Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 150 of 185
Found at i:46352407 original size:24 final size:24
Alignment explanation
Indices: 46352371--46352422 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
46352361 ATGTCCCAAA
* *
46352371 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTAGATTGAACCTTAAAG
46352395 ATTACAGTAGATTGAACCTTAAAG
1 ATTACAGTAGATTGAACCTTAAAG
46352419 ATTA
1 ATTA
46352423 TAGTGGGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (24 bp):
ATTACAGTAGATTGAACCTTAAAG
Found at i:46352772 original size:51 final size:50
Alignment explanation
Indices: 46352717--46352884 Score: 202
Period size: 51 Copynumber: 3.4 Consensus size: 50
46352707 CCCTGACATG
* *
46352717 GCAGTGGAACAGATTAAAGTTGAAGGCAGCGAATCTTATCTCCCTGGCGTT
1 GCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTAT-TCCCTGGCGTT
* *
46352768 GCA---G--TAGATTAAAGCTGAAGGCAGCAAATCTTATTTCCTTGGCGTT
1 GCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTA-TTCCCTGGCGTT
* * *
46352814 GCACTGGAATAGATTAAAGCTGAAGGCAGCGAACCTTATTTCCTGAGCGTT
1 GCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTCCCTG-GCGTT
*
46352865 GCAGTGAAATAGATTAAAGC
1 GCAGTGGAATAGATTAAAGC
46352885 CACAAATTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
46 39 0.39
47 1 0.01
48 1 0.01
49 1 0.01
50 5 0.05
51 53 0.53
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (50 bp):
GCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTCCCTGGCGTT
Found at i:46352798 original size:46 final size:45
Alignment explanation
Indices: 46352727--46352869 Score: 169
Period size: 46 Copynumber: 3.0 Consensus size: 45
46352717 GCAGTGGAAC
*
46352727 AGATTAAAGTTGAAGGCAGCGAATCTTATCTCCCTGGCGTTGCAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTAT-TCCCTGGCGTTGCAGT
* *
46352773 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCTTGGCGTTGCACTGGAAT
1 AGATTAAAGCTGAAGGCAGCGAATCTTA-TTCCCTGGCGTTGCA---G--T
* *
46352824 AGATTAAAGCTGAAGGCAGCGAACCTTATTTCCTGAGCGTTGCAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTCCCTG-GCGTTGCAGT
46352870 GAAATAGATT
Statistics
Matches: 83, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
46 40 0.48
47 1 0.01
48 1 0.01
49 1 0.01
50 5 0.06
51 35 0.42
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTCCCTGGCGTTGCAGT
Found at i:46354420 original size:14 final size:13
Alignment explanation
Indices: 46354403--46354454 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 13
46354393 ATTAATTTAA
46354403 TATTATTATTATGT
1 TATTATTATTAT-T
46354417 TATTATT-TTACCTT
1 TATTATTATTA--TT
46354431 TATTATTCATATATT
1 TATTATT-AT-TATT
46354446 TATTATTAT
1 TATTATTAT
46354455 CATAACTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.09
14 17 0.52
15 10 0.30
16 1 0.03
17 2 0.06
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:46355804 original size:23 final size:23
Alignment explanation
Indices: 46355759--46355860 Score: 71
Period size: 23 Copynumber: 4.5 Consensus size: 23
46355749 TTATAGAAAC
* **
46355759 TTAAAACATGCTTTGGATGACAT
1 TTAAAACATACTTTGGACAACAT
*
46355782 TTAAAACATATTTTGGACAACAT
1 TTAAAACATACTTTGGACAACAT
* * * * *
46355805 TCAAACCTTACTTT-GCCAGCAT
1 TTAAAACATACTTTGGACAACAT
* * * *
46355827 TTGAAACATACTTTTGCCAGCAT
1 TTAAAACATACTTTGGACAACAT
*
46355850 TTAAAGCATAC
1 TTAAAACATAC
46355861 CAAATGTTAT
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
22 16 0.26
23 46 0.74
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (23 bp):
TTAAAACATACTTTGGACAACAT
Found at i:46357283 original size:23 final size:24
Alignment explanation
Indices: 46357252--46357299 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
46357242 TAGTGGATAA
*
46357252 TTGCTCATTT-GGTCCCTCCTATT
1 TTGCCCATTTAGGTCCCTCCTATT
46357275 TTGCCCATTTAGGTCCCTCCTATT
1 TTGCCCATTTAGGTCCCTCCTATT
46357299 T
1 T
46357300 ATTTCTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.10, C:0.31, G:0.12, T:0.46
Consensus pattern (24 bp):
TTGCCCATTTAGGTCCCTCCTATT
Found at i:46363402 original size:111 final size:111
Alignment explanation
Indices: 46363207--46363427 Score: 381
Period size: 111 Copynumber: 2.0 Consensus size: 111
46363197 ATATAATCAA
* *
46363207 AATATCTTAAAAGCTTGAAGAAGAAAAAAAGAACAACAATTATTTTTCATTACTGTAGGAGCCAT
1 AATATCTTAAAAGCTTGAAGAAGAAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGCCAT
*
46363272 TATTAATATTCAATACAGAACCATCTAATTAAGCAATGAATATCCAT
66 TATTAATATTCAATACAGAACCATCT-ATTAAGCAATGAACATCCAT
* *
46363319 AATATCTTAAAAGCTTGAAGAAG-AAAAAAGAACAATAGTCACTTTTCATTACTGTAGGAGCCAT
1 AATATCTTAAAAGCTTGAAGAAGAAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGCCAT
46363383 TATTAATATTCAATACAGAACCATCTATTAAGCAATGAACATCCA
66 TATTAATATTCAATACAGAACCATCTATTAAGCAATGAACATCCA
46363428 ATAAACACCA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
110 18 0.17
111 63 0.61
112 23 0.22
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (111 bp):
AATATCTTAAAAGCTTGAAGAAGAAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGCCAT
TATTAATATTCAATACAGAACCATCTATTAAGCAATGAACATCCAT
Found at i:46366519 original size:19 final size:20
Alignment explanation
Indices: 46366497--46366592 Score: 67
Period size: 19 Copynumber: 4.8 Consensus size: 20
46366487 AAACAATTCA
*
46366497 AAAATAATTTTCAAAAA-TT
1 AAAATAATTTTAAAAAATTT
*
46366516 AAAATTA-TTTATAAAAATTT
1 AAAATAATTTTA-AAAAATTT
46366536 CAAAATTTATATTTTAAAAAA-TT
1 -AAAA--TA-ATTTTAAAAAATTT
*
46366559 ATAAA-AATTCTAAAAAATTT
1 A-AAATAATTTTAAAAAATTT
*
46366579 AAAA-AAATTTAAAA
1 AAAATAATTTTAAAA
46366593 TTTTAAGAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
18 3 0.05
19 32 0.52
20 6 0.10
21 4 0.06
22 1 0.02
23 6 0.10
24 6 0.10
25 4 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATTTTAAAAAATTT
Found at i:46366565 original size:10 final size:9
Alignment explanation
Indices: 46366548--46366592 Score: 56
Period size: 10 Copynumber: 4.8 Consensus size: 9
46366538 AAATTTATAT
46366548 TTTAAAAAA
1 TTTAAAAAA
46366557 -TTATAAAAA
1 TTTA-AAAAA
46366566 TTCTAAAAAA
1 TT-TAAAAAA
46366576 TTTAAAAAAA
1 TTT-AAAAAA
46366586 TTTAAAA
1 TTTAAAA
46366593 TTTTAAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 3 0.09
9 10 0.31
10 17 0.53
11 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:46369239 original size:105 final size:106
Alignment explanation
Indices: 46369119--46369329 Score: 352
Period size: 105 Copynumber: 2.0 Consensus size: 106
46369109 CCTAGAAAAT
* ** *
46369119 ATTTTGGCTTTGCCCCTCATGATGTCCTAAACTATTTCACAAAGAAAATTGAAATGTAGAAGAGA
1 ATTTTGGCTTTGCCCCTCATGACGTCAAAAACTATTTCACAAAGAAAATTGAAATGTAAAAGAGA
*
46369184 A-GGGGAAAAGAGTTTTTAATTAGTGCAAGTAGAGTGATAA
66 AGGGGGAAAAGAGTTTTTAATTAGTGCAAGCAGAGTGATAA
46369224 ATTTTGGCTTTGCCCCTCATGACGTCAAAAACTATTTCACAAAGAAAATTGAAATGTAAAAGAGA
1 ATTTTGGCTTTGCCCCTCATGACGTCAAAAACTATTTCACAAAGAAAATTGAAATGTAAAAGAGA
* *
46369289 AGGGGGAAAAGAGTTTTTGATTGGTGCAAGCAGAGTGATAA
66 AGGGGGAAAAGAGTTTTTAATTAGTGCAAGCAGAGTGATAA
46369330 GAGAAAGCCA
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
105 62 0.63
106 36 0.37
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (106 bp):
ATTTTGGCTTTGCCCCTCATGACGTCAAAAACTATTTCACAAAGAAAATTGAAATGTAAAAGAGA
AGGGGGAAAAGAGTTTTTAATTAGTGCAAGCAGAGTGATAA
Found at i:46370246 original size:126 final size:125
Alignment explanation
Indices: 46370008--46370573 Score: 787
Period size: 126 Copynumber: 4.5 Consensus size: 125
46369998 AAAATTAAAG
* * * * * * *
46370008 CAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
* *
46370073 TCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAGCGCTTCAAC
66 TCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAC
* * * *
46370133 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGTCCTCGTAGACGCTCTTTTGCTACAGTTGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
* * *
46370198 TCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAG
66 TCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAC
* *
46370260 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
* * * * *
46370325 TCCTGAAAAAATAATTTTGAGTTGACGTTGCTGAGCAAATAATATAAAATAACGCTGCAAC
66 TCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTCAAC
* *
46370386 CAGGATGCTATT-TGAGAAAAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGTAG
1 CAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
* * * * *
46370450 GTCTTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTAG
65 GTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAC
*
46370510 CAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCAT-GTGGACGCGCTTTTGCTACAGTAG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC-TCGTGGACGCGCTTTTGCTACAGTAG
46370574 CATGTTTGGG
Statistics
Matches: 390, Mismatches: 45, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
123 1 0.00
124 64 0.16
125 69 0.18
126 176 0.45
127 80 0.21
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
TCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAC
Found at i:46373774 original size:21 final size:21
Alignment explanation
Indices: 46373748--46374394 Score: 575
Period size: 21 Copynumber: 30.7 Consensus size: 21
46373738 TCAAATTATA
46373748 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
46373769 TTTAAGTTAAGTGTTAGGGCTT
1 TTTAAGTTAAGGGTTAGGG-TT
* ** *
46373791 TTT-ATTTAAGGGTTACAGCT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
46373811 TTAAAGTTAAGGTTTTAGGGTA
1 TTTAAGTTAAGG-GTTAGGGTT
* *
46373833 TTTAATTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
46373855 TTTAAGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
46373876 TTTAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAGGG-TTAGGGTT
* * * *
46373898 TTTAATTTAATGGTCTATGATT
1 TTTAAGTTAAGGGT-TAGGGTT
46373920 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
46373942 TTAAAGTTAAGGATTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* ***
46373963 TTTAATTTAAGGGTTACAATT
1 TTTAAGTTAAGGGTTAGGGTT
46373984 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * *
46374006 TTAAAGTTAAGGGTCATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
46374027 TTTAGGTTTAGGGTTTAGAGTT
1 TTTAAGTTAAGGG-TTAGGGTT
46374049 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
* *
46374070 TTT-A--T--GGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
46374086 TTTAATTTAAGGGTTTACGATT
1 TTTAAGTTAAGGG-TTAGGGTT
*
46374108 TTTAAGTTAAGGTTTTAGGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
*
46374130 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* **
46374151 TTTAATTTAAGGGTTATAGTT
1 TTTAAGTTAAGGGTTAGGGTT
46374172 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* ***
46374194 TTAAAGTTAAAAATTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
46374214 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
46374236 TTTAAGTCAAGGATTTAGGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
46374258 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
46374279 TTTAAATTAAGGGTTTAGGG--
1 TTTAAGTTAAGGG-TTAGGGTT
* **
46374299 -TT---TTAAGGTTTAAAGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
46374316 TTTAATTTAAGGGGTTAGAGTT
1 TTTAAGTTAA-GGGTTAGGGTT
46374338 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
46374359 TTTAAGTTTAGGGTTAGGGGT
1 TTTAAGTTAAGGGTTAGGGTT
*
46374380 TTTAGGTTAAGGGTT
1 TTTAAGTTAAGGGTT
46374395 TAAGGTTTGT
Statistics
Matches: 500, Mismatches: 97, Indels: 58
0.76 0.15 0.09
Matches are distributed among these distances:
15 9 0.02
16 12 0.02
17 1 0.00
18 3 0.01
19 3 0.01
20 14 0.03
21 229 0.46
22 228 0.46
23 1 0.00
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:46373843 original size:22 final size:21
Alignment explanation
Indices: 46373748--46374402 Score: 512
Period size: 22 Copynumber: 31.0 Consensus size: 21
46373738 TCAAATTATA
*
46373748 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
46373769 TTTAAGTTAA-GTGTTAGGGCTT
1 TTTAAGTTAAGGT-TTAGGG-TT
* * ** *
46373791 TTT-ATTTAAGGGTTACAGCT
1 TTTAAGTTAAGGTTTAGGGTT
* *
46373811 TTAAAGTTAAGGTTTTAGGGTA
1 TTTAAGTTAAGG-TTTAGGGTT
* *
46373833 TTTAATTTAAGGGTTTAGTGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
46373855 TTTAAGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
46373876 TTTAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAA-GGTTTAGGGTT
* * * *
46373898 TTTAATTTAATGGTCTATGATT
1 TTTAAGTTAA-GGTTTAGGGTT
46373920 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
46373942 TTAAAGTTAAGGATTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * ***
46373963 TTTAATTTAAGGGTTACAATT
1 TTTAAGTTAAGGTTTAGGGTT
46373984 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* * * *
46374006 TTAAAGTTAAGGGTCATGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * *
46374027 TTTAGGTTTAGGGTTTAGAGTT
1 TTTAAG-TTAAGGTTTAGGGTT
46374049 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAA-GGTTTAGGGTT
*
46374070 TTT-A--T--GGTTTAAGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * *
46374086 TTTAATTTAAGGGTTTACGATT
1 TTTAAGTTAA-GGTTTAGGGTT
46374108 TTTAAGTTAAGGTTTTAGGGTT
1 TTTAAGTTAAGG-TTTAGGGTT
* *
46374130 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * **
46374151 TTTAATTTAAGGGTTATAGTT
1 TTTAAGTTAAGGTTTAGGGTT
46374172 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* ***
46374194 TTAAAGTTAAAAATTAGGG-T
1 TTTAAGTTAAGGTTTAGGGTT
46374214 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
46374236 TTTAAGTCAAGGATTTAGGGTT
1 TTTAAGTTAAGG-TTTAGGGTT
*
46374258 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
46374279 TTTAAATTAAGGGTTTAGGG--
1 TTTAAGTTAA-GGTTTAGGGTT
**
46374299 -TT---TTAAGGTTTAAAGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * *
46374316 TTTAATTTAAGGGGTTAGAGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
46374338 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * *
46374359 TTTAAGTTTAGGGTTAGGGGT
1 TTTAAGTTAAGGTTTAGGGTT
* *
46374380 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
46374402 T
1 T
46374403 GTCAATTAAA
Statistics
Matches: 500, Mismatches: 103, Indels: 61
0.75 0.16 0.09
Matches are distributed among these distances:
15 15 0.03
16 8 0.02
17 1 0.00
18 3 0.01
19 3 0.01
20 15 0.03
21 212 0.42
22 241 0.48
23 2 0.00
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
TTTAAGTTAAGGTTTAGGGTT
Found at i:46373843 original size:43 final size:42
Alignment explanation
Indices: 46373748--46374394 Score: 568
Period size: 43 Copynumber: 15.4 Consensus size: 42
46373738 TCAAATTATA
46373748 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GTGTTAGGGCTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGT-TTAGGG-TT
* ** * * *
46373791 TTT-ATTTAAGGGTTACAGCTTTAAAGTTAAGGTTTTAGGGTA
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG-TTTAGGGTT
* * * *
46373833 TTTAATTTAAGGGTTTAGTGTTTTTAAGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * * * *
46373876 TTTAAGTTAAGGGTTTAGGGTATTTAATTTAATGGTCTATGATT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* *
46373920 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGATTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* ***
46373963 TTTAATTTAAGGGTTACAATTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * * * * *
46374006 TTAAAGTTAAGGGTCATGGTTTTTAGGTTTAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAG-TTAAGGTTTAGGGTT
*
46374049 TTTAAGTTAAGGGTTTAGGG-TTTT-A--T--GGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * *
46374086 TTTAATTTAAGGGTTTACGATTTTTAAGTTAAGGTTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGG-TTTAGGGTT
* * * **
46374130 TTAAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTATAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* ***
46374172 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAAAATTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGTTTAGGGTT
*
46374214 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTCAAGGATTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGG-TTTAGGGTT
*
46374258 TTTAAGTTAAGGGTTAGGGTTTTTAAATTAAGGGTTTAGGG--
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* ** * * *
46374299 -TT---TTAAGGTTTAAAGTTTTTAATTTAAGGGGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * *
46374338 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAGGGTTAGGGGT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
*
46374380 TTTAGGTTAAGGGTT
1 TTTAAGTTAAGGGTT
46374395 TAAGGTTTGT
Statistics
Matches: 488, Mismatches: 91, Indels: 51
0.77 0.14 0.08
Matches are distributed among these distances:
37 55 0.11
38 4 0.01
39 2 0.00
40 4 0.01
41 1 0.00
42 112 0.23
43 216 0.44
44 94 0.19
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
Found at i:46375645 original size:7 final size:7
Alignment explanation
Indices: 46375635--46375660 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46375625 TTATATACAT
46375635 AATACTA
1 AATACTA
46375642 AATACTA
1 AATACTA
46375649 AATACTA
1 AATACTA
46375656 AATAC
1 AATAC
46375661 CAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:46376680 original size:59 final size:58
Alignment explanation
Indices: 46376527--46376682 Score: 194
Period size: 59 Copynumber: 2.7 Consensus size: 58
46376517 ATATTATGAT
* *
46376527 TTTTATT-AATTCATATTTTAAAAATAAT-TATATTAAGAATGTTATTAAATTATATATTA
1 TTTTATTAAATT-ATA-TTTAATAATAATCTATATTAA-AATATTATTAAATTATATATTA
* *
46376586 TTTTATTAAATTGTATTTAATAATAA-CTATTTTAAAATATTATTAAATTATATCATTA
1 TTTTATTAAATTATATTTAATAATAATCTATATTAAAATATTATTAAATTATAT-ATTA
*
46376644 CTTTTATTAAATTATATTTAGTAATAATCT-TATTAAAAT
1 -TTTTATTAAATTATATTTAATAATAATCTATATTAAAAT
46376683 TTAATAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
57 17 0.20
58 21 0.25
59 41 0.48
60 6 0.07
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (58 bp):
TTTTATTAAATTATATTTAATAATAATCTATATTAAAATATTATTAAATTATATATTA
Found at i:46376876 original size:16 final size:16
Alignment explanation
Indices: 46376855--46376895 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
46376845 TACTGATTAC
46376855 CCATTACAGATATATT
1 CCATTACAGATATATT
** *
46376871 CCATTACATCTCTATT
1 CCATTACAGATATATT
46376887 CCATTACAG
1 CCATTACAG
46376896 CCATATTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (16 bp):
CCATTACAGATATATT
Found at i:46376902 original size:16 final size:16
Alignment explanation
Indices: 46376855--46376907 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
46376845 TACTGATTAC
**
46376855 CCATTACAGATATATT
1 CCATTACAGCCATATT
*
46376871 CCATTACATCTC-TATT
1 CCATTACAGC-CATATT
46376887 CCATTACAGCCATATT
1 CCATTACAGCCATATT
*
46376903 TCATT
1 CCATT
46376908 CACCTCAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 1 0.03
16 29 0.97
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (16 bp):
CCATTACAGCCATATT
Found at i:46378186 original size:21 final size:21
Alignment explanation
Indices: 46378138--46378191 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
46378128 TTGCTCTGCT
* * *
46378138 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAACCG
**
46378159 CCACTTCCCTCGCTGCAACCG
1 CTGCTTCCCTCGCTGCAACCG
46378180 CTGCTTCCCTCG
1 CTGCTTCCCTCG
46378192 TTGCCGCTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.07, C:0.48, G:0.17, T:0.28
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAACCG
Found at i:46380778 original size:9 final size:8
Alignment explanation
Indices: 46380762--46381263 Score: 99
Period size: 9 Copynumber: 56.1 Consensus size: 8
46380752 TATTATGTAT
46380762 TATGTAAG
1 TATGTAAG
46380770 TACTGTAAG
1 TA-TGTAAG
46380779 TAATGTAAG
1 T-ATGTAAG
46380788 TTATGTAAG
1 -TATGTAAG
*
46380797 TTACT-TAATT
1 -TA-TGTAA-G
46380807 TATGTAAG
1 TATGTAAG
46380815 TTATGTAAG
1 -TATGTAAG
* *
46380824 ATATTTAATT
1 -TATGTAA-G
46380834 TATGTAAG
1 TATGTAAG
46380842 TTATGTAAG
1 -TATGTAAG
*
46380851 TTACT-TAATT
1 -TA-TGTAA-G
*
46380861 TCTGTAAG
1 TATGTAAG
46380869 TTATGTAAG
1 -TATGTAAG
46380878 TTATGTAAG
1 -TATGTAAG
*
46380887 ATAT-TTAG
1 -TATGTAAG
*
46380895 TTTATGTAATT
1 --TATGTAA-G
46380906 TATGTAAG
1 TATGTAAG
46380914 TTATGTAAG
1 -TATGTAAG
* *
46380923 TTATTTAATT
1 -TATGTAA-G
*
46380933 TTTGTAAG
1 TATGTAAG
46380941 TTATGTAAG
1 -TATGTAAG
*
46380950 TTACT-TAATT
1 -TA-TGTAA-G
46380960 TATGTAAG
1 TATGTAAG
46380968 TTATGTAAG
1 -TATGTAAG
46380977 TTATGTAAG
1 -TATGTAAG
* *
46380986 TTATTTAATT
1 -TATGTAA-G
46380996 TATGTAAG
1 TATGTAAG
46381004 TTATGTAAG
1 -TATGTAAG
*
46381013 ATAT-TTAG
1 -TATGTAAG
46381021 TTTATGTAA-
1 --TATGTAAG
*
46381030 AATGTAAG
1 TATGTAAG
46381038 TTATGTAAG
1 -TATGTAAG
* *
46381047 TTATTTAATT
1 -TATGTAA-G
*
46381057 TTTGTAAG
1 TATGTAAG
46381065 TTATGTAAG
1 -TATGTAAG
*
46381074 TTACT-TAATT
1 -TA-TGTAA-G
46381084 TATGTAAG
1 TATGTAAG
46381092 TTATGTAAG
1 -TATGTAAG
46381101 TTATGTAAG
1 -TATGTAAG
*
46381110 ATAT-TTAG
1 -TATGTAAG
46381118 TTTATGTAAG
1 --TATGTAAG
46381128 TTATGTAAG
1 -TATGTAAG
*
46381137 ATAT-TTAG
1 -TATGTAAG
*
46381145 TTAATGTAATT
1 -T-ATGTAA-G
46381156 TATGTAAG
1 TATGTAAG
46381164 TTATGTAAG
1 -TATGTAAG
*
46381173 ATAT-TTAG
1 -TATGTAAG
*
46381181 TTAATGTAATT
1 -T-ATGTAA-G
46381192 TATGTAAG
1 TATGTAAG
46381200 TTATGTAAG
1 -TATGTAAG
* *
46381209 TTATTTAATT
1 -TATGTAA-G
*
46381219 TTTGTAAG
1 TATGTAAG
46381227 TTATGTAAG
1 -TATGTAAG
*
46381236 TTACT-TAATT
1 -TA-TGTAA-G
46381246 TATGTAAG
1 TATGTAAG
46381254 TTATGTAAG
1 -TATGTAAG
46381263 T
1 T
46381264 TATTTAATTT
Statistics
Matches: 376, Mismatches: 67, Indels: 102
0.69 0.12 0.19
Matches are distributed among these distances:
7 6 0.02
8 25 0.07
9 325 0.86
10 20 0.05
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (8 bp):
TATGTAAG
Found at i:46380792 original size:27 final size:27
Alignment explanation
Indices: 46380773--46381383 Score: 529
Period size: 27 Copynumber: 23.0 Consensus size: 27
46380763 ATGTAAGTAC
* *
46380773 TGTAAGTAATGTAAGTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
** * **
46380800 CTTAATTTATGTAAGTTATGTAAGATA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* * *
46380827 TTTAATTTATGTAAGTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
** * * *
46380854 CTTAATTTCTGTAAGTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* *
46380881 TGTAAGATAT-TTAGTTTATGTAATTTA
1 TGTAAGTTATGTAAG-TTATGTAATTTA
* *
46380908 TGTAAGTTATGTAAGTTATTTAATTTT
1 TGTAAGTTATGTAAGTTATGTAATTTA
46380935 TGTAAGTTATGTAAGTTACT-TAATTTA
1 TGTAAGTTATGTAAGTTA-TGTAATTTA
*
46380962 TGTAAGTTATGTAAGTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* * **
46380989 TTTAATTTATGTAAGTTATGTAAGATA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* * *
46381016 T-TTAGTTTATGTAA--AATGTAAGTTA
1 TGTAAG-TTATGTAAGTTATGTAATTTA
* * * *
46381041 TGTAAGTTATTTAATTTTTGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* *
46381068 TGTAAGTTACT-TAATTTATGTAAGTTA
1 TGTAAGTTA-TGTAAGTTATGTAATTTA
* * *
46381095 TGTAAGTTATGTAAGATATTTAGTTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
46381122 TGTAAGTTATGTAAG--A--T-ATTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* * *
46381144 -GT---TAATGTAATTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* * ** *
46381167 TGTAAGATATTTAGTTAATGTAATTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* *
46381194 TGTAAGTTATGTAAGTTATTTAATTTT
1 TGTAAGTTATGTAAGTTATGTAATTTA
46381221 TGTAAGTTATGTAAGTTACT-TAATTTA
1 TGTAAGTTATGTAAGTTA-TGTAATTTA
*
46381248 TGTAAGTTATGTAAGTTATTTAATTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* * * *
46381275 TGTAAGTTATATAAGATATTTAGTTTA
1 TGTAAGTTATGTAAGTTATGTAATTTA
* *
46381302 TGTAAGATAT-TTAGTTTATGTAATTTA
1 TGTAAGTTATGTAAG-TTATGTAATTTA
* *
46381329 TGTAAGTTATGTAAGTTATTTAATTTT
1 TGTAAGTTATGTAAGTTATGTAATTTA
*
46381356 TGTAAGTTATGTAA-TTAATGTAAGTTA
1 TGTAAGTTATGTAAGTT-ATGTAATTTA
46381383 T
1 T
46381384 TTAATTTGTG
Statistics
Matches: 488, Mismatches: 72, Indels: 48
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.01
20 1 0.00
21 2 0.00
22 5 0.01
23 5 0.01
24 2 0.00
25 18 0.04
26 16 0.03
27 423 0.87
28 9 0.02
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (27 bp):
TGTAAGTTATGTAAGTTATGTAATTTA
Found at i:46380815 original size:36 final size:36
Alignment explanation
Indices: 46380754--46381383 Score: 594
Period size: 36 Copynumber: 17.6 Consensus size: 36
46380744 CATTTATGTA
*
46380754 TTATGT-A-TTATGTAAG-TACTGTAAGTAATGTAAG
1 TTATGTAAGTTATGTAAGTTA-TGTAAGTTATGTAAG
*
46380788 TTATGTAAGTTACT-TAATTTATGTAAGTTATGTAAG
1 TTATGTAAGTTA-TGTAAGTTATGTAAGTTATGTAAG
* * * *
46380824 ATATTTAATTTATGTAAGTTATGTAAGTTACT-TAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTA-TGTAAG
* * *
46380860 TTCTGTAAGTTATGTAAGTTATGTAAGATAT-TTAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
* * *
46380895 TTTATGTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 -TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
* *
46380932 TTTTGTAAGTTATGTAAGTTACT-TAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTA-TGTAAGTTATGTAAG
* *
46380968 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
* * *
46381004 TTATGTAAGATAT-TTAGTTTATGTAA--AATGTAAG
1 TTATGTAAGTTATGTAAG-TTATGTAAGTTATGTAAG
* * *
46381038 TTATGTAAGTTATTTAATTTTTGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
*
46381074 TTACT-TAATTTATGTAAGTTATGTAAGTTATGTAAG
1 TTA-TGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
* * * *
46381110 ATAT-TTAGTTTATGTAAGTTATGTAAGATAT-TTAG
1 TTATGTAAG-TTATGTAAGTTATGTAAGTTATGTAAG
* * *
46381145 TTAATGTAATTTATGTAAGTTATGTAAGATAT-TTAG
1 TT-ATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
* * *
46381181 TTAATGTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TT-ATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
* *
46381218 TTTTGTAAGTTATGTAAGTTACT-TAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTA-TGTAAGTTATGTAAG
* * *
46381254 TTATGTAAGTTATTTAATTTATGTAAGTTATATAAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
* * * * *
46381290 ATAT-TTAGTTTATGTAAGATAT-TTAGTTTATGTAAT
1 TTATGTAAG-TTATGTAAGTTATGTAAG-TTATGTAAG
* * *
46381326 TTATGTAAGTTATGTAAGTTATTTAATTTTTGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
46381362 TTATGTAA-TTAATGTAAGTTAT
1 TTATGTAAGTT-ATGTAAGTTAT
46381384 TTAATTTGTG
Statistics
Matches: 496, Mismatches: 74, Indels: 50
0.80 0.12 0.08
Matches are distributed among these distances:
34 32 0.06
35 27 0.05
36 417 0.84
37 20 0.04
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG
Found at i:46381388 original size:18 final size:17
Alignment explanation
Indices: 46380754--46381389 Score: 432
Period size: 18 Copynumber: 35.6 Consensus size: 17
46380744 CATTTATGTA
46380754 TTATGT-ATTATGTAAG
1 TTATGTAATTATGTAAG
*
46380770 -TACTGTAAGTAATGTAAG
1 TTA-TGTAA-TTATGTAAG
*
46380788 TTATGTAAGTTACT-TAAT
1 TTATGTAA-TTA-TGTAAG
46380806 TTATGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
* *
46380824 ATATTTAATTTATGTAAG
1 TTATGTAA-TTATGTAAG
*
46380842 TTATGTAAGTTACT-TAAT
1 TTATGTAA-TTA-TGTAAG
*
46380860 TTCTGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
* *
46380878 TTATGTAAGATAT-TTAG
1 TTATGTAA-TTATGTAAG
46380895 TTTATGTAATTTATGTAAG
1 -TTATGTAA-TTATGTAAG
* *
46380914 TTATGTAAGTTATTTAAT
1 TTATGTAA-TTATGTAAG
*
46380932 TTTTGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
46380950 TTACT-TAATTTATGTAAG
1 TTA-TGTAA-TTATGTAAG
46380968 TTATGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
*
46380986 TTATTTAATTTATGTAAG
1 TTATGTAA-TTATGTAAG
* *
46381004 TTATGTAAGATAT-TTAG
1 TTATGTAA-TTATGTAAG
*
46381021 TTTATGTAA-AATGTAAG
1 -TTATGTAATTATGTAAG
* *
46381038 TTATGTAAGTTATTTAAT
1 TTATGTAA-TTATGTAAG
*
46381056 TTTTGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
46381074 TTACT-TAATTTATGTAAG
1 TTA-TGTAA-TTATGTAAG
46381092 TTATGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
* * *
46381110 ATATTTAGTTTATGTAAG
1 TTATGTA-ATTATGTAAG
* *
46381128 TTATGTAAGATAT-TTAG
1 TTATGTAA-TTATGTAAG
46381145 TTAATGTAATTTATGTAAG
1 TT-ATGTAA-TTATGTAAG
* *
46381164 TTATGTAAGATAT-TTAG
1 TTATGTAA-TTATGTAAG
46381181 TTAATGTAATTTATGTAAG
1 TT-ATGTAA-TTATGTAAG
* *
46381200 TTATGTAAGTTATTTAAT
1 TTATGTAA-TTATGTAAG
*
46381218 TTTTGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
46381236 TTACT-TAATTTATGTAAG
1 TTA-TGTAA-TTATGTAAG
* *
46381254 TTATGTAAGTTATTTAAT
1 TTATGTAA-TTATGTAAG
*
46381272 TTATGTAAGTTATATAAG
1 TTATGTAA-TTATGTAAG
* * *
46381290 ATATTTAGTTTATGTAAG
1 TTATGTA-ATTATGTAAG
* * * *
46381308 ATATTTAGTTTATGTAAT
1 TTATGTA-ATTATGTAAG
46381326 TTATGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
* *
46381344 TTATTTAATTTTTGTAAG
1 TTATGTAA-TTATGTAAG
46381362 TTATGTAATTAATGTAAG
1 TTATGTAATT-ATGTAAG
*
46381380 TTATTTAATT
1 TTATGTAATT
46381390 TGTGAACCCT
Statistics
Matches: 501, Mismatches: 90, Indels: 56
0.77 0.14 0.09
Matches are distributed among these distances:
15 2 0.00
16 13 0.03
17 27 0.05
18 439 0.88
19 20 0.04
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (17 bp):
TTATGTAATTATGTAAG
Found at i:46385646 original size:21 final size:20
Alignment explanation
Indices: 46385618--46385656 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
46385608 CTTAACACAT
*
46385618 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
46385638 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
46385657 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:46385927 original size:115 final size:115
Alignment explanation
Indices: 46385729--46386255 Score: 444
Period size: 115 Copynumber: 4.6 Consensus size: 115
46385719 ACCAAAACTT
* * * *
46385729 TGCGTTTTGGTTAAGATATTTTTCGGCGCTTTTCAAAAAGCGCCGCTAATACTATACTTTAGCGG
1 TGCGTTTTGGTTAACATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGCTTTAGCGG
* **
46385794 CGATTTCTCG--T-GGACGCCACTAATTCCATTATACATCAAGACTTAAACGC
66 CG--TTCTCGCATATG-CGCCACTAATTCCATTATACATCAAGACAAAAACGC
* * *
46385844 TGCGTTTTTGTTAATATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAATATGCTTTAGCGG
1 TGCGTTTTGGTTAACATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGCTTTAGCGG
* * * * * * * *
46385909 CGTTCCCGCATAAGCGCCACTAAGTCTAATATACCTCATGA-AAAAACTC
66 CGTTCTCGCATATGCGCCACTAATTCCATTATACATCAAGACAAAAACGC
* * * **** * * *
46385958 TGCGTTTTGGTGAGCATATTTTGCGGCGCTTTTTTCCAAGCGCCGCTAATACTATGATGTAGCAG
1 TGCGTTTTGGTTAACATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGCTTTAGCGG
* *** * * *
46386023 CGTTTTTTTAATATGCGCCACTAATTAC-TGTATACATCGAGACAAAAACGT
66 CG-TTCTCGCATATGCGCCACTAATTCCAT-TATACATCAAGACAAAAACGC
* * * * * *
46386074 TGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTGAAAA-CCCCGCTAATAGTATGCCTTAGCG
1 TGCGTTTTGGTTAACATATTTTGCGGCGCTTCTC-AAAAAGCGCCGCTAATACTATGCTTTAGCG
* * * * * * *
46386138 GCGTGT-TC-CTTTTGCGCCACTAATTCTAGTATACCTCAAGAC-CAAACTC
65 GCGT-TCTCGCATATGCGCCACTAATTCCATTATACATCAAGACAAAAACGC
* * * *
46386187 TACGTTTTGGTTCAGATATTTTGCGGCGCTTCTCACAAAA-CGCCGCTAATATTATGCTTTAGCG
1 TGCGTTTTGGTTAACATATTTTGCGGCGCTTCTCA-AAAAGCGCCGCTAATACTATGCTTTAGCG
46386251 GCGTT
65 GCGTT
46386256 TTCCATTAAA
Statistics
Matches: 323, Mismatches: 79, Indels: 23
0.76 0.19 0.05
Matches are distributed among these distances:
112 1 0.00
113 67 0.21
114 84 0.26
115 111 0.34
116 58 0.18
117 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (115 bp):
TGCGTTTTGGTTAACATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGCTTTAGCGG
CGTTCTCGCATATGCGCCACTAATTCCATTATACATCAAGACAAAAACGC
Found at i:46386233 original size:229 final size:230
Alignment explanation
Indices: 46385716--46386257 Score: 580
Period size: 229 Copynumber: 2.4 Consensus size: 230
46385706 ATGCATGGTT
* *
46385716 AAGACCAAAACTTTGCGTTTTGGTTAAGATATTTTTCGGCGCTTTTCA-AAAAGCGCCGCTAATA
1 AAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAA-CGCCGCTAATA
* ** * **
46385780 CTAT-ACTTTAGCGGCG-ATTTCTCGTGGACGCCACTAATTCCATTATACATCAAGACTTAAACG
64 CTATGA-TTTAGCGGCGTTTTTCTAATGGACGCCACTAATTACATTATACATCAAGACAAAAACG
* * * * *
46385843 CTGCGTTTTTGTTAATATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAATATGCTTTAGCG
128 CTGCGTTTTGGTTAACAAATTTTGCGGCGCTTCTCAAAAAGCCCCGCTAATAATATGCCTTAGCG
46385908 GCGTTCCCGCATAAGCGCCACTAAGTCTAATATACCTC
193 GCGTTCCCGCATAAGCGCCACTAAGTCTAATATACCTC
* ** * ** * *
46385946 ATGAAAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGCTTTTTTCCAAGCGCCGCTAATAC
1 AAGACCAAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGCGCTTTTCACAAAACGCCGCTAATAC
* * * * *
46386010 TATGATGTAGCAGCGTTTTTTTAATATG-CGCCACTAATTAC-TGTATACATCGAGACAAAAACG
65 TATGATTTAGCGGCGTTTTTCTAAT-GGACGCCACTAATTACAT-TATACATCAAGACAAAAACG
* * * *
46386073 TTGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTGAAAA-CCCCGCTAATAGTATGCCTTAGC
128 CTGCGTTTTGGTTAACAAATTTTGCGGCGCTTCTC-AAAAAGCCCCGCTAATAATATGCCTTAGC
* * ** * *
46386137 GGCGTGT-TC-CTTTTGCGCCACTAATTCTAGTATACCTC
192 GGCGT-TCCCGCATAAGCGCCACTAAGTCTAATATACCTC
* * * *
46386175 AAGACCAAACTCTACGTTTTGGTTCAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATATT
1 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAACGCCGCTAATACT
*
46386240 ATGCTTTAGCGGCGTTTT
66 ATGATTTAGCGGCGTTTT
46386258 CCATTAAACG
Statistics
Matches: 253, Mismatches: 50, Indels: 19
0.79 0.16 0.06
Matches are distributed among these distances:
228 3 0.01
229 145 0.57
230 99 0.39
231 6 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (230 bp):
AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAACGCCGCTAATACT
ATGATTTAGCGGCGTTTTTCTAATGGACGCCACTAATTACATTATACATCAAGACAAAAACGCTG
CGTTTTGGTTAACAAATTTTGCGGCGCTTCTCAAAAAGCCCCGCTAATAATATGCCTTAGCGGCG
TTCCCGCATAAGCGCCACTAAGTCTAATATACCTC
Found at i:46386531 original size:112 final size:113
Alignment explanation
Indices: 46386377--46386609 Score: 299
Period size: 112 Copynumber: 2.1 Consensus size: 113
46386367 GACCAAACTC
* *
46386377 TGCGTTTTGGTTAACATATGTTGCGGCGCTTTTGATAAGCGCCGCTAATACTTCCTTTAGCGGCG
1 TGCGTTTTCGTTAACATATGTTGCGGCGCTTTGGATAAGCGCCGCTAATACTTCCTTTAGCGGCG
* * * *
46386442 GGTTTTCGTCAGCGCCACTAACGCTAATATACAACGAGA-CAAAACGA
66 GGTTTTCATAAACGCCACTAACGCTAATATACAACAAGACCAAAACGA
* * * *
46386489 TGCGTTTTCGTTAAGAT-TTTTGCGGCGCATTTGGCTATGCGCCGCTAATACTTCCTTTAGCGGC
1 TGCGTTTTCGTTAACATATGTTGCGGCGC-TTTGGATAAGCGCCGCTAATACTTCCTTTAGCGGC
** ** * *
46386553 GTTTTTTCATAAACGCCACTAATTCTAGTATACATCAAGACCAAAACGA
65 GGGTTTTCATAAACGCCACTAACGCTAATATACAACAAGACCAAAACGA
46386602 TGCGTTTT
1 TGCGTTTT
46386610 GATCTTCAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
111 10 0.10
112 77 0.75
113 16 0.16
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (113 bp):
TGCGTTTTCGTTAACATATGTTGCGGCGCTTTGGATAAGCGCCGCTAATACTTCCTTTAGCGGCG
GGTTTTCATAAACGCCACTAACGCTAATATACAACAAGACCAAAACGA
Found at i:46389272 original size:18 final size:18
Alignment explanation
Indices: 46389212--46389277 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
46389202 TTTTTAAATT
46389212 TTTTAATATATTTTT-TAA
1 TTTTAA-ATATTTTTATAA
**
46389230 TTTTAAA-ATTTTTATTC
1 TTTTAAATATTTTTATAA
* * *
46389247 GTTAAAATATTTTTAGAA
1 TTTTAAATATTTTTATAA
46389265 TTTTAAATTATTT
1 TTTTAAA-TATTT
46389278 GTTAATGTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
16 6 0.17
17 7 0.19
18 18 0.50
19 5 0.14
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAAATATTTTTATAA
Found at i:46393732 original size:3 final size:3
Alignment explanation
Indices: 46393724--46393759 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
46393714 GAATCTGCAA
46393724 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
46393760 TAGCATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:46394847 original size:13 final size:12
Alignment explanation
Indices: 46394829--46394862 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46394819 AGGGAGAAGC
*
46394829 AAAATAGAATGAA
1 AAAATAAAAT-AA
46394842 AAAATAAAATAA
1 AAAATAAAATAA
46394854 AAAATAAAA
1 AAAATAAAA
46394863 GTTAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:46400053 original size:17 final size:18
Alignment explanation
Indices: 46400027--46400063 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46400017 GAAAAAGAAA
*
46400027 AAGAACAAGAAGAA-GAG
1 AAGAAAAAGAAGAAGGAG
46400044 AAGAAAAAGAAGAAGGAG
1 AAGAAAAAGAAGAAGGAG
46400062 AA
1 AA
46400064 AAGGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAGAAGGAG
Found at i:46400056 original size:20 final size:21
Alignment explanation
Indices: 46400016--46400072 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
46400006 TTAGGGTTAG
* *
46400016 AGAAAAAGAAAAAGAACAAGA
1 AGAAAAGGAAAAAGAAGAAGA
* *
46400037 AGAAGAGAAGAAAAAGAAGAAGG
1 AGAA-A-AGGAAAAAGAAGAAGA
46400060 AGAAAAGGAAAAA
1 AGAAAAGGAAAAA
46400073 TAGACATGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 11 0.35
22 2 0.06
23 18 0.58
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (21 bp):
AGAAAAGGAAAAAGAAGAAGA
Found at i:46400639 original size:17 final size:17
Alignment explanation
Indices: 46400617--46400652 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46400607 ATATATTTTT
46400617 TATTTTTTATTTTAAAA
1 TATTTTTTATTTTAAAA
46400634 TATTTTTTATTTTAAAA
1 TATTTTTTATTTTAAAA
46400651 TA
1 TA
46400653 AATTTTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTTTATTTTAAAA
Found at i:46400658 original size:18 final size:17
Alignment explanation
Indices: 46400620--46400659 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
46400610 TATTTTTTAT
*
46400620 TTTTTATTTTAAAATAT
1 TTTTTATTTTAAAATAA
46400637 TTTTTATTTTAAAATAAA
1 TTTTTATTTTAAAAT-AA
46400655 TTTTT
1 TTTTT
46400660 GGTGTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTATTTTAAAATAA
Found at i:46401084 original size:19 final size:20
Alignment explanation
Indices: 46401060--46401108 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
46401050 TTGTTTCACA
*
46401060 GAAAATAACTT-GGTCAATG
1 GAAAATAACTTAGGTCAACG
*
46401079 GAAAATGACTTACAGGTCAACG
1 GAAAATAACTT--AGGTCAACG
46401101 GAAAATAA
1 GAAAATAA
46401109 GCTTTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.42
22 14 0.58
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (20 bp):
GAAAATAACTTAGGTCAACG
Found at i:46401390 original size:13 final size:14
Alignment explanation
Indices: 46401374--46401415 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
46401364 TTTAAATTTT
46401374 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
46401387 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
46401402 ATTTTAAATAATAT
1 ATTTT-AATAATAT
46401416 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:46401400 original size:16 final size:16
Alignment explanation
Indices: 46401378--46401414 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46401368 AATTTTATTT
46401378 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
46401395 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
46401410 TAATA
1 TAATA
46401415 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:46405070 original size:15 final size:15
Alignment explanation
Indices: 46405038--46405087 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
46405028 TTATCCTATT
**
46405038 AGACACATCACTTTC
1 AGACACATCACTACC
**
46405053 AGATGCATCACTACC
1 AGACACATCACTACC
46405068 AGACACATCACTACC
1 AGACACATCACTACC
46405083 AGACA
1 AGACA
46405088 TTTCTTCTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.18
Consensus pattern (15 bp):
AGACACATCACTACC
Found at i:46405555 original size:6 final size:6
Alignment explanation
Indices: 46405540--46405639 Score: 92
Period size: 6 Copynumber: 16.7 Consensus size: 6
46405530 AACCAAACTG
* * * * * **
46405540 AAATCC AAATCA AAATCT AAATCA AAATCT AAATCG AGATCA AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * * * *
46405588 AAATGA AAATAA AAATCA AAATCA AAATCA AAATTA GAATCG AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
46405636 AAAT
1 AAAT
46405640 TGAAATTGAA
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (6 bp):
AAATCA
Found at i:46405640 original size:18 final size:18
Alignment explanation
Indices: 46405539--46405651 Score: 95
Period size: 18 Copynumber: 6.3 Consensus size: 18
46405529 TAACCAAACT
* *
46405539 GAAATCCAAATCAAAATC
1 GAAATCAAAATTAAAATC
*
46405557 TAAATCAAAATCT-AAATC
1 GAAATCAAAAT-TAAAATC
* *
46405575 GAGATCAAAATTGAAAT-
1 GAAATCAAAATTAAAATC
* *
46405592 GAAAATAAAAATCAAAATC
1 G-AAATCAAAATTAAAATC
* *
46405611 AAAATCAAAATTAGAATC
1 GAAATCAAAATTAAAATC
* *
46405629 GAAATCAAAATTGAAATT
1 GAAATCAAAATTAAAATC
46405647 GAAAT
1 GAAAT
46405652 AACCCTAAAT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
17 2 0.03
18 72 0.97
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (18 bp):
GAAATCAAAATTAAAATC
Found at i:46406736 original size:24 final size:25
Alignment explanation
Indices: 46406697--46406745 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
46406687 GAGTTTTTTA
*
46406697 AAAATTTCTAAATTTTTAAAAATAT
1 AAAATTTCGAAATTTTTAAAAATAT
*
46406722 AAAATTT-GAAATTTTTATAAATAT
1 AAAATTTCGAAATTTTTAAAAATAT
46406746 TTTAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATTTCGAAATTTTTAAAAATAT
Found at i:46406756 original size:18 final size:19
Alignment explanation
Indices: 46406719--46406755 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46406709 TTTTTAAAAA
*
46406719 TATAAA-ATTTGAAATTTT
1 TATAAATATTTTAAATTTT
46406737 TATAAATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
46406756 AAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:46409491 original size:44 final size:44
Alignment explanation
Indices: 46409409--46409654 Score: 150
Period size: 44 Copynumber: 5.3 Consensus size: 44
46409399 ACCCGCTGTT
* * * * * * *
46409409 ACTTCAGGGAGATGAGACTTGTGGTTTTAGTCTACTCCACTGCA
1 ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
46409453 ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
1 ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
* * * * *
46409497 ACTTCATGAAGATAAAATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTACA
1 ACTTCAGGGAGATAAAA-CTG--G-----TG--GCTTCAATCTGCTCCACTGCA
** * * * * * * *
46409551 ACCCCAGGGAAATAAGATCTGCTGTCTTCAGTCTGCTTCGCTGCA
1 ACTTCAGGGAGATAA-AACTGGTGGCTTCAATCTGCTCCACTGCA
* ** * *
46409596 ACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTA
1 ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
*
46409640 ACTTCAGGAAGATAA
1 ACTTCAGGGAGATAA
46409655 GATCTGCCAT
Statistics
Matches: 150, Mismatches: 41, Indels: 22
0.70 0.19 0.10
Matches are distributed among these distances:
44 85 0.57
45 28 0.19
47 3 0.02
52 2 0.01
54 31 0.21
55 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
Found at i:46409704 original size:143 final size:142
Alignment explanation
Indices: 46409437--46409856 Score: 536
Period size: 143 Copynumber: 2.9 Consensus size: 142
46409427 TTGTGGTTTT
* * **
46409437 AGTCTACTCCACTGCAACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCAACTTC
1 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* * * *
46409502 ATGAAGATAAAATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTACAACCCCAGGGAAATAAG
66 AGGAAGATAAGATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAG
46409567 ATCTGC-TGTCTTC
131 AT-T-CATGTCTTC
* * * *
46409580 AGTCTGCTTCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTAACTTC
1 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* * **
46409645 AGGAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACTGGGGAAATAAG
66 AGGAAGATAAGATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAG
46409710 ATTCATTGTCTTC
131 ATTCA-TGTCTTC
* * * * * * * *
46409723 AGTCTGCTCCGCTGTAACTTTAGGGAGATAAGGTTGGTGGCTTCAATCTGCTTCGCTACACCCTC
1 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* * * * **
46409788 AGGAAAATAAGATTTACCGTAACTTGTAACTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAG
66 AGGAAGATAAGATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAG
46409853 ATTC
131 ATTC
46409857 TCCATAATGA
Statistics
Matches: 237, Mismatches: 38, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
141 1 0.00
142 1 0.00
143 235 0.99
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (142 bp):
AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
AGGAAGATAAGATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAG
ATTCATGTCTTC
Found at i:46428137 original size:15 final size:15
Alignment explanation
Indices: 46428117--46428154 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
46428107 AACCGATGAC
46428117 GCAAATCGACAGAGA
1 GCAAATCGACAGAGA
46428132 GCAAATCGACAGAGA
1 GCAAATCGACAGAGA
46428147 GCAAATCG
1 GCAAATCG
46428155 GCCAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.08
Consensus pattern (15 bp):
GCAAATCGACAGAGA
Found at i:46433125 original size:51 final size:50
Alignment explanation
Indices: 46433067--46433166 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 50
46433057 TAGGACGATG
* * *
46433067 ACGGTGGCTTGCAAGAAAGCAAGAAGAGCTGGAAAAAGGAAAAAAGAAAGA
1 ACGGTGGCTAGCAAGAAAGCAAGAAAAGATGGAAAAAGG-AAAAAGAAAGA
* *
46433118 ACGGTGGCTAGCAAGAAATCAAGAAAAGATGGAAAAAGGCAAAAGAAAG
1 ACGGTGGCTAGCAAGAAAGCAAGAAAAGATGGAAAAAGGAAAAAGAAAG
46433167 GAAAAAAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 9 0.20
51 35 0.80
ACGTcount: A:0.52, C:0.10, G:0.30, T:0.08
Consensus pattern (50 bp):
ACGGTGGCTAGCAAGAAAGCAAGAAAAGATGGAAAAAGGAAAAAGAAAGA
Found at i:46434423 original size:24 final size:22
Alignment explanation
Indices: 46434387--46434433 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
46434377 AATGTGATGT
46434387 ATTAAAAACAAAGAAGAATAAAAG
1 ATTAAAAACAAAGAA-AA-AAAAG
* *
46434411 ATTAAAGAGAAAGAAAAAAAAG
1 ATTAAAAACAAAGAAAAAAAAG
46434433 A
1 A
46434434 AATAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 13 0.62
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (22 bp):
ATTAAAAACAAAGAAAAAAAAG
Found at i:46436351 original size:23 final size:22
Alignment explanation
Indices: 46436308--46436353 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
46436298 GATAATAAAG
* * *
46436308 TATAATTAATTAAATTCAAATT
1 TATAAATAATTAAAATAAAATT
46436330 TATAAATAATTTAAAATAAAATT
1 TATAAATAA-TTAAAATAAAATT
46436353 T
1 T
46436354 TGGTTGAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATAAATAATTAAAATAAAATT
Found at i:46437082 original size:23 final size:23
Alignment explanation
Indices: 46437052--46437114 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
46437042 TTCACGCGAA
* * *
46437052 CAAGTGATGGTGGCACTTCGATG
1 CAAGTGATAGTGGCACTCCCATG
46437075 CAAGTGATAGTGGCACTCCCATG
1 CAAGTGATAGTGGCACTCCCATG
* *
46437098 CAAGTGACAGTAGCACT
1 CAAGTGATAGTGGCACT
46437115 TCGGTGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (23 bp):
CAAGTGATAGTGGCACTCCCATG
Found at i:46438658 original size:312 final size:304
Alignment explanation
Indices: 46438090--46438710 Score: 788
Period size: 312 Copynumber: 2.0 Consensus size: 304
46438080 GATTTTATTA
* * * * *
46438090 ATAG-TATAGATATACAATGGGTTGAAGTAATAAAGTGTGTATTATCAAAATAAAAATGTATAAA
1 ATAGATATAGATATACAATGGATGGAAGTAATAAAATGTGCATAATCAAAATAAAAATGTATAAA
* * * *
46438154 AATATCAAAGTAAAGTTCTAGTTGAGTGGTAAATTAAAGGTTTTATTTATGCAATTGGTTTGGAT
66 AATATCAAAATAAACTTCTAGTTGAGTGGTAAATTAAAGGTTTTACTAATGCAATTGGTTTGGAT
* * * *
46438219 TCAAATCTCACCATTTGCATGTTTTTATTGATTTTTTTTTAAATAAGAAAGATTAAAGTACACTC
131 TCAAATCCCACCATTTGCATATTTTTATTGAGTTTTTTTTAAATAAGAAAAATTAAAGTACACTC
*
46438284 GAATAATATAACTTATTTTAATTACGAAAAGGCATTTCCTTAATTTAACAACTAAGTTGGTGA-C
196 AAATAATATAACTTATTTTAATTACGAAAAGGCATTTCCTTAATTTAACAACTAAGTTGGTGATC
* * * *
46438348 CTAATTGAGGAGGGTGACATCAACTAAGTAAAACACTTAAATAATAGT
261 C-AATT-A--AAGGTAACACCAACTAAGTAAAACACTTAAATAATAGC
* * * *
46438396 ATAGATATAGATATACAATTGATGGAAGTAATAAAATGTGCATAATTAAATTGAAAATGTATAAA
1 ATAGATATAGATATACAATGGATGGAAGTAATAAAATGTGCATAATCAAAATAAAAATGTAT-AA
*
46438461 AATATATCAAATAAATAAAACTT-TAGTTGAGTGGTAAGTTAAAAGGTTTTACTAATGCAATTGG
65 AA-ATATC--A-AAAT-AAACTTCTAGTTGAGTGGTAAATT-AAAGGTTTTACTAATGCAATTGG
*
46438525 TTTGGATTTAAATCCCACCATTTGCATATTTTTATTG-GTTTTTTTTAAAT-AGAAAAACTTAAA
124 TTTGGATTCAAATCCCACCATTTGCATATTTTTATTGAGTTTTTTTTAAATAAGAAAAA-TTAAA
* * * * *
46438588 TTACCCTCAAATAATATAATTTATTTTAATTACGAAAAGGCGTTT-CTGTAATTTAACAATTGAA
188 GTACACTCAAATAATATAACTTATTTTAATTACGAAAAGGCATTTCCT-TAATTTAACAACT-AA
* *
46438652 -TTGGTGATCCAATTAAAGGTAACACCGACTTAGTAAAACACTTAAATAATAGC
251 GTTGGTGATCCAATTAAAGGTAACACCAACTAAGTAAAACACTTAAATAATAGC
46438705 ATAGAT
1 ATAGAT
46438711 TTTAAAATTC
Statistics
Matches: 272, Mismatches: 31, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
306 4 0.01
307 48 0.18
308 4 0.01
309 43 0.16
311 10 0.04
312 99 0.36
313 64 0.24
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (304 bp):
ATAGATATAGATATACAATGGATGGAAGTAATAAAATGTGCATAATCAAAATAAAAATGTATAAA
AATATCAAAATAAACTTCTAGTTGAGTGGTAAATTAAAGGTTTTACTAATGCAATTGGTTTGGAT
TCAAATCCCACCATTTGCATATTTTTATTGAGTTTTTTTTAAATAAGAAAAATTAAAGTACACTC
AAATAATATAACTTATTTTAATTACGAAAAGGCATTTCCTTAATTTAACAACTAAGTTGGTGATC
CAATTAAAGGTAACACCAACTAAGTAAAACACTTAAATAATAGC
Found at i:46438898 original size:41 final size:41
Alignment explanation
Indices: 46438853--46438933 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
46438843 ATACGTAAAT
** *
46438853 TTTAATTTTATGCAATTATATATATAACATTTAAATTTTAC
1 TTTAATTTTAAACAATTATATATACAACATTTAAATTTTAC
* *
46438894 TTTAATTTTAAACAATTATATATACCACATTTTAATTTTA
1 TTTAATTTTAAACAATTATATATACAACATTTAAATTTTA
46438934 GATATTCTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.51
Consensus pattern (41 bp):
TTTAATTTTAAACAATTATATATACAACATTTAAATTTTAC
Found at i:46441496 original size:11 final size:11
Alignment explanation
Indices: 46441468--46441528 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
46441458 AATTTTTTAT
*
46441468 TTATTTTAAAGG
1 TTATTTTAAA-A
46441480 TT-TTTTAAAA
1 TTATTTTAAAA
*
46441490 TTATTTTACAA
1 TTATTTTAAAA
46441501 TTATTATTAAGAA
1 TTATT-TTAA-AA
*
46441514 -TATTTTGAAA
1 TTATTTTAAAA
46441524 TTATT
1 TTATT
46441529 AAAATGACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 4 0.10
11 26 0.63
12 9 0.22
13 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:46441977 original size:14 final size:14
Alignment explanation
Indices: 46441958--46441991 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46441948 GAACCAAGTG
* *
46441958 AAATTATTTGAGTT
1 AAATTATTCGAATT
46441972 AAATTATTCGAATT
1 AAATTATTCGAATT
46441986 AAATTA
1 AAATTA
46441992 AAAATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (14 bp):
AAATTATTCGAATT
Found at i:46449075 original size:19 final size:19
Alignment explanation
Indices: 46449051--46449094 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
46449041 CATATAGAAA
*
46449051 GTTGTATCAGAGTTTATTT
1 GTTGTATCAGAGTTTATTC
46449070 GTTGTATCAGAGTTTATTC
1 GTTGTATCAGAGTTTATTC
46449089 GTTGTA
1 GTTGTA
46449095 CATGTCGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.50
Consensus pattern (19 bp):
GTTGTATCAGAGTTTATTC
Found at i:46463824 original size:9 final size:9
Alignment explanation
Indices: 46463799--46464406 Score: 534
Period size: 9 Copynumber: 68.1 Consensus size: 9
46463789 TATGTAGTAC
*
46463799 TGTAAGTAA
1 TGTAAGTTA
46463808 TGTAAGTTA
1 TGTAAGTTA
46463817 TGTAAGTTA
1 TGTAAGTTA
*
46463826 CT-TAATTTA
1 -TGTAAGTTA
46463835 TGTAAGTTA
1 TGTAAGTTA
*
46463844 T-TAAGATA
1 TGTAAGTTA
* *
46463852 TTTAATTTA
1 TGTAAGTTA
46463861 TGT-AGTTA
1 TGTAAGTTA
46463869 TGTAAGTTA
1 TGTAAGTTA
* *
46463878 CT-TAATTTC
1 -TGTAAGTTA
46463887 TGTAAGTTA
1 TGTAAGTTA
*
46463896 TGTATGTTA
1 TGTAAGTTA
46463905 TGT-A--TA
1 TGTAAGTTA
*
46463911 T-TTAGTTTA
1 TGTAAG-TTA
*
46463920 TGTAATTTA
1 TGTAAGTTA
46463929 TGTAAGTTA
1 TGTAAGTTA
46463938 TGTAAGTTA
1 TGTAAGTTA
* * *
46463947 TTTAATTTT
1 TGTAAGTTA
46463956 TGTAAGTTA
1 TGTAAGTTA
46463965 TGTAAGTTAA
1 TGTAAGTT-A
* *
46463975 TTTTAATTTA
1 -TGTAAGTTA
46463985 TGTAAGTTA
1 TGTAAGTTA
46463994 TGTAAGTTA
1 TGTAAGTTA
46464003 TGTAAGTTA
1 TGTAAGTTA
* *
46464012 TTTAATTTA
1 TGTAAGTTA
46464021 TGTAAGTTA
1 TGTAAGTTA
*
46464030 TGTAAGATA
1 TGTAAGTTA
*
46464039 T-TTAGTTTA
1 TGTAAG-TTA
*
46464048 TGTAA--AA
1 TGTAAGTTA
46464055 TGTAAGTTA
1 TGTAAGTTA
46464064 TGTAAGTTA
1 TGTAAGTTA
* * *
46464073 TTTAATTTT
1 TGTAAGTTA
46464082 TGTAAGTTA
1 TGTAAGTTA
46464091 TGTAAGTTA
1 TGTAAGTTA
*
46464100 CT-TAATTTA
1 -TGTAAGTTA
46464109 TGTAAGTTA
1 TGTAAGTTA
46464118 TGTAAGTTA
1 TGTAAGTTA
*
46464127 TGTAAGATA
1 TGTAAGTTA
*
46464136 T-TTAGTTTA
1 TGTAAG-TTA
46464145 TGTAAGTTA
1 TGTAAGTTA
*
46464154 TGTAAGATA
1 TGTAAGTTA
*
46464163 T-TTAGTTAA
1 TGTAAGTT-A
*
46464172 TGTAATTTA
1 TGTAAGTTA
46464181 TGTAAGTTA
1 TGTAAGTTA
*
46464190 TGTAAGATA
1 TGTAAGTTA
*
46464199 T-TTAGTTAA
1 TGTAAGTT-A
*
46464208 TGTAATTTA
1 TGTAAGTTA
46464217 TGTAAGTTA
1 TGTAAGTTA
46464226 TGTAAGTTA
1 TGTAAGTTA
* * *
46464235 TTTAATTTT
1 TGTAAGTTA
46464244 TGTAAGTTA
1 TGTAAGTTA
46464253 TGTAAGTTA
1 TGTAAGTTA
*
46464262 CT-TAATTTA
1 -TGTAAGTTA
46464271 TGTAAGTTA
1 TGTAAGTTA
46464280 TGTAAGTTA
1 TGTAAGTTA
* *
46464289 TTTAATTTA
1 TGTAAGTTA
46464298 TGTAAGTTA
1 TGTAAGTTA
* *
46464307 TATAAGATA
1 TGTAAGTTA
*
46464316 T-TTAGTTTA
1 TGTAAG-TTA
*
46464325 TGTAAGATA
1 TGTAAGTTA
*
46464334 T-TTAGTTTA
1 TGTAAG-TTA
*
46464343 TGTAATTTA
1 TGTAAGTTA
46464352 TGTAAGTTA
1 TGTAAGTTA
46464361 TGTAAGTTA
1 TGTAAGTTA
* * *
46464370 TTTAATTTT
1 TGTAAGTTA
46464379 TGTAAGTTA
1 TGTAAGTTA
46464388 TGTAA-TTAA
1 TGTAAGTT-A
46464397 TGTAAGTTA
1 TGTAAGTTA
46464406 T
1 T
46464407 TTAATTTGTG
Statistics
Matches: 476, Mismatches: 90, Indels: 66
0.75 0.14 0.10
Matches are distributed among these distances:
5 1 0.00
6 4 0.01
7 6 0.01
8 40 0.08
9 391 0.82
10 28 0.06
11 6 0.01
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:46468840 original size:114 final size:114
Alignment explanation
Indices: 46468581--46469113 Score: 450
Period size: 114 Copynumber: 4.7 Consensus size: 114
46468571 ATGCATGGTT
* * *
46468581 AAGACCAAAACTTTGCGTTTTGGTTAAGATATTTT-CGGCGCTTTTCAAAAAGCGCCGCTAATAC
1 AAGACAAAAACTCTGCGTTTTGGTT-AGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAC
* * * *
46468645 TATAC-TTAGC-GCGATTTCCG--T-GGACGCCACTAATTCCATTATACATC
65 TATGCTTTAGCGGCG-TTTCCGCATATG-CGCCACTAATTCTAGTATACATC
** * * *
46468692 AAGACTTAAACGCTGCGTTTT-GTTAATATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAA
1 AAGACAAAAACTCTGCGTTTTGGTT-AGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAC
* * * * *
46468756 TATGCTTTAGCGGCGTTCCCGCATAAGCGCCACTAAGTCTAATATACCTC
65 TATGCTTTAGCGGCGTTTCCGCATATGCGCCACTAATTCTAGTATACATC
* * * ****
46468806 ATGA-AAAAACTCTGCGTTTTGGTGAGCATATTTTGCGGCGCTTTTTTCCAAGCGCCGCTAATAC
1 AAGACAAAAACTCTGCGTTTTGGTTAG-ATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAC
* * * ****
46468870 TATGATGTAGCAGCGTTTTTTAATATGCGCCACTAATTACT-GTATACATC
65 TATGCTTTAGCGGCGTTTCCGCATATGCGCCACTAATT-CTAGTATACATC
* * * ** *
46468920 GAGACAAAAACGT-TGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTGAAA-CCCCGCTAATA
1 AAGACAAAAAC-TCTGCGTTTTGGTTA-GATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATA
* * * * *
46468983 GTATGCCTTAGCGGCGTGTT-C-CTTTTGCGCCACTAATTCTAGTATACCTC
64 CTATGCTTTAGCGGCGT-TTCCGCATATGCGCCACTAATTCTAGTATACATC
* *
46469033 AAGAC-CAAACTCTACGTTTTGGTTCAGATA-TTTGCGGCGCTTCTCACAAAA-CGCCGCTAATA
1 AAGACAAAAACTCTGCGTTTTGGTT-AGATATTTTGCGGCGCTTCTCA-AAAAGCGCCGCTAATA
*
46469095 TTATGCTTTAGCGGCGTTT
64 CTATGCTTTAGCGGCGTTT
46469114 TCCATTAAAC
Statistics
Matches: 337, Mismatches: 68, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
110 12 0.04
111 66 0.20
112 57 0.17
113 44 0.13
114 115 0.34
115 42 0.12
116 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (114 bp):
AAGACAAAAACTCTGCGTTTTGGTTAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACT
ATGCTTTAGCGGCGTTTCCGCATATGCGCCACTAATTCTAGTATACATC
Found at i:46469425 original size:109 final size:111
Alignment explanation
Indices: 46469233--46469460 Score: 293
Period size: 110 Copynumber: 2.1 Consensus size: 111
46469223 GACCAAACTC
*
46469233 TGCGTTTTGGTTAACATATGTTGCGGCGCTTTGATAAGCGCGCTAATACTTCCTTTAGCGGCGGG
1 TGCGTTTTCGTTAACATATGTTGCGGCGCTTTGATAAGCGCGCTAATACTTCCTTTAGCGGCGGG
* * *
46469298 TTTTCGTCAGCGCCACTAACGCTAATATACAACGAGA-CAAAACGA
66 TTTTCATCAACGCCACTAACGCTAATATACAACAAGACCAAAACGA
* * * *
46469343 TGCGTTTTCGTTAAGAT-TTTTGCGGCGCATTTGCTATGCGCCGCTAATACTTCCTTTAGCGGC-
1 TGCGTTTTCGTTAACATATGTTGCGGCGC-TTTGATAAGCG-CGCTAATACTTCCTTTAGCGGCG
* ** * *
46469406 GTTTTTCAT-AACGCCACTAATTCTAGTATACATCAAGACCAAAACGA
64 GGTTTTCATCAACGCCACTAACGCTAATATACAACAAGACCAAAACGA
46469453 TGCGTTTT
1 TGCGTTTT
46469461 GATCTTCAGA
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
109 33 0.32
110 47 0.46
111 22 0.22
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (111 bp):
TGCGTTTTCGTTAACATATGTTGCGGCGCTTTGATAAGCGCGCTAATACTTCCTTTAGCGGCGGG
TTTTCATCAACGCCACTAACGCTAATATACAACAAGACCAAAACGA
Found at i:46472065 original size:17 final size:16
Alignment explanation
Indices: 46472043--46472113 Score: 56
Period size: 18 Copynumber: 4.1 Consensus size: 16
46472033 TTTTTAAATT
46472043 TTTTAATATATTTTTAA
1 TTTTAA-ATATTTTTAA
46472060 TTTTAAA-ATTTTT-A
1 TTTTAAATATTTTTAA
46472074 TTCGTTAAAATATTTTTAGAA
1 TT--TT-AAATATTTTT--AA
46472095 TTTTAAATTATTTGTTAA
1 TTTTAAA-TATTT-TTAA
46472113 T
1 T
46472114 GTAGCGTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
14 3 0.07
15 6 0.13
16 3 0.07
17 9 0.20
18 12 0.27
19 7 0.16
20 2 0.04
21 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (16 bp):
TTTTAAATATTTTTAA
Found at i:46472102 original size:18 final size:17
Alignment explanation
Indices: 46472033--46472112 Score: 51
Period size: 19 Copynumber: 4.4 Consensus size: 17
46472023 TTCTTCTTCT
46472033 TTTTTAAATTTTTTAATATA
1 TTTTTAAA--TTTTAA-ATA
46472053 TTTTT-AATTTTAAA-A
1 TTTTTAAATTTTAAATA
46472068 TTTTT--ATTCGTTAAAATA
1 TTTTTAAATT--TT-AAATA
46472086 TTTTTAGAATTTTAAATTA
1 TTTTTA-AATTTTAAA-TA
46472105 TTTGTTAA
1 TTT-TTAA
46472113 TGTAGCGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 19
0.73 0.00 0.27
Matches are distributed among these distances:
14 3 0.06
15 6 0.12
16 3 0.06
17 9 0.18
18 9 0.18
19 10 0.20
20 8 0.16
21 3 0.06
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (17 bp):
TTTTTAAATTTTAAATA
Found at i:46476557 original size:3 final size:3
Alignment explanation
Indices: 46476549--46476581 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
46476539 GAATCTGCAA
46476549 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
46476582 TAGCATGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:46477668 original size:13 final size:12
Alignment explanation
Indices: 46477650--46477683 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46477640 AGGGAGAAGC
*
46477650 AAAATAGAATGAA
1 AAAATAAAAT-AA
46477663 AAAATAAAATAA
1 AAAATAAAATAA
46477675 AAAATAAAA
1 AAAATAAAA
46477684 GTTAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:46482860 original size:17 final size:18
Alignment explanation
Indices: 46482834--46482870 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46482824 GAAAAAGAAA
*
46482834 AAGAACAAGAAGAA-GAG
1 AAGAAAAAGAAGAAGGAG
46482851 AAGAAAAAGAAGAAGGAG
1 AAGAAAAAGAAGAAGGAG
46482869 AA
1 AA
46482871 AAGGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAGAAGGAG
Found at i:46482863 original size:20 final size:21
Alignment explanation
Indices: 46482823--46482879 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
46482813 TTAGGGTTAG
* *
46482823 AGAAAAAGAAAAAGAACAAGA
1 AGAAAAGGAAAAAGAAGAAGA
* *
46482844 AGAAGAGAAGAAAAAGAAGAAGG
1 AGAA-A-AGGAAAAAGAAGAAGA
46482867 AGAAAAGGAAAAA
1 AGAAAAGGAAAAA
46482880 TAGACATGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 11 0.35
22 2 0.06
23 18 0.58
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (21 bp):
AGAAAAGGAAAAAGAAGAAGA
Found at i:46483446 original size:18 final size:19
Alignment explanation
Indices: 46483423--46483458 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46483413 TATATTTTTA
46483423 TTTTTTA-TTTTAAAATAT
1 TTTTTTATTTTTAAAATAT
46483441 TTTTTTATTTTTAAAATA
1 TTTTTTATTTTTAAAATA
46483459 AATTTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTTATTTTTAAAATAT
Found at i:46483464 original size:19 final size:18
Alignment explanation
Indices: 46483424--46483465 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
46483414 ATATTTTTAT
**
46483424 TTTTTATTTTAAAATATT
1 TTTTTATTTTAAAATAAA
46483442 TTTTTATTTTTAAAATAAA
1 TTTTTA-TTTTAAAATAAA
46483461 TTTTT
1 TTTTT
46483466 GGTGTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATTTTAAAATAAA
Found at i:46483888 original size:19 final size:20
Alignment explanation
Indices: 46483864--46483912 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
46483854 TTGTTTCACA
*
46483864 GAAAATAACTT-GGTCAATG
1 GAAAATAACTTAGGTCAACG
*
46483883 GAAAATGACTTACAGGTCAACG
1 GAAAATAACTT--AGGTCAACG
46483905 GAAAATAA
1 GAAAATAA
46483913 GCTTTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.42
22 14 0.58
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (20 bp):
GAAAATAACTTAGGTCAACG
Found at i:46484194 original size:13 final size:14
Alignment explanation
Indices: 46484178--46484219 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
46484168 TTTAAATTTT
46484178 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
46484191 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
46484206 ATTTTAAATAATAT
1 ATTTT-AATAATAT
46484220 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:46484204 original size:16 final size:16
Alignment explanation
Indices: 46484182--46484218 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46484172 AATTTTATTT
46484182 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
46484199 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
46484214 TAATA
1 TAATA
46484219 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:46487858 original size:15 final size:15
Alignment explanation
Indices: 46487826--46487875 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
46487816 TTATCCTATT
**
46487826 AGACACATCACTTTC
1 AGACACATCACTACC
**
46487841 AGATGCATCACTACC
1 AGACACATCACTACC
46487856 AGACACATCACTACC
1 AGACACATCACTACC
46487871 AGACA
1 AGACA
46487876 TTTCTTCTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.18
Consensus pattern (15 bp):
AGACACATCACTACC
Found at i:46488340 original size:6 final size:6
Alignment explanation
Indices: 46488325--46488424 Score: 92
Period size: 6 Copynumber: 16.7 Consensus size: 6
46488315 AACCAAACTG
* * * * * **
46488325 AAATCC AAATCA AAATCT AAATCA AAATCT AAATCG AGATCA AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * * * *
46488373 AAATGA AAATAA AAATCA AAATCA AAATCA AAATTA GAATCG AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
46488421 AAAT
1 AAAT
46488425 TGAAATTGAA
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (6 bp):
AAATCA
Found at i:46488425 original size:18 final size:18
Alignment explanation
Indices: 46488324--46488436 Score: 95
Period size: 18 Copynumber: 6.3 Consensus size: 18
46488314 TAACCAAACT
* *
46488324 GAAATCCAAATCAAAATC
1 GAAATCAAAATTAAAATC
*
46488342 TAAATCAAAATCT-AAATC
1 GAAATCAAAAT-TAAAATC
* *
46488360 GAGATCAAAATTGAAAT-
1 GAAATCAAAATTAAAATC
* *
46488377 GAAAATAAAAATCAAAATC
1 G-AAATCAAAATTAAAATC
* *
46488396 AAAATCAAAATTAGAATC
1 GAAATCAAAATTAAAATC
* *
46488414 GAAATCAAAATTGAAATT
1 GAAATCAAAATTAAAATC
46488432 GAAAT
1 GAAAT
46488437 AACCCTAAAT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
17 2 0.03
18 72 0.97
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (18 bp):
GAAATCAAAATTAAAATC
Found at i:46489537 original size:18 final size:19
Alignment explanation
Indices: 46489500--46489536 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46489490 TTTTTAAAAA
*
46489500 TATAAA-ATTTGAAATTTT
1 TATAAATATTTTAAATTTT
46489518 TATAAATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
46489537 AAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:46492252 original size:44 final size:44
Alignment explanation
Indices: 46492170--46492415 Score: 150
Period size: 44 Copynumber: 5.3 Consensus size: 44
46492160 ACCCGCTGTT
* * * * * * *
46492170 ACTTCAGGGAGATGAGACTTGTGGTTTTAGTCTACTCCACTGCA
1 ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
46492214 ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
1 ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
* * * * *
46492258 ACTTCATGAAGATAAAATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTACA
1 ACTTCAGGGAGATAAAA-CTG--G-----TG--GCTTCAATCTGCTCCACTGCA
** * * * * * * *
46492312 ACCCCAGGGAAATAAGATCTGCTGTCTTCAGTCTGCTTCGCTGCA
1 ACTTCAGGGAGATAA-AACTGGTGGCTTCAATCTGCTCCACTGCA
* ** * *
46492357 ACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTA
1 ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
*
46492401 ACTTCAGGAAGATAA
1 ACTTCAGGGAGATAA
46492416 GATCTGCCAT
Statistics
Matches: 150, Mismatches: 41, Indels: 22
0.70 0.19 0.10
Matches are distributed among these distances:
44 85 0.57
45 28 0.19
47 3 0.02
52 2 0.01
54 31 0.21
55 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
ACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCA
Found at i:46492510 original size:142 final size:143
Alignment explanation
Indices: 46492198--46492618 Score: 542
Period size: 143 Copynumber: 3.0 Consensus size: 143
46492188 TTGTGGTTTT
* * **
46492198 AGTCTACTCCACTGCAACTTCAGGGAGATAAAACTGGTGGCTTCAATCTGCTCCACTGCAACTTC
1 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* * * *
46492263 ATGAAGATAAAATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTACAACCCCAGGGAAATAAG
66 AGGAAGATAAGATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAG
46492328 A-TCTGCTGTCTTC
131 ATTCT-CTGTCTTC
* * * *
46492341 AGTCTGCTTCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTAACTTC
1 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* **
46492406 AGGAAGATAAGATCTGCCATAA-TTGTAGCTTTAATCTGTTCCACTGCAACACTGGGGAAATAAG
66 AGGAAGATAAGATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAG
46492470 ATTCAT-TGTCTTC
131 ATTC-TCTGTCTTC
* * * * * * * *
46492483 AGTCTGCTCCGCTGTAACTTTAGGGAGATAAGGTTGGTGGCTTCAATCTGCTTCGCTACACCCTC
1 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* * * * **
46492548 AGGAAAATAAGATTTACCGTAACTTGTAACTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAG
66 AGGAAGATAAGATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAG
46492613 ATTCTC
131 ATTCTC
46492619 CATAATGACT
Statistics
Matches: 238, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
142 118 0.50
143 119 0.50
144 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (143 bp):
AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
AGGAAGATAAGATCTGCCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAG
ATTCTCTGTCTTC
Found at i:46499778 original size:19 final size:19
Alignment explanation
Indices: 46499754--46499797 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
46499744 AAACGACATG
*
46499754 TACAACGAATAAACTCTGA
1 TACAACAAATAAACTCTGA
46499773 TACAACAAATAAACTCTGA
1 TACAACAAATAAACTCTGA
46499792 TACAAC
1 TACAAC
46499798 TTTCTATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.07, T:0.20
Consensus pattern (19 bp):
TACAACAAATAAACTCTGA
Found at i:46506484 original size:31 final size:31
Alignment explanation
Indices: 46506394--46506485 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
46506384 GTTATTCAAT
* *
46506394 TTTTACGAATCAACTCAAATAAGTAGTTCGA
1 TTTTATGAATCAACTCAAATAAGTAATTCGA
* * ** * *
46506425 GTTT-TGAATTAA-TTGAATCGAGTTATTCGA
1 TTTTATGAATCAACTCAAAT-AAGTAATTCGA
46506455 TTTTATGAATCAACTCAAATAAGTAATTCGA
1 TTTTATGAATCAACTCAAATAAGTAATTCGA
46506486 GTTTCGAGTT
Statistics
Matches: 44, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
29 4 0.09
30 17 0.39
31 19 0.43
32 4 0.09
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (31 bp):
TTTTATGAATCAACTCAAATAAGTAATTCGA
Found at i:46506880 original size:14 final size:14
Alignment explanation
Indices: 46506863--46506896 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46506853 TTAATATTTT
* *
46506863 TAATTTAATTCGAA
1 TAATTTAACTCAAA
46506877 TAATTTAACTCAAA
1 TAATTTAACTCAAA
46506891 TAATTT
1 TAATTT
46506897 CACTTGGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (14 bp):
TAATTTAACTCAAA
Found at i:46507601 original size:21 final size:21
Alignment explanation
Indices: 46507571--46507610 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46507561 TATTTTACAC
46507571 TCTTC-ATTTTCATCTTCTTCA
1 TCTTCTATTTTC-TCTTCTTCA
*
46507592 TCTTCTTTTTTCTCTTCTT
1 TCTTCTATTTTCTCTTCTT
46507611 TCATGCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (21 bp):
TCTTCTATTTTCTCTTCTTCA
Found at i:46509950 original size:41 final size:41
Alignment explanation
Indices: 46509905--46509985 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
46509895 AAAGAATATC
* **
46509905 TAAAATTAAAATGTGGTATATATAATTGTTTAAAATTAAAG
1 TAAAATTAAAATGTGATATATATAATTGCATAAAATTAAAG
* *
46509946 TAAAATTTAAATGTTATATATATAATTGCATAAAATTAAA
1 TAAAATTAAAATGTGATATATATAATTGCATAAAATTAAA
46509986 ATTTACGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.40
Consensus pattern (41 bp):
TAAAATTAAAATGTGATATATATAATTGCATAAAATTAAAG
Found at i:46511760 original size:23 final size:23
Alignment explanation
Indices: 46511721--46511786 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
46511711 TAATTTACAC
* *
46511721 CGAAGTGCTACTGTCACTTGCAT
1 CGAAGTGCCACTATCACTTGCAT
* *
46511744 GGGAGTGCCACTATCACTTGCAT
1 CGAAGTGCCACTATCACTTGCAT
*
46511767 CGAAGTGCCACCATCACTTG
1 CGAAGTGCCACTATCACTTG
46511787 TTCGCGTGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (23 bp):
CGAAGTGCCACTATCACTTGCAT
Found at i:46513546 original size:298 final size:298
Alignment explanation
Indices: 46512981--46513548 Score: 774
Period size: 298 Copynumber: 1.9 Consensus size: 298
46512971 TATTTATCTA
* *
46512981 TACTATTATTAAACTTCTGATTGAGTTGGTGTCACAAGTCAACTGAACACCAATTCAGTTAGGAA
1 TACTATTATTAAACTCCTGATTGAGTTGGTGTCACAAGTCAACTGAACACCAATTCAGTTAGAAA
*
46513046 ATTATGAGTATGTCCTTCCATAATTAAACTAAGTAATATTATTTGAGAGGGTATTTTAGTCTTTT
66 ATTATGAGTATGTCCTTCCATAATTAAAATAAGTAATATTATTT-AGAGGGTATTTTAGTCTTTT
* * * *
46513111 CACTTAAAAAATTAATAAAAAATTACATTCAGTGGGATTTGAACTCAAGATAATTACATTAGTAA
130 CACTTAAAAAATCAATAAAAAATTACATTCAGTGAGATTTGAACCCAAGACAATTACATTAGTAA
* * *
46513176 ATCCTTTAATTTACTACTCAACTAAAGCTTTATTTAATCTTTTTATATATTTTAATTTTATTATG
195 ATCCTTTAATTTACTACTCAACCAAAGATTTATTTAATCTTTTTATATATTTTAATTTTATAATG
*
46513241 TACACTTTATCACCACTATCAGTAGTATATATCTATACT
260 CACACTTTATCACCACTATCAGTAGTATATATCTATACT
* ** * * *
46513280 TACTATTAGTTGAACTCCTGATTGAGTTGGTGTCATGAGTCAACT-AGGCACTAATTCGGTTAGA
1 TACTATTA-TTAAACTCCTGATTGAGTTGGTGTCACAAGTCAACTGA-ACACCAATTCAGTTAGA
* * *
46513344 AAATTGT-AGGTATG-CGTTTCCATAATTAAAATAAGTAATATTATTT-GAGGGTATTTTCGTCT
64 AAATTATGA-GTATGTC-CTTCCATAATTAAAATAAGTAATATTATTTAGAGGGTATTTTAGTCT
* * * * *
46513406 TTTCACTTAAAAAATCAATTAAAATTTGCATTTAGTGAGATTTGAACCCACA-CCAATTACATTA
127 TTTCACTTAAAAAATCAATAAAAAATTACATTCAGTGAGATTTGAACCCA-AGACAATTACATTA
46513470 GTAAAAT-CTTTAATTTACTACTCAACCAAA-ATTCTATATTAAT-TTTTTATATATTTTAATTT
191 GT-AAATCCTTTAATTTACTACTCAACCAAAGATT-TAT-TTAATCTTTTTATATATTTTAATTT
46513532 TATAATGCACACTTTAT
253 TATAATGCACACTTTAT
46513549 TACTTCCATA
Statistics
Matches: 236, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
297 2 0.01
298 129 0.55
299 21 0.09
300 84 0.36
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (298 bp):
TACTATTATTAAACTCCTGATTGAGTTGGTGTCACAAGTCAACTGAACACCAATTCAGTTAGAAA
ATTATGAGTATGTCCTTCCATAATTAAAATAAGTAATATTATTTAGAGGGTATTTTAGTCTTTTC
ACTTAAAAAATCAATAAAAAATTACATTCAGTGAGATTTGAACCCAAGACAATTACATTAGTAAA
TCCTTTAATTTACTACTCAACCAAAGATTTATTTAATCTTTTTATATATTTTAATTTTATAATGC
ACACTTTATCACCACTATCAGTAGTATATATCTATACT
Found at i:46515826 original size:51 final size:50
Alignment explanation
Indices: 46515746--46515845 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 50
46515736 TGTTTTTTTC
* * *
46515746 CTTTCTTTTGCCTTTTTCCATCTTTTCTTGATTTCTTGCTAGCCACCGTT
1 CTTTCTTTTGCCTTTTTCCAGCTCTTCTTGATTTCTTGCAAGCCACCGTT
* *
46515796 CTTTCTTTTTTCCTTTTTCCAGCTCTTCTTGCTTTCTTGCAAGCCACCGT
1 CTTTC-TTTTGCCTTTTTCCAGCTCTTCTTGATTTCTTGCAAGCCACCGT
46515846 CATCGTCCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 5 0.11
51 39 0.89
ACGTcount: A:0.08, C:0.30, G:0.10, T:0.52
Consensus pattern (50 bp):
CTTTCTTTTGCCTTTTTCCAGCTCTTCTTGATTTCTTGCAAGCCACCGTT
Found at i:46519871 original size:27 final size:27
Alignment explanation
Indices: 46519830--46519892 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
46519820 GGTAATGGAA
*
46519830 TGGCGGCACCAGTGGTGCCATTCTCAT
1 TGGCGGCACCAGTGGTGCCATTCCCAT
**
46519857 TGGCGGCACTGGTGGTGCCATTCCCAT
1 TGGCGGCACCAGTGGTGCCATTCCCAT
46519884 TGGCGGCAC
1 TGGCGGCAC
46519893 AGGACTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.13, C:0.30, G:0.33, T:0.24
Consensus pattern (27 bp):
TGGCGGCACCAGTGGTGCCATTCCCAT
Found at i:46521199 original size:15 final size:15
Alignment explanation
Indices: 46521179--46521216 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
46521169 CTTTTTTGGC
46521179 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
46521194 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
46521209 CGATTTGC
1 CGATTTGC
46521217 GTCATCGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.08, C:0.26, G:0.21, T:0.45
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:46523760 original size:47 final size:48
Alignment explanation
Indices: 46523690--46523871 Score: 330
Period size: 48 Copynumber: 3.8 Consensus size: 48
46523680 TAAAAATTAC
46523690 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
***
46523738 ATCAATAATT-AAATAAGGACTTTAATATTTTATTGCTATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
46523785 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
46523833 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
46523872 ATCACGAAAT
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
47 44 0.35
48 83 0.65
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:46523792 original size:95 final size:96
Alignment explanation
Indices: 46523690--46523867 Score: 349
Period size: 95 Copynumber: 1.9 Consensus size: 96
46523680 TAAAAATTAC
46523690 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATT-AAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
46523754 GGACTTTAATATTTTATTGCTATAAGGACTA
66 GGACTTTAATATTTTATTGCTATAAGGACTA
46523785 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
46523850 GGACTTTAATATTTTATT
66 GGACTTTAATATTTTATT
46523868 AAAAATCACG
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 58 0.71
96 24 0.29
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (96 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
GGACTTTAATATTTTATTGCTATAAGGACTA
Found at i:46527247 original size:92 final size:91
Alignment explanation
Indices: 46527090--46527298 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
46527080 TTGATTTTAG
* * * *
46527090 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTGTTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
46527155 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
46527182 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
46527246 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
46527274 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
46527299 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:46527261 original size:24 final size:25
Alignment explanation
Indices: 46527226--46527273 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
46527216 TTATGAAATT
46527226 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
46527250 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
46527274 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:46527427 original size:66 final size:63
Alignment explanation
Indices: 46527352--46527682 Score: 238
Period size: 66 Copynumber: 5.4 Consensus size: 63
46527342 AAATATATTT
46527352 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
46527417 G
63 G
* * * * **
46527418 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
46527472 AATAATAATTATGTT-AATTTATATTTTATAGTAACATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
46527536 AG
62 AG
* * * * **
46527538 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
46527592 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
46527656 AG
62 AG
*
46527658 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
46527683 AAATTATATA
Statistics
Matches: 201, Mismatches: 31, Indels: 67
0.67 0.10 0.22
Matches are distributed among these distances:
53 10 0.05
54 26 0.13
55 10 0.05
56 8 0.04
57 6 0.03
58 2 0.01
59 19 0.09
60 16 0.08
61 19 0.09
62 2 0.01
63 6 0.03
64 8 0.04
65 14 0.07
66 45 0.22
67 10 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:46527452 original size:120 final size:120
Alignment explanation
Indices: 46527314--46527726 Score: 724
Period size: 120 Copynumber: 3.4 Consensus size: 120
46527304 AATTATTTTA
* * * *
46527314 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
46527376 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
46527434 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
46527499 ATAGTAACATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
46527554 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
46527619 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
46527674 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
46527727 TAAATATGAT
Statistics
Matches: 283, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
119 6 0.02
120 275 0.97
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:46527474 original size:15 final size:15
Alignment explanation
Indices: 46527439--46527490 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46527429 TTAAGAATTT
*
46527439 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46527453 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46527467 TATTTAATAATAAT-
1 TATTTAATTATAATA
46527481 TATGTTAATT
1 TAT-TTAATT
46527491 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46527594 original size:15 final size:15
Alignment explanation
Indices: 46527559--46527610 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46527549 TTAAGAATTT
*
46527559 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46527573 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46527587 TATTTAATAATAAT-
1 TATTTAATTATAATA
46527601 TATGTTAATT
1 TAT-TTAATT
46527611 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46527709 original size:16 final size:16
Alignment explanation
Indices: 46527688--46527729 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46527678 TTATTAAATT
*
46527688 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46527704 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46527719 AT-TATGTTTAA
1 ATATAT-TTTAA
46527730 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46527714 original size:15 final size:15
Alignment explanation
Indices: 46527679--46527720 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46527669 TTAAGAATTT
*
46527679 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46527693 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46527707 TATTTAATAATAAT
1 TATTTAATTATAAT
46527721 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46527840 original size:153 final size:156
Alignment explanation
Indices: 46527663--46527975 Score: 506
Period size: 153 Copynumber: 2.0 Consensus size: 156
46527653 ATAAGAATAT
* * * *
46527663 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGAGTTAATAATAATTATGTTT
* * *
46527728 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTCAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
46527793 T-A-A-TTACCAAAACAAATTTCTGC
131 TAACATTTACCAAAACAAATTTATGC
* *
46527816 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGGGGTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGAGTTAATAATAATTATGTTT
46527881 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
46527946 TAATCATTTACCAAAACAAATTTATGC
131 TAA-CATTTACCAAAACAAATTTATGC
46527973 TAA
1 TAA
46527976 GGGTATTCTA
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
153 122 0.84
154 1 0.01
156 1 0.01
157 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGAGTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTATGC
Found at i:46528119 original size:16 final size:16
Alignment explanation
Indices: 46528098--46528133 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
46528088 GATTTGCTAT
46528098 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46528114 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46528130 TACA
1 TACA
46528134 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46529526 original size:19 final size:19
Alignment explanation
Indices: 46529502--46529595 Score: 125
Period size: 19 Copynumber: 4.8 Consensus size: 19
46529492 AATCATATCT
46529502 TCCAAGATTACATATCATA
1 TCCAAGATTACATATCATA
46529521 TCCAAGATTACATATCATA
1 TCCAAGATTACATATCATA
*
46529540 TCCAAGATTGCATATATCATA
1 TCCAAGATT--ACATATCATA
* *
46529561 TCTAAGATTGCATATCATA
1 TCCAAGATTACATATCATA
* *
46529580 TCTAAGATTGCATATC
1 TCCAAGATTACATATC
46529596 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 52 0.75
21 17 0.25
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (19 bp):
TCCAAGATTACATATCATA
Found at i:46529568 original size:40 final size:40
Alignment explanation
Indices: 46529479--46529594 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
46529469 AAATTAAATC
* *
46529479 TCTAAGATTACAAAATCATATCTTCCAAGATT--ACATATCATA
1 TCTAAGATTAC-ATATCATA---TCCAAGATTGCATATATCATA
*
46529521 TCCAAGATTACATATCATATCCAAGATTGCATATATCATA
1 TCTAAGATTACATATCATATCCAAGATTGCATATATCATA
* *
46529561 TCTAAGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTACATATCATATCCAAGATTGCATAT
46529595 CCTTGAAGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
38 9 0.14
40 40 0.61
41 7 0.11
42 10 0.15
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (40 bp):
TCTAAGATTACATATCATATCCAAGATTGCATATATCATA
Found at i:46529949 original size:25 final size:25
Alignment explanation
Indices: 46529919--46529968 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
46529909 CACTACAACT
46529919 TCAGGGAGATAAGACTTGTATCTTC
1 TCAGGGAGATAAGACTTGTATCTTC
46529944 TCAGGGAGATAAGACTTGTATCTTC
1 TCAGGGAGATAAGACTTGTATCTTC
46529969 GATCTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (25 bp):
TCAGGGAGATAAGACTTGTATCTTC
Found at i:46530202 original size:89 final size:89
Alignment explanation
Indices: 46529964--46530241 Score: 436
Period size: 89 Copynumber: 3.2 Consensus size: 89
46529954 AAGACTTGTA
* * * *
46529964 TCTTCGATCTACTTTGCCACCAGTATGGGAAAACAAGATCTGCTACCTTTGATCTATTTCATGCC
1 TCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
*
46530029 GATACATGAAGACAAGATCTACTT
66 AATACATGAAGACAAGATCTACTT
* * * *
46530053 TCTTCGATCTACTTCGCTA--A-TACGTGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
46530115 AATACATGAAGACAAGATCTACTT
66 AATACATGAAGACAAGATCTACTT
*
46530139 TCTTCGATATACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
*
46530204 AATACATGAAGACAAGATCTGCTT
66 AATACATGAAGACAAGATCTACTT
46530228 TCTTCGATCTACTT
1 TCTTCGATCTACTT
46530242 CACGATAACC
Statistics
Matches: 170, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
86 75 0.44
87 1 0.01
88 1 0.01
89 93 0.55
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (89 bp):
TCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
AATACATGAAGACAAGATCTACTT
Found at i:46530244 original size:44 final size:44
Alignment explanation
Indices: 46529996--46530245 Score: 281
Period size: 44 Copynumber: 5.7 Consensus size: 44
46529986 GTATGGGAAA
* * * * *
46529996 ACAAGATCTGCTACCTTTGATCTATTTCATGCCGATACATGAAG
1 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
* * * *
46530040 ACAAGATCTACTTTCTTCGATCTACTT--CGCTAATACGTGAAG
1 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
*
46530082 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAG
1 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
* * * * * ***
46530126 ACAAGATCTACTTTCTTCGATATACTTTGC-CACCAGTATGGGAAG
1 ACAAGATCTGCTATCTTCGATCTAC-TT-CACGCCAATACATGAAG
*
46530171 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAG
1 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
*
46530215 ACAAGATCTGCTTTCTTCGATCTACTTCACG
1 ACAAGATCTGCTATCTTCGATCTACTTCACG
46530246 ATAACCCAGG
Statistics
Matches: 167, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
42 35 0.21
43 1 0.01
44 97 0.58
45 33 0.20
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
ACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
Found at i:46530320 original size:88 final size:88
Alignment explanation
Indices: 46530206--46530618 Score: 529
Period size: 88 Copynumber: 4.7 Consensus size: 88
46530196 TTCACGCCAA
* * * * * * * * * *
46530206 TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGATAACCCAGGGAGGGAAGGCTGATA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTA
* * *
46530271 TTTTTGATCTGCTTCACTGTGGG
66 TCTTCGATCTGCTTCACTGTCGG
*
46530294 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTA
46530359 TCTTCGATCTGCTTCACTGTCGG
66 TCTTCGATCTGCTTCACTGTCGG
* * *
46530382 TGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTACAACCCAGGGAGGAAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTA
*** *
46530447 TCTTCGATCTGCTTTGTTGTCGA
66 TCTTCGATCTGCTTCACTGTCGG
* *
46530470 TGCAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCCAGAGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTA
* *
46530535 TCTTCGATCTGCTTCACCGTCAG
66 TCTTCGATCTGCTTCACTGTCGG
* * * * * * * *
46530558 TACAAGAAGGCAAGATCTGTTATTTTCAACCTGCTCCGCTGCAAACCAGGAAGGCAAGGCT
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCT
46530619 TTGTGATTTC
Statistics
Matches: 284, Mismatches: 41, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 284 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (88 bp):
TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTA
TCTTCGATCTGCTTCACTGTCGG
Found at i:46530351 original size:44 final size:44
Alignment explanation
Indices: 46530296--46530615 Score: 182
Period size: 44 Copynumber: 7.3 Consensus size: 44
46530286 ACTGTGGGTA
46530296 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
* * * * * * * ****
46530340 CAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACAACC
* *
46530384 CAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
* * * * * * **** * * **
46530428 CAGGGAGGAAAG-GCTGGTATCTTCGATCTGCTTTGTTGTCGATG
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACAACC
*
46530472 CAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
* * * * * ***
46530516 CA-GAGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACCGT-CAGTA
1 CAGGA-AGGCAAGATCTGCTATCTTCAACCTGCTCCA-C-TACAACC
* * * * * *
46530560 CAAGAAGGCAAGATCTGTTATTTTCAACCTGCTCCGCTGCAAAC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
46530604 CAGGAAGGCAAG
1 CAGGAAGGCAAG
46530616 GCTTTGTGAT
Statistics
Matches: 191, Mismatches: 75, Indels: 20
0.67 0.26 0.07
Matches are distributed among these distances:
43 55 0.29
44 83 0.43
45 53 0.28
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
Found at i:46537559 original size:21 final size:19
Alignment explanation
Indices: 46537519--46537593 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
46537509 AATTATATCT
46537519 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
46537538 TCCAAGATTGCATATATAATA
1 TCCAAGATTGC--ATATCATA
*
46537559 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
46537578 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
46537594 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 34 0.67
21 17 0.33
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:46538069 original size:27 final size:28
Alignment explanation
Indices: 46538021--46538116 Score: 121
Period size: 27 Copynumber: 3.6 Consensus size: 28
46538011 TTAATTTCAC
46538021 ATTAATATATTATTATT-T-TAATTAAT
1 ATTAATATATTATTATTATATAATTAAT
* *
46538047 CTTACT-TATTATTATTATATAA-TAAT
1 ATTAATATATTATTATTATATAATTAAT
*
46538073 ATTAATAAATTATTATTATATAA-TAAT
1 ATTAATATATTATTATTATATAATTAAT
*
46538100 ATTAATAAATTATTATT
1 ATTAATATATTATTATT
46538117 CTAATGTAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.16
26 13 0.21
27 39 0.63
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTAATATATTATTATTATATAATTAAT
Found at i:46538874 original size:27 final size:27
Alignment explanation
Indices: 46538836--46538898 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
46538826 TTTTAGTCTT
*
46538836 GTGCCGCCAATGGGAATGGCACCACCG
1 GTGCCGCCAATGAGAATGGCACCACCG
46538863 GTGCCGCCAATGAGAATGGCACCACCG
1 GTGCCGCCAATGAGAATGGCACCACCG
46538890 GTGCCGCCA
1 GTGCCGCCA
46538899 TTCCATTACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.35, G:0.32, T:0.11
Consensus pattern (27 bp):
GTGCCGCCAATGAGAATGGCACCACCG
Found at i:46538986 original size:20 final size:23
Alignment explanation
Indices: 46538945--46538992 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
46538935 TTAATAAATA
46538945 ATTTTTTATATTATTTTAGTATT
1 ATTTTTTATATTATTTTAGTATT
*
46538968 -TTTTTTAT-TTCTTTT-GTATT
1 ATTTTTTATATTATTTTAGTATT
46538988 ATTTT
1 ATTTT
46538993 AGTAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (23 bp):
ATTTTTTATATTATTTTAGTATT
Found at i:46541700 original size:3 final size:3
Alignment explanation
Indices: 46541692--46541718 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46541682 TATATGTATA
46541692 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
46541719 AAATGATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46544342 original size:24 final size:24
Alignment explanation
Indices: 46544297--46544342 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
46544287 ATTTAAATAT
*
46544297 AAAATTTAATCCACAACTTAACCG
1 AAAATTTAATCCACAACATAACCG
46544321 AAAATTTAATCC-CTAACATAAC
1 AAAATTTAATCCAC-AACATAAC
46544343 TTCCCCTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATTTAATCCACAACATAACCG
Found at i:46545008 original size:71 final size:71
Alignment explanation
Indices: 46544926--46545059 Score: 232
Period size: 71 Copynumber: 1.9 Consensus size: 71
46544916 AACCGCCACA
46544926 AGAGTAAGTAAGAATTTGATTTTATGATATTCTGTCATATATTAAGGAGAAGTTCGTGTTAAGTG
1 AGAGTAAGTAAGAATTTGATTTTATGATATTCTGTCATATATTAAGGAGAAGTTCGTGTTAAGTG
46544991 ATTAAG
66 ATTAAG
* * * *
46544997 AGAGTAAGTAAGACTTTGATTTTCTGATATTCTGTCATGTATTAAGGAGAAGTTTGTGTTAAG
1 AGAGTAAGTAAGAATTTGATTTTATGATATTCTGTCATATATTAAGGAGAAGTTCGTGTTAAG
46545060 AAATTAACGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (71 bp):
AGAGTAAGTAAGAATTTGATTTTATGATATTCTGTCATATATTAAGGAGAAGTTCGTGTTAAGTG
ATTAAG
Found at i:46550041 original size:20 final size:19
Alignment explanation
Indices: 46550011--46550071 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
46550001 TTTACATCTC
46550011 AAAAAAT-TATAAAAAAACT
1 AAAAAATATAT-AAAAAACT
*
46550030 AAAAAATATATAATAAACT
1 AAAAAATATATAAAAAACT
*
46550049 TAAAAA-ATATAAAAAACT
1 AAAAAATATATAAAAAACT
46550067 AAAAA
1 AAAAA
46550072 CCTTAAACCC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 15 0.41
19 19 0.51
20 3 0.08
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAATATATAAAAAACT
Found at i:46550262 original size:29 final size:28
Alignment explanation
Indices: 46550216--46550272 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
46550206 CATTTTTTTC
*
46550216 TTTAAAAAAGGGCCTAATTAAGTAAATTT
1 TTTAAAAAAGGGCATAATTAA-TAAATTT
* * *
46550245 TTTAAAAATGGGTATAATTTATAAATTT
1 TTTAAAAAAGGGCATAATTAATAAATTT
46550273 AGTCAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (28 bp):
TTTAAAAAAGGGCATAATTAATAAATTT
Found at i:46553190 original size:42 final size:41
Alignment explanation
Indices: 46553139--46553337 Score: 192
Period size: 42 Copynumber: 4.7 Consensus size: 41
46553129 ATGCCATATT
* *
46553139 CCAGATATGGTCTTACATGCTATCAT-ATATCGATGCCAATAG-
1 CCAGCTATGGTCTTACATG-AATC-TCATATCGATGCCAAT-GC
46553181 CCAGCTATGGTCTTACATGAATCTCATATCGATGCCAATGTC
1 CCAGCTATGGTCTTACATGAATCTCATATCGATGCCAATG-C
* *
46553223 CCAGAC-ATGGTCTTACATGAATCTCGTATTGATGCCAATGTC
1 CCAG-CTATGGTCTTACATGAATCTCATATCGATGCCAATG-C
* * *
46553265 CCAGAC-ATGGTCTTAGATGAATCACATAACGATGCCAATGTC
1 CCAG-CTATGGTCTTACATGAATCTCATATCGATGCCAATG-C
* *
46553307 CCAGAC-ATGGTCTTACACGTAATCACATATC
1 CCAG-CTATGGTCTTACATG-AATCTCATATC
46553338 AGTATCCTAA
Statistics
Matches: 140, Mismatches: 12, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
40 2 0.01
41 17 0.12
42 110 0.79
43 11 0.08
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (41 bp):
CCAGCTATGGTCTTACATGAATCTCATATCGATGCCAATGC
Found at i:46553238 original size:84 final size:83
Alignment explanation
Indices: 46553139--46553337 Score: 242
Period size: 84 Copynumber: 2.4 Consensus size: 83
46553129 ATGCCATATT
* *
46553139 CCAGATATGGTCTTACATGCTATCAT-ATATCGATGCCAATAG-CCAG-CTATGGTCTTACATGA
1 CCAGACATGGTCTTACATG-AATC-TCATATCGATGCCAAT-GCCCAGAC-ATGGTCTTACATGA
* *
46553201 ATCTCATATCGATGCCAATGTC
62 ATCACATAACGATGCCAATGTC
* * *
46553223 CCAGACATGGTCTTACATGAATCTCGTATTGATGCCAATGTCCCAGACATGGTCTTAGATGAATC
1 CCAGACATGGTCTTACATGAATCTCATATCGATGCCAATG-CCCAGACATGGTCTTACATGAATC
46553288 ACATAACGATGCCAATGTC
65 ACATAACGATGCCAATGTC
* *
46553307 CCAGACATGGTCTTACACGTAATCACATATC
1 CCAGACATGGTCTTACATG-AATCTCATATC
46553338 AGTATCCTAA
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
82 2 0.02
83 15 0.15
84 73 0.74
85 9 0.09
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (83 bp):
CCAGACATGGTCTTACATGAATCTCATATCGATGCCAATGCCCAGACATGGTCTTACATGAATCA
CATAACGATGCCAATGTC
Found at i:46553621 original size:20 final size:19
Alignment explanation
Indices: 46553590--46553641 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
46553580 ATCTATATAA
* *
46553590 TAACAAAATTTACT-TATT
1 TAACACAATTTACTCAATT
46553608 TAATCACTAATTTACTCAATT
1 TAA-CAC-AATTTACTCAATT
46553629 TAACACAATTTAC
1 TAACACAATTTAC
46553642 ACATTAGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.10
19 9 0.31
20 11 0.38
21 6 0.21
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (19 bp):
TAACACAATTTACTCAATT
Found at i:46554586 original size:24 final size:24
Alignment explanation
Indices: 46554554--46554601 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
46554544 AACTTTACGA
46554554 TCCGCTTCCACGTTCATCCACATC
1 TCCGCTTCCACGTTCATCCACATC
46554578 TCCGCTTCCACGTTCATCCACATC
1 TCCGCTTCCACGTTCATCCACATC
46554602 ATTCTTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.46, G:0.08, T:0.29
Consensus pattern (24 bp):
TCCGCTTCCACGTTCATCCACATC
Found at i:46560863 original size:5 final size:5
Alignment explanation
Indices: 46560853--46560878 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46560843 TTTTCTTTGA
46560853 TTAAT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT T
46560879 AAGAGATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:46577312 original size:42 final size:42
Alignment explanation
Indices: 46577249--46577377 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
46577239 TCGAGTTTAC
* *
46577249 TTTCCGTTGAGCTCTCATGAGCTTCAGTTTAACCCTTATGGG
1 TTTCCGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGG
* * * **
46577291 TTTCCGTTCAGCTTTTTTGAGCTTCAGTTTAACTTTTATGGG
1 TTTCCGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGG
* *
46577333 TTTCTGTTAAGCTCTTATGAGCTTCCA-TTCAACCCTTATGGG
1 TTTCCGTTAAGCTCTTATGAGCTT-CAGTTTAACCCTTATGGG
46577375 TTT
1 TTT
46577378 TTGTTTGGCA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 71 0.97
43 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (42 bp):
TTTCCGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGG
Found at i:46583281 original size:42 final size:42
Alignment explanation
Indices: 46583224--46583323 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
46583214 CTATATGAAC
*
46583224 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* *
46583266 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
46583308 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
46583324 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:46604375 original size:7 final size:7
Alignment explanation
Indices: 46604365--46604393 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
46604355 AAAGTAAATA
46604365 ATATGTG
1 ATATGTG
46604372 ATATGTG
1 ATATGTG
46604379 ATATGTG
1 ATATGTG
46604386 ATATGTG
1 ATATGTG
46604393 A
1 A
46604394 GCATGTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (7 bp):
ATATGTG
Done.