCTTTGTGGCGAATTATGTTT
1 GCCTTTGTGGCGAATTCTGTTA
* * *
3339347 GACATTTGTGGCTAATTCTAATTA
1 G-CCTTTGTGGCGAATTCT-GTTA
*
3339371 GCCTTTGTGGCGTATTC
1 GCCTTTGTGGCGAATTC
3339388 AGTATGCTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
22 4 0.08
23 44 0.86
24 3 0.06
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (22 bp):
GCCTTTGTGGCGAATTCTGTTA
Found at i:3344290 original size:37 final size:38
Alignment explanation
Indices: 3344236--3344310 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
3344226 CTGCATCAGG
* *
3344236 AGAAAATTGAGGAAAATTATACAA-CGAAGCACAAAAT
1 AGAAAATAGAGGAAAATTAGACAATCGAAGCACAAAAT
* *
3344273 AGAAAATAGAGGGAAATTAGACAATGGAAGCACAAAAT
1 AGAAAATAGAGGAAAATTAGACAATCGAAGCACAAAAT
3344311 CAAGCAGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 21 0.64
38 12 0.36
ACGTcount: A:0.56, C:0.09, G:0.20, T:0.15
Consensus pattern (38 bp):
AGAAAATAGAGGAAAATTAGACAATCGAAGCACAAAAT
Found at i:3348046 original size:21 final size:21
Alignment explanation
Indices: 3348022--3348066 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3348012 TTTTTTATAC
*
3348022 TTATTATGTAAATTAATATTT
1 TTATTATGTAAATAAATATTT
* *
3348043 TTATTTTTTAAATAAATATTT
1 TTATTATGTAAATAAATATTT
3348064 TTA
1 TTA
3348067 AGTAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTATGTAAATAAATATTT
Found at i:3348973 original size:42 final size:39
Alignment explanation
Indices: 3348926--3349223 Score: 170
Period size: 42 Copynumber: 7.1 Consensus size: 39
3348916 GAGGTGAAGT
* *
3348926 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGAC
1 TGGTGGTGGTGG-GATAGAACTGGTGGTGGTGGGAA-GA-AC
* * *
3348968 GGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGAAC
1 TGGTGGTGG-TGGGATAGAACTGGTGGTGGTGG-GA-AGAAC
* * *
3349010 TGGTGGAGGTGGGA-AGGAGACGGGTGGTGGAGGGGACAGAAC
1 TGGTGGTGGTGGGATA-GA-ACTGGTGGTGG-TGGGA-AGAAC
* * *
3349052 TGGTGGAGGTGGGA-AGGAGACGGGTGGTGGAGGGGATAGAAC
1 TGGTGGTGGTGGGATA-GA-ACTGGTGGTGG-TGGGA-AGAAC
* * *
3349094 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGAC
1 TGGTGGTGGTGG-GATAGAACTGGTGGTGGTGGGAA-GA-AC
* * * *
3349136 GGGTGGTGGAGGGGAGAGAACTGGTGGTGGTGGAGATTGAAC
1 TGGTGGTGG-TGGGATAGAACTGGTGGTGGTGG-GA-AGAAC
* * *
3349178 TGGTGGAGGTGGAGAGTAG-ACGGGTGGTGGAGGGGAGAGAAC
1 TGGTGGTGGTGG-GA-TAGAACTGGTGGTGG-TGGGA-AGAAC
3349220 TGGT
1 TGGT
3349224 TGAGGTGGTG
Statistics
Matches: 206, Mismatches: 34, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
40 2 0.01
41 13 0.06
42 170 0.83
43 21 0.10
ACGTcount: A:0.22, C:0.05, G:0.54, T:0.18
Consensus pattern (39 bp):
TGGTGGTGGTGGGATAGAACTGGTGGTGGTGGGAAGAAC
Found at i:3348993 original size:63 final size:63
Alignment explanation
Indices: 3348926--3349063 Score: 258
Period size: 63 Copynumber: 2.2 Consensus size: 63
3348916 GAGGTGAAGT
*
3348926 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAAC
1 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAAC
3348989 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAAC
1 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAAC
*
3349052 TGGTGGAGGTGG
1 TGGTGGTGGTGG
3349064 GAAGGAGACG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 73 1.00
ACGTcount: A:0.21, C:0.05, G:0.55, T:0.19
Consensus pattern (63 bp):
TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAAC
Found at i:3349183 original size:105 final size:105
Alignment explanation
Indices: 3348943--3349168 Score: 425
Period size: 105 Copynumber: 2.2 Consensus size: 105
3348933 GGTGGAGATT
3348943 GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
1 GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
*
3349008 ACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACA
66 ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGACA
3349048 GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
1 GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
*
3349113 ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
66 ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGACA
*
3349153 GAACTGGTGGTGGTGG
1 GAACTGGTGGAGGTGG
3349169 AGATTGAACT
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 118 1.00
ACGTcount: A:0.23, C:0.05, G:0.55, T:0.17
Consensus pattern (105 bp):
GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGACA
Found at i:3349204 original size:105 final size:105
Alignment explanation
Indices: 3348943--3349387 Score: 365
Period size: 105 Copynumber: 4.2 Consensus size: 105
3348933 GGTGGAGATT
* * * * * *
3348943 GAACTGGTGGAGGTGG-GAAG-GAGACGGGTGGTGGAGGGGA-TAGAACTGGTGGTGGTGGAGAT
1 GAACTGGTGGAGGTGGAG-AGTGA-ACTGGTGGTGGTGGAGAGTAG-ACGGGTGGTGGAGGAGAG
* * *
3349005 TGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACA
63 AGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
* * * * * *
3349048 GAACTGGTGGAGGTGG-GAAG-GAGACGGGTGGTGGAGGGGA-TAGAACTGGTGGTGGTGGAGAT
1 GAACTGGTGGAGGTGGAG-AGTGA-ACTGGTGGTGGTGGAGAGTAG-ACGGGTGGTGGAGGAGAG
*
3349110 TGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
63 AGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
* * * *
3349153 GAACTGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAGAGTAGACGGGTGGTGGAGGGGAGAGA
1 GAACTGGTGGAGGTGGAGAGTGAACTGGTGGTGGTGGAGAGTAGACGGGTGGTGGAGGAGAGAGA
* * * * * **
3349218 ACTGGTTGAGGTGG---TG-G--TGGTGGTGGTGGTGATT
66 ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
* * *
3349252 GAACTGGTGGAGGTGGAGGGGAGCGAACTGGTTGTGGTGGTGGTGAGTAGACGGGTGGTGGAGGG
1 GAACTGGTGGAGGTGGA---GAGTGAACT-G--GTGGTGGTGGAGAGTAGACGGGTGGTGGAGGA
* * *
3349317 GAGAGAACTGGTGGAGGTGGAGAGTAGACAGGTGGTGGAGGGGAGA
60 GAGAGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
* * * *
3349363 GAACTTGTTGTGGTGGTGAGTGAAC
1 GAACTGGTGGAGGTGGAGAGTGAAC
3349388 GGGAGGTTTT
Statistics
Matches: 287, Mismatches: 38, Indels: 27
0.82 0.11 0.08
Matches are distributed among these distances:
99 28 0.10
101 1 0.00
102 8 0.03
103 1 0.00
105 210 0.73
106 6 0.02
108 7 0.02
109 1 0.00
111 25 0.09
ACGTcount: A:0.22, C:0.05, G:0.54, T:0.19
Consensus pattern (105 bp):
GAACTGGTGGAGGTGGAGAGTGAACTGGTGGTGGTGGAGAGTAGACGGGTGGTGGAGGAGAGAGA
ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
Found at i:3349229 original size:42 final size:42
Alignment explanation
Indices: 3348990--3349231 Score: 214
Period size: 42 Copynumber: 5.8 Consensus size: 42
3348980 GGATAGAACT
* * *
3348990 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGG-GAAGGAGACG
1 GGTGGTGGAGGGGATAGAACTGGTGGAGGTGGAG-AGGAGACG
*
3349032 GGTGGTGGAGGGGACAGAACTGGTGGAGGTGG-GAAGGAGACG
1 GGTGGTGGAGGGGATAGAACTGGTGGAGGTGGAG-AGGAGACG
* *
3349074 GGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA-AC-
1 GGTGGTGGAGGGGATAGAACTGGTGGAGGTGGAGA-GGAGACG
* *
3349115 --TGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGG-GGAGA-GA-ACT
1 GGTGGTGGAGG-GGATA-GA-AC---TGGTGGAGGTGGAGAGGAGACG
* * * *
3349158 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAGAGTAGACG
1 GGTGGTGGAGGGGATAGAACTGGTGGAGGTGGAGAGGAGACG
* *
3349200 GGTGGTGGAGGGGAGAGAACTGGTTGAGGTGG
1 GGTGGTGGAGGGGATAGAACTGGTGGAGGTGG
3349232 TGGTGGTGGT
Statistics
Matches: 166, Mismatches: 20, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
39 18 0.11
40 9 0.05
41 3 0.02
42 108 0.65
43 5 0.03
44 7 0.04
45 16 0.10
ACGTcount: A:0.22, C:0.05, G:0.55, T:0.18
Consensus pattern (42 bp):
GGTGGTGGAGGGGATAGAACTGGTGGAGGTGGAGAGGAGACG
Found at i:3349231 original size:63 final size:63
Alignment explanation
Indices: 3348969--3349223 Score: 309
Period size: 63 Copynumber: 4.0 Consensus size: 63
3348959 GAAGGAGACG
* * * * * * * * * *
3348969 GGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA-ACTGGTGGAGGTGGGAAG-GAGACG
1 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAGA-GGAGACGGGTGGTGGAGGGGAGAGA-ACT
* * ** *
3349032 GGTGGTGGAGGGGACAGAACTGGTGGAGGTGG-GAAGGAGACGGGTGGTGGAGGGGATAGAACT
1 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAG-AGGAGACGGGTGGTGGAGGGGAGAGAACT
*
3349095 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACT
1 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAGAGGAGACGGGTGGTGGAGGGGAGAGAACT
*
3349158 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAGAGTAGACGGGTGGTGGAGGGGAGAGAACT
1 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAGAGGAGACGGGTGGTGGAGGGGAGAGAACT
3349221 GGT
1 GGT
3349224 TGAGGTGGTG
Statistics
Matches: 171, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
62 3 0.02
63 166 0.97
64 2 0.01
ACGTcount: A:0.23, C:0.05, G:0.55, T:0.18
Consensus pattern (63 bp):
GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAGAGGAGACGGGTGGTGGAGGGGAGAGAACT
Found at i:3349248 original size:168 final size:161
Alignment explanation
Indices: 3348926--3349339 Score: 517
Period size: 168 Copynumber: 2.5 Consensus size: 161
3348916 GAGGTGAAGT
* *
3348926 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTG
1 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTG
3348991 GTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAACTGGT
66 GTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAACTGGT
3349056 GGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAAC
131 GGAGGTGGGAAGGAGA-GGGTGGT------GATAGAAC
3349094 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTG
1 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTG
* *
3349159 GTGGTGGTGGAGATTGAACTGGTGGAGGT-GGAGAGTAGACGGGTGGTGGAGGGGAGAGAACTGG
66 GTGGTGGTGGAGATTGAACTGGTGGAGGTGGGA-AGGAGACGGGTGGTGGAGGGGACAGAACTGG
* ** * *
3349223 TTGAGGTGGTGGTGGTG-GTGGTGGTGATTGAAC
130 TGGAGGTGG-GAAGGAGAG-GGTGGTGATAGAAC
* ** * ** *
3349256 TGGTGGAGGTGGAGGGGAGCGAACTGGTTGTGGTGGTGGTGAGTAGACGGGTGGTGGAGGGGAGA
1 TGGTGGTGGTGGA---GATTGAACT-G--GTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
*
3349321 GAACTGGTGGAGGTGGAGA
60 GAACTGGTGGTGGTGGAGA
3349340 GTAGACAGGT
Statistics
Matches: 220, Mismatches: 17, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
162 19 0.09
165 7 0.03
166 1 0.00
167 4 0.02
168 185 0.84
169 4 0.02
ACGTcount: A:0.21, C:0.05, G:0.55, T:0.19
Consensus pattern (161 bp):
TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTG
GTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAACTGGT
GGAGGTGGGAAGGAGAGGGTGGTGATAGAAC
Found at i:3349309 original size:42 final size:43
Alignment explanation
Indices: 3349263--3349385 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 43
3349253 AACTGGTGGA
*
3349263 GGTGGAGGGGAGCGAACTGGTTGTGGTGGTGGTGAGTAGACGGGT
1 GGTGGAGGGGAGAGAACT-GTTGTGGTGGTGGTGAGTAGAC-GGT
* *
3349308 GGTGGAGGGGAGAGAACTG--GTGGAGGTGGAGAGTAGACAGGT
1 GGTGGAGGGGAGAGAACTGTTGTGGTGGTGGTGAGTAGAC-GGT
3349350 GGTGGAGGGGAGAGAACTTGTTGTGGTGGTGAGTGA
1 GGTGGAGGGGAGAGAAC-TGTTGTGGTGGTG-GTGA
3349386 ACGGGAGGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 37 0.54
43 2 0.03
44 1 0.01
45 25 0.37
46 3 0.04
ACGTcount: A:0.20, C:0.05, G:0.54, T:0.20
Consensus pattern (43 bp):
GGTGGAGGGGAGAGAACTGTTGTGGTGGTGGTGAGTAGACGGT
Found at i:3349311 original size:21 final size:21
Alignment explanation
Indices: 3349285--3349354 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
3349275 CGAACTGGTT
* *
3349285 GTGGTGGTGGTGAGTAGACGG
1 GTGGTGGTGGAGAGTAGACAG
* * *
3349306 GTGGTGGAGGGGAG-AGAACTG
1 GTGGTGGTGGAGAGTAG-ACAG
*
3349327 GTGGAGGTGGAGAGTAGACAG
1 GTGGTGGTGGAGAGTAGACAG
3349348 GTGGTGG
1 GTGGTGG
3349355 AGGGGAGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.90
22 2 0.05
ACGTcount: A:0.20, C:0.04, G:0.57, T:0.19
Consensus pattern (21 bp):
GTGGTGGTGGAGAGTAGACAG
Found at i:3349312 original size:24 final size:25
Alignment explanation
Indices: 3349232--3349336 Score: 80
Period size: 24 Copynumber: 4.5 Consensus size: 25
3349222 GTTGAGGTGG
*
3349232 TGGTGGTGGTGGTGGTGA-TTGAAC
1 TGGTGGTGGTGGTGGTGAGTAGAAC
* * * *
3349256 TGGTGGAGGTGGAGGGGAG-CGAAC
1 TGGTGGTGGTGGTGGTGAGTAGAAC
*
3349280 TGGTTGTGGTGGTGGTGAGTAG-AC
1 TGGTGGTGGTGGTGGTGAGTAGAAC
* *
3349304 --G-GGTGGTGGAGGGGAG-AGAAC
1 TGGTGGTGGTGGTGGTGAGTAGAAC
*
3349325 TGGTGGAGGTGG
1 TGGTGGTGGTGG
3349337 AGAGTAGACA
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
20 2 0.03
21 14 0.23
22 1 0.02
23 1 0.02
24 43 0.69
25 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.56, T:0.23
Consensus pattern (25 bp):
TGGTGGTGGTGGTGGTGAGTAGAAC
Found at i:3349328 original size:18 final size:18
Alignment explanation
Indices: 3349307--3349367 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 18
3349297 AGTAGACGGG
3349307 TGGTGGAGGGGAGAGAAC
1 TGGTGGAGGGGAGAGAAC
3349325 TGGTGGAGGTGGAGAGTAGAC
1 TGGTGGAGG-GGAGAG-A-AC
3349346 AGGTGGTGGAGGGGAGAGAAC
1 ---TGGTGGAGGGGAGAGAAC
3349367 T
1 T
3349368 TGTTGTGGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 10 0.27
19 6 0.16
20 1 0.03
21 4 0.11
22 1 0.03
23 6 0.16
24 9 0.24
ACGTcount: A:0.26, C:0.05, G:0.54, T:0.15
Consensus pattern (18 bp):
TGGTGGAGGGGAGAGAAC
Found at i:3349337 original size:24 final size:24
Alignment explanation
Indices: 3349252--3349338 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 24
3349242 GGTGGTGATT
*
3349252 GAACTGGTGGAGGTGGAGGGGAGC
1 GAACTGGTGGAGGTGGAGGGGAGA
* * * *
3349276 GAACTGGTTGTGGTGGTGGTGAGTA
1 GAACTGGTGGAGGTGGAGGGGAG-A
*
3349301 G-AC--G-GGTGGTGGAGGGGAGA
1 GAACTGGTGGAGGTGGAGGGGAGA
3349321 GAACTGGTGGAGGTGGAG
1 GAACTGGTGGAGGTGGAG
3349339 AGTAGACAGG
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
20 2 0.04
21 14 0.29
22 1 0.02
23 1 0.02
24 30 0.61
25 1 0.02
ACGTcount: A:0.20, C:0.06, G:0.56, T:0.18
Consensus pattern (24 bp):
GAACTGGTGGAGGTGGAGGGGAGA
Found at i:3355806 original size:22 final size:22
Alignment explanation
Indices: 3355779--3355827 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
3355769 TGTGATGTCA
*
3355779 CGACGTCACACACATGTCATTG
1 CGACGTCACACACATGTCAATG
*
3355801 CGACGTCACACATATGTCAATG
1 CGACGTCACACACATGTCAATG
3355823 CGACG
1 CGACG
3355828 AGTTCCGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (22 bp):
CGACGTCACACACATGTCAATG
Done.