Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 53 of 240
Found at i:17852680 original size:37 final size:37
Alignment explanation
Indices: 17852619--17852764 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
17852609 TACGTATGAT
* *
17852619 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17852654 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17852691 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17852728 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17852765 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:17852781 original size:46 final size:46
Alignment explanation
Indices: 17852728--17852996 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
17852718 TAAGTGTAGC
* **
17852728 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
17852774 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17852820 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
17852872 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
17852918 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
17852970 CACTTATCACTTTGTCATTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17852997 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:17852847 original size:52 final size:52
Alignment explanation
Indices: 17852771--17852982 Score: 292
Period size: 52 Copynumber: 4.2 Consensus size: 52
17852761 TAGCTAAAGC
* *
17852771 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17852824 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17852876 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
17852922 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
17852974 TATCACTTT
1 TATCACTTT
17852983 GTCATTTGAT
Statistics
Matches: 142, Mismatches: 11, Indels: 13
0.86 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.61
53 12 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:17852893 original size:98 final size:98
Alignment explanation
Indices: 17852728--17852996 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
17852718 TAAGTGTAGC
* * *
17852728 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
17852793 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
17852827 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
17852892 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
17852925 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCATTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
17852990 GATCAGA
66 GATCAGA
17852997 AGTACTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 150 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:17858887 original size:21 final size:21
Alignment explanation
Indices: 17858863--17858915 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
17858853 CTCGATGGTA
*
17858863 ATGAGATTAATTACTGTAACG
1 ATGAGATTAAATACTGTAACG
* *
17858884 ATGAGATTAAATATTGTAATG
1 ATGAGATTAAATACTGTAACG
17858905 ATGTA-ATTAAA
1 ATG-AGATTAAA
17858916 AACAGGTGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (21 bp):
ATGAGATTAAATACTGTAACG
Found at i:17861280 original size:30 final size:28
Alignment explanation
Indices: 17861225--17861284 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
17861215 ACTTTAAAAC
17861225 TTTTAAAAATTCAAAAAAATAAAATTTAT
1 TTTTAAAAATTCAAAAAAATAAAA-TTAT
*
17861254 TTTTAAAAATT-AAAAATCATTAAAATTAT
1 TTTTAAAAATTCAAAAA--AATAAAATTAT
17861283 TT
1 TT
17861285 AAAAGTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 5 0.18
29 17 0.61
30 6 0.21
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTTAAAAATTCAAAAAAATAAAATTAT
Found at i:17867898 original size:12 final size:12
Alignment explanation
Indices: 17867857--17867898 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
17867847 ATGATAATTA
17867857 ATTTTTCTTTTT
1 ATTTTTCTTTTT
*
17867869 ATCCTTT-TTTTT
1 AT-TTTTCTTTTT
*
17867881 ACTTTTCTTTTT
1 ATTTTTCTTTTT
17867893 ATTTTT
1 ATTTTT
17867899 AATATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 3 0.12
12 18 0.75
13 3 0.12
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTCTTTTT
Found at i:17868754 original size:13 final size:13
Alignment explanation
Indices: 17868736--17868763 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17868726 AATATATTGA
17868736 AAATTTTATATAC
1 AAATTTTATATAC
17868749 AAATTTTATATAC
1 AAATTTTATATAC
17868762 AA
1 AA
17868764 TACATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTTTATATAC
Found at i:17869686 original size:25 final size:25
Alignment explanation
Indices: 17869641--17869693 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
17869631 TATATCATAT
*
17869641 ATCCAACTTCATCCATCTCCA-TTC
1 ATCCAACTTCATCAATCTCCATTTC
17869665 ATCCTAACTTCATCAAAT-TCCATTTC
1 ATCC-AACTTCATC-AATCTCCATTTC
17869691 ATC
1 ATC
17869694 TCTCCACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 13 0.52
26 8 0.32
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (25 bp):
ATCCAACTTCATCAATCTCCATTTC
Found at i:17888891 original size:11 final size:10
Alignment explanation
Indices: 17888875--17888919 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
17888865 TTTAACTTTC
17888875 TTTATATATTT
1 TTTATA-ATTT
17888886 TTTATAATTT
1 TTTATAATTT
* *
17888896 TTTAAAAATT
1 TTTATAATTT
*
17888906 TTCATAATTT
1 TTTATAATTT
17888916 TTTA
1 TTTA
17888920 AAAATATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
10 22 0.79
11 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATTT
Found at i:17888912 original size:20 final size:20
Alignment explanation
Indices: 17888884--17888924 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17888874 CTTTATATAT
*
17888884 TTTTTATAATTTTTTAAAAA
1 TTTTCATAATTTTTTAAAAA
17888904 TTTTCATAATTTTTTAAAAA
1 TTTTCATAATTTTTTAAAAA
17888924 T
1 T
17888925 ATAAATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTCATAATTTTTTAAAAA
Found at i:17888971 original size:19 final size:19
Alignment explanation
Indices: 17888949--17888998 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
17888939 TTTTATTAAT
17888949 ATTTTGAATTTTAAAAATG
1 ATTTTGAATTTTAAAAATG
* *
17888968 ATTTTAAATTTTTGAAAATG
1 ATTTTGAA-TTTTAAAAATG
17888988 ATTTTGAATTT
1 ATTTTGAATTT
17888999 CTTTTACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATG
Found at i:17888985 original size:20 final size:20
Alignment explanation
Indices: 17888929--17888998 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
17888919 AAAAATATAA
**
17888929 ATTTTGAAATTTTTATTAAT-
1 ATTTT-AAATTTTTAAAAATG
*
17888949 ATTTTGAA-TTTTAAAAATG
1 ATTTTAAATTTTTAAAAATG
*
17888968 ATTTTAAATTTTTGAAAATG
1 ATTTTAAATTTTTAAAAATG
*
17888988 ATTTTGAATTT
1 ATTTTAAATTT
17888999 CTTTTACCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
18 8 0.19
19 9 0.21
20 25 0.60
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTTTAAATTTTTAAAAATG
Found at i:17891183 original size:33 final size:33
Alignment explanation
Indices: 17891141--17891208 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
17891131 CTCATTTCCA
17891141 TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
1 TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
17891174 TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
1 TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
17891207 TT
1 TT
17891209 TCACATGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (33 bp):
TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
Found at i:17896258 original size:30 final size:30
Alignment explanation
Indices: 17896222--17896328 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
17896212 TCTCGTTTAC
*
17896222 ATAATAAATAAATTTACTTTTATGACTCAT
1 ATAATAAACAAATTTACTTTTATGACTCAT
* *
17896252 ATAATAAACAAATTTATTTTTTTGACTCAT
1 ATAATAAACAAATTTACTTTTATGACTCAT
*
17896282 ACTTTTATATAACAAACAAACTTACTTTTATGACTCAT
1 A----TA-AT---AAACAAATTTACTTTTATGACTCAT
*
17896320 ATAACAAAC
1 ATAATAAAC
17896329 TGTACTAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
30 32 0.52
33 1 0.02
34 4 0.06
35 2 0.03
38 23 0.37
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (30 bp):
ATAATAAACAAATTTACTTTTATGACTCAT
Found at i:17897382 original size:10 final size:10
Alignment explanation
Indices: 17897367--17897412 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
17897357 CAATTTATTT
17897367 TTTTCTTTTA
1 TTTTCTTTTA
17897377 TTTTCTTTTAA
1 TTTTCTTTT-A
*
17897388 CTTTCTTTTA
1 TTTTCTTTTA
17897398 TTTTC-TTTA
1 TTTTCTTTTA
17897407 TTTTCT
1 TTTTCT
17897413 ATTCTCTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.28
10 14 0.44
11 9 0.28
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:17899997 original size:36 final size:36
Alignment explanation
Indices: 17899957--17900074 Score: 200
Period size: 36 Copynumber: 3.3 Consensus size: 36
17899947 ACTGCCACCA
17899957 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
*
17899993 CCAGCTCCACTTATTCCAAACCCCTTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
* *
17900029 CCAGCTCCTCTTATTCCAAACCCTTTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
*
17900065 CCAGCACCAC
1 CCAGCTCCAC
17900075 CGGCTCCACT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 77 1.00
ACGTcount: A:0.20, C:0.47, G:0.06, T:0.27
Consensus pattern (36 bp):
CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
Found at i:17900208 original size:45 final size:45
Alignment explanation
Indices: 17900026--17900213 Score: 259
Period size: 45 Copynumber: 4.2 Consensus size: 45
17900016 CTTTCAGCCT
* * *
17900026 CCTCCAGCTCCTCTTATTCCAAACCCTTTTCAGCCTCCTCCAGCA
1 CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCCGCA
* * *
17900071 CCACCGGCTCCACTTATTCCAAACCCTTTTCAGCCTCCTCCCGCA
1 CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCCGCA
* *
17900116 CCACCGGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCCGCA
1 CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCCGCA
* * * * *
17900161 CCTCCAGCTCCATTTATCCCGAACCCCTTCCAGCCTCCTCCGGCA
1 CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCCGCA
17900206 CCTCCAGC
1 CCTCCAGC
17900214 ACCTCCAGCA
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 131 1.00
ACGTcount: A:0.17, C:0.50, G:0.09, T:0.24
Consensus pattern (45 bp):
CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCCGCA
Found at i:17908896 original size:2 final size:2
Alignment explanation
Indices: 17908889--17908923 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17908879 ATACAAAGCA
17908889 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17908924 CTCTAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17909203 original size:13 final size:13
Alignment explanation
Indices: 17909185--17909226 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17909175 ATATGACGTG
17909185 ATTTTTTTGGTTC
1 ATTTTTTTGGTTC
* *
17909198 ATTTTTTT-ATGC
1 ATTTTTTTGGTTC
17909210 ACTTTTTTTGGTTC
1 A-TTTTTTTGGTTC
17909224 ATT
1 ATT
17909227 AATGTGACGT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.67
Consensus pattern (13 bp):
ATTTTTTTGGTTC
Found at i:17913370 original size:9 final size:9
Alignment explanation
Indices: 17913350--17913418 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
17913340 AAAATATTTT
17913350 AAAATT-AA
1 AAAATTAAA
17913358 AAAATTAAAA
1 AAAATT-AAA
17913368 AAAGTATTTAAA
1 AAA--A-TTAAA
*
17913380 AAATTTAAAA
1 AAAATT-AAA
*
17913390 AAAATT--T
1 AAAATTAAA
17913397 AAAATTAAA
1 AAAATTAAA
17913406 AAAATTAAA
1 AAAATTAAA
17913415 AAAA
1 AAAA
17913419 AAGTATTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 15 0.31
10 13 0.27
12 7 0.14
13 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.26
Consensus pattern (9 bp):
AAAATTAAA
Found at i:17913370 original size:39 final size:35
Alignment explanation
Indices: 17913311--17913400 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 35
17913301 ATTTTAAAAA
17913311 TTAAAATAAAAATTAAAAAAAGTATTTTAAAAATATT
1 TTAAAATAAAAATTAAAAAAAGTA-TTTAAAAA-ATT
17913348 TTAAAATTAAAAAATTAAAAAAAGTATTTAAAAAA-T
1 TTAAAA-T-AAAAATTAAAAAAAGTATTTAAAAAATT
*
17913384 TTAAAA-AAAATTTAAAA
1 TTAAAATAAAAATTAAAA
17913401 TTAAAAAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
33 10 0.20
36 7 0.14
37 7 0.14
38 9 0.18
39 17 0.34
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (35 bp):
TTAAAATAAAAATTAAAAAAAGTATTTAAAAAATT
Found at i:17913409 original size:39 final size:39
Alignment explanation
Indices: 17913318--17913390 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
17913308 AAATTAAAAT
*
17913318 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTA
17913357 AAAAATTAAAAAAAGTA-TTTAAAAA-ATTTAAAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAA
17913391 AAATTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 8 0.24
38 8 0.24
39 17 0.52
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (39 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTA
Found at i:17913431 original size:11 final size:11
Alignment explanation
Indices: 17913417--17913441 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17913407 AAATTAAAAA
17913417 AAAAGTATTTT
1 AAAAGTATTTT
17913428 AAAAGTATTTT
1 AAAAGTATTTT
17913439 AAA
1 AAA
17913442 GTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:17921219 original size:12 final size:13
Alignment explanation
Indices: 17921194--17921222 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17921184 ACAAATCCAT
17921194 AATATACAAAACA
1 AATATACAAAACA
17921207 AATATAC-AAACA
1 AATATACAAAACA
17921219 AATA
1 AATA
17921223 ATATTAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (13 bp):
AATATACAAAACA
Found at i:17921543 original size:3 final size:3
Alignment explanation
Indices: 17921417--17921529 Score: 108
Period size: 3 Copynumber: 38.7 Consensus size: 3
17921407 AATGAGTAAC
* * *
17921417 TAA TAA TGA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
17921465 TAA TAA TAA TAA TAA TGG TAA AAA TAA -AA -AA TAA TAA T-A TGAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* *
17921508 TAA TAA TAA -AA CAA TAG TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
17921530 GGGGTAATAA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
2 8 0.09
3 84 0.90
4 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:17923249 original size:99 final size:97
Alignment explanation
Indices: 17923077--17923781 Score: 813
Period size: 99 Copynumber: 7.1 Consensus size: 97
17923067 CTTCTGTCTG
* * * * *
17923077 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCAATGCACCGCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
**
17923142 AGGAAAGTAAGATTCGCCGTTGTGATTTCAATCT
66 AGG-AAGTAAGATTCGCCGTTGTGCCTT-AATCT
** * * * * *
17923176 TTTAATTGCAATGTCAAGG-AGATAAGATTCGTTGTTATAACTTTAATCTGTTCCACTGCACCGC
1 TTTAATTGCAATGTCGGGGAAG-CAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* *
17923240 CAGAGAAGTAAGATTCGCCGTTGTGGCCTCAATTT
65 CAG-GAAGTAAGATTCGCCGTTGT-GCCTTAATCT
* *
17923275 TTTAATTG-TATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAACCTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCG-C
* *
17923339 CTA-AAAGTAAGATTCACCGTTGTGGCCTTAATCT
65 C-AGGAAGTAAGATTCGCCGTTGT-GCCTTAATCT
*
17923373 TTTAATTGCAATATCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
*
17923438 TGGAAAGTAAGATTCGCCGTTGTGGCCTTAATCT
66 AGG-AAGTAAGATTCGCCGTTGT-GCCTTAATCT
* * * *
17923472 TTTAATTGCAATATCGGGGAAGCAATATTTGCTGTTGTAGCTTCAATTTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* *
17923537 AGGGAAGTAAGATTCACCGTTGTGGCTTAAATCT
66 A-GGAAGTAAGATTCGCCGTTGTGCCTT-AATCT
* * * *
17923571 ATTTAACTACAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCAC
1 -TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
** *
17923636 TTGGGAAGTAAGATTCGCCGTTGTGGCTTTAATCT
65 -CAGGAAGTAAGATTCGCCGTTGT-GCCTTAATCT
* *** * * *
17923671 TTTAATTACAATGTCGGGGAAATGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* * * *
17923736 TGGAAAGTAAGATTTGTCGTTGTGGCTTCAATCTT
66 AGG-AAGTAAGATTCGCCGTTGTGCCTT-AATC-T
17923771 TTTAATTGCAA
1 TTTAATTGCAA
17923782 ACTATGGTTT
Statistics
Matches: 523, Mismatches: 66, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
98 91 0.17
99 331 0.63
100 98 0.19
101 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (97 bp):
TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
AGGAAGTAAGATTCGCCGTTGTGCCTTAATCT
Found at i:17923460 original size:50 final size:50
Alignment explanation
Indices: 17923091--17923769 Score: 333
Period size: 50 Copynumber: 13.7 Consensus size: 50
17923081 ATTGCAATGT
* * * * *
17923091 CGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCAATGCACCGC
1 CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
** * ** * **
17923141 TAGGAAAGTAAGATTCGCCGTTGT-GATTTCAATCT-TTTAATTGCAATGTC
1 CGGGAAAGTAAGATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGCACCG-C
** * ** * * *
17923191 AAGGAGA-TAAGATTCGTTGTTATAACTTTAATCTGTTCCACTGCACCGC
1 CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * * * ** * * * *
17923240 C-AGAGAAGTAAGATTCGCCGTTGTGGCCTCAAT-TTTTTAATTGTA-TGT
1 CGGGA-AAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * * *
17923288 CGGGGAAGCAAGATTCGCTGTTGTAGCTTCAACCTGTTCCACTGCACCGC
1 CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
*** * * ** * ****
17923338 CCTAAAAGTAAGATTCACCGTTGTGGCCTT-AATCT-TTTAATTGCAATAT
1 CGGGAAAGTAAGATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGCACCGC
* * *
17923387 CGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
1 CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * ** * ****
17923437 CTGGAAAGTAAGATTCGCCGTTGTGGCCTT-AATCT-TTTAATTGCAATAT
1 CGGGAAAGTAAGATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGCACCGC
* * * * * *
17923486 CGGGGAAGCAATATTTGCTGTTGTAGCTTCAATTTGTTCCACTGCACCGC
1 CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * * * ** * ** *
17923536 CAGGG-AAGTAAGATTCACCGTTGTGGCTTAAATCTATTTAACTACAATGT
1 C-GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * *
17923586 CGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCAC
1 CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * * ** * * **
17923636 TTGGG-AAGTAAGATTCGCCGTTGTGGCTTTAATCT-TTTAATTACAATGTC
1 -CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCG-C
* * *
17923686 GGGGAAA-TGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
1 CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
** * * *
17923735 TTGGAAAGTAAGATTTGTCGTTGTGGCTTCAATCT
1 CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCT
17923770 TTTTAATTGC
Statistics
Matches: 437, Mismatches: 170, Indels: 44
0.67 0.26 0.07
Matches are distributed among these distances:
48 33 0.08
49 147 0.34
50 245 0.56
51 12 0.03
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
CGGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
Found at i:17923659 original size:199 final size:198
Alignment explanation
Indices: 17923077--17923781 Score: 912
Period size: 199 Copynumber: 3.6 Consensus size: 198
17923067 CTTCTGTCTG
* * *
17923077 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCAATGCACCGCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* ** ** *
17923142 AGGAAAGTAAGATTCGCCGTTGTGATTTCAATCTTTTAATTGCAATGTCAAGG-AGATAAGATTC
66 AGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTCGGGGAAG-CAAGATTC
* * * * * * *
17923206 GTTGTTATAACTTTAATCTGTTCCACTGCACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCCTCA
130 GCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCCTTA
*
17923271 ATTT
195 ATCT
* * * *
17923275 TTTAATTG-TATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAACCTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
*** *
17923339 CTAAAAGTAAGATTCACCGTTGTGGCCTT-AATCTTTTAATTGCAATATCGGGGAAGCAAGATTC
66 AGGAAAGTAAGATTCACCGTTGTGG-CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTC
*
17923403 GCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGAAAGTAAGATTCGCCGTTGTGGCCTTA
130 GCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCCTTA
17923468 ATCT
195 ATCT
* * ** * *
17923472 TTTAATTGCAATATCGGGGAAGCAATATTTGCTGTTGTAGCTTCAATTTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* * * *
17923537 AGGGAAGTAAGATTCACCGTTGTGGCTTAAATCTATTTAACTACAATGTCGGGGAAGCAAGATTC
66 AGGAAAGTAAGATTCACCGTTGTGGCTTCAATCT-TTTAATTGCAATGTCGGGGAAGCAAGATTC
* * * *
17923602 GCCGTTGTAGCTTCAATCTGTTCCACTGCACCACTTGGGAAGTAAGATTCGCCGTTGTGGCTTTA
130 GCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCCTTA
17923667 ATCT
195 ATCT
* *** *
17923671 TTTAATTACAATGTCGGGGAAATGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* ***
17923736 TGGAAAGTAAGATTTGTCGTTGTGGCTTCAATCTTTTTAATTGCAA
66 AGGAAAGTAAGATTCACCGTTGTGGCTTCAATC-TTTTAATTGCAA
17923782 ACTATGGTTT
Statistics
Matches: 438, Mismatches: 63, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
197 168 0.38
198 88 0.20
199 181 0.41
200 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (198 bp):
TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
AGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCCTTAA
TCT
Found at i:17936230 original size:3 final size:3
Alignment explanation
Indices: 17936216--17936329 Score: 158
Period size: 3 Copynumber: 38.0 Consensus size: 3
17936206 AATGAGTAAC
*
17936216 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
17936264 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGG TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
17936312 TAA T-A TGAG TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA
17936330 AACAATAGTA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
2 2 0.02
3 94 0.97
4 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:17937607 original size:22 final size:23
Alignment explanation
Indices: 17937564--17937608 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17937554 TTATTTAGGT
***
17937564 AAAATTTAAAAACATTTTAATAA
1 AAAATTTAAAAACATCCAAATAA
17937587 AAAATTTAAAAA-ATCCAAATAA
1 AAAATTTAAAAACATCCAAATAA
17937609 CCCATAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAATTTAAAAACATCCAAATAA
Found at i:17941042 original size:107 final size:107
Alignment explanation
Indices: 17940837--17941181 Score: 509
Period size: 107 Copynumber: 3.2 Consensus size: 107
17940827 AAGAAAAAGG
*
17940837 AAAAAAAATTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAAAAATTAC-TT
1 AAAAAAAATTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAAAATTTACTTT
*
17940901 TTTTTCGTGTTAAAATCAGGTATCACTATACGAAAAAAAGT-A
65 TTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAAGTAA
* *
17940943 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACACAACAGTAA-AAAAAAATTTACTTTT
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAAAATTTAC--TT
*
17941007 TTTTTTCGTGTTAAAATTAGGTATCAGTATACGAAAAAAAGTAAA
64 TTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAAGT-AA
* **
17941052 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAATTTTTACTTT
1 AAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAAAATTTACTTT
* *
17941117 TTTTTCGTGTTAAAATCAGATATCAGTATATG-AAAAAAGTAAA
65 TTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAAGT-AA
*
17941160 AAAAAAAATTTAGGTGCTGGCC
1 AAAAAAAATTTGGGTGCTGGCC
17941182 CAGTAATAAA
Statistics
Matches: 217, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
104 11 0.05
105 35 0.16
106 11 0.05
107 53 0.24
108 19 0.09
109 41 0.19
110 37 0.17
111 10 0.05
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (107 bp):
AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAAAATTTACTTTT
TTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAAGTAA
Found at i:17942432 original size:217 final size:214
Alignment explanation
Indices: 17941996--17942649 Score: 875
Period size: 217 Copynumber: 3.0 Consensus size: 214
17941986 CGAAAAAGGG
* *
17941996 AAAAAAAAA-TTTTGGGTGCTAGCTTGTCAATGGCCAGCACCCAACAGTAATAAAAAATTTTTAC
1 AAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAAATTTTTAC
* * * *
17942060 TTTTTTTCGTATTAAAATCAGGTATCAGTATACGAAAAAAAGTAAAAAAAA-TTTGGGTGCTGGC
66 TTTTTTTTGTGTTAAAATCAGGTATCAGTATACGAAAAAAGGAAAAAAAAATTTTGGGTGCTGGC
* * **
17942124 CTGTCATTGGCCGGCACCCAACAGTAATAATTTTTTTTACTTTTTTTCTCGTGTTAAAATTAGGT
131 CTGTCAATGGCAGGCACCCAACAGTAA-AA--AATTTTACTTTTTTT-TCGTGTTAAAATTAGGT
17942189 ATCAGTATACAAAAAAAAGT-AA
192 ATCAGTATACAAAAAAAAGTAAA
* * * *
17942211 AAAAACAAATTTTTGAGTGTTAGCCTGTCAATGGCCGGCACCCAACAGTAATTAAAAAAATTTTA
1 AAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAACAGTAA-TAAAAAATTTTTA
17942276 CTTTTTTTTGTGTTAAAATCAGGTATCAGTATACG-AAAAAGGAAAAAAAAATTTTGGGTGCTGG
65 CTTTTTTTTGTGTTAAAATCAGGTATCAGTATACGAAAAAAGGAAAAAAAAATTTTGGGTGCTGG
17942340 CCTGTCAATGGCAGGCACCCAACAGTAAAAAATTTTACTTTTTTTTCGTGTTAAAATTAGGTATC
130 CCTGTCAATGGCAGGCACCCAACAGTAAAAAATTTTACTTTTTTTTCGTGTTAAAATTAGGTATC
17942405 AGTATACAAAAAAAAGTAAA
195 AGTATACAAAAAAAAGTAAA
* * * * * *
17942425 AAAAAAAATTTTTTTTGGGTGCTGGCCTGTTAATGGCCGACACCAAACAATAATAAAAAATTTTT
1 AAAAAAAA--ATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAAA--TTT
* * * *
17942490 TTACTTTTTTTTCGTGTTCAAATTAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTTTA
62 TTACTTTTTTTT-GTGTTAAAATCAGGTATCAGTATACGAAAAAAG--GAAAAAAAAA--TTTTG
* * *
17942555 GGTGCTGGCCTGTCAATGGCTGGCACCCAACAGTAAAAAAAAATTTACTTTTTTTTCTTGTTAAA
122 GGTGCTGGCCTGTCAATGGCAGGCACCCAACAGT--AAAAAATTTTACTTTTTTTTCGTGTTAAA
*
17942620 ATTAGGTATCAATATACGAAAAAAAAGTAA
185 ATTAGGTATCAGTATAC-AAAAAAAAGTAA
17942650 TGGCCAGCAC
Statistics
Matches: 390, Mismatches: 32, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
213 37 0.09
214 22 0.06
215 15 0.04
216 88 0.23
217 97 0.25
218 24 0.06
219 6 0.02
221 9 0.02
223 37 0.09
225 43 0.11
226 12 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (214 bp):
AAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAACAGTAATAAAAAATTTTTAC
TTTTTTTTGTGTTAAAATCAGGTATCAGTATACGAAAAAAGGAAAAAAAAATTTTGGGTGCTGGC
CTGTCAATGGCAGGCACCCAACAGTAAAAAATTTTACTTTTTTTTCGTGTTAAAATTAGGTATCA
GTATACAAAAAAAAGTAAA
Found at i:17942722 original size:83 final size:79
Alignment explanation
Indices: 17942577--17942726 Score: 203
Period size: 83 Copynumber: 1.8 Consensus size: 79
17942567 TCAATGGCTG
* * * *
17942577 GCACCCAACAGTAAAAAAAAATTTACTTTTTTTTCTTGTTAAAATTAGGTATCAATATACGAAAA
1 GCACCCAACAGTAAAAAAAAATTTACTTTTTTTTCGTGTTAAAATCAAGTATCAATACACGAAAA
17942642 AAAAGTAATGGCCA
66 AAAAGTAATGGCCA
*
17942656 GCACCCAACAGTAATAAAAAAAAATTT-CTACTTTTTTTCGTGTTCAAATCAAGTATCAATACAC
1 GCACCCAACAG---TAAAAAAAAATTTACT--TTTTTTTCGTGTTAAAATCAAGTATCAATACAC
17942720 GAAAAAA
61 GAAAAAA
17942727 GTAAAAAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
79 11 0.18
81 2 0.03
82 13 0.21
83 35 0.57
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (79 bp):
GCACCCAACAGTAAAAAAAAATTTACTTTTTTTTCGTGTTAAAATCAAGTATCAATACACGAAAA
AAAAGTAATGGCCA
Found at i:17942947 original size:111 final size:107
Alignment explanation
Indices: 17942806--17943030 Score: 360
Period size: 108 Copynumber: 2.1 Consensus size: 107
17942796 GAAAAAAGAA
* *
17942806 TTTTTTTTACTTTTTTTGTATACTGATACCTGATTTTAACACGAAAAAAAAAGTAAAATTTTTTT
1 TTTTTTTTACTTTTTTTCTATACTGATACCTAATTTTAACACG--AAAAAAAGTAAAA-TTTTTT
17942871 TATTACTGTTGGGTGCCGGCCATTGACAGGCCAACACCCAAAATT
63 TATTACTGTTGGGTGCCGGCCATTGACAGGCCAACACCCAAAATT
* *
17942916 TTTTTTTTACTTTTTTTCCTATATTGGTACCTAATTTTAACACGAAAAAAAGTAAAATTTTTTTA
1 TTTTTTTTACTTTTTTT-CTATACTGATACCTAATTTTAACACGAAAAAAAGTAAAATTTTTTTA
* *
17942981 TTACTGTTGGGTGCCGGCCATTGACAGGCCAGCATCCAAAATT
65 TTACTGTTGGGTGCCGGCCATTGACAGGCCAACACCCAAAATT
17943024 TTTTTTT
1 TTTTTTT
17943031 CCTTTTTCTT
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
108 56 0.52
109 13 0.12
110 17 0.16
111 22 0.20
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (107 bp):
TTTTTTTTACTTTTTTTCTATACTGATACCTAATTTTAACACGAAAAAAAGTAAAATTTTTTTAT
TACTGTTGGGTGCCGGCCATTGACAGGCCAACACCCAAAATT
Found at i:17943044 original size:16 final size:16
Alignment explanation
Indices: 17943023--17943054 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17943013 CATCCAAAAT
*
17943023 TTTTTTTTCCTTTTTC
1 TTTTTTCTCCTTTTTC
17943039 TTTTTTCTCCTTTTTC
1 TTTTTTCTCCTTTTTC
17943055 GTATATCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTCTCCTTTTTC
Found at i:17943669 original size:44 final size:45
Alignment explanation
Indices: 17943616--17943704 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 45
17943606 TGCTTTTAAA
*
17943616 GCCCTGAAACCAATTCGACTAGTCATTAGATACGGCTTTT-TTTT
1 GCCCTGAAACCAATTCGAATAGTCATTAGATACGGCTTTTGTTTT
*
17943660 GCCCTGAAACCAATTCGAATAGTCATTAGATTCGGCTTTTGTTTT
1 GCCCTGAAACCAATTCGAATAGTCATTAGATACGGCTTTTGTTTT
17943705 ACTTTTTAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 38 0.90
45 4 0.10
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (45 bp):
GCCCTGAAACCAATTCGAATAGTCATTAGATACGGCTTTTGTTTT
Found at i:17944691 original size:109 final size:105
Alignment explanation
Indices: 17944563--17944948 Score: 428
Period size: 109 Copynumber: 3.6 Consensus size: 105
17944553 CCATTAATAA
*
17944563 AAAAAAATTTACTTTTTTTTTCGTGTTAAAATTAGGTATCAGTATACGAAAAAAATAATAAAAAA
1 AAAAAAATTTAC-TTTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAATAA-AAAAAA
* * *
17944628 ATTTTTTTAGGTGCTGGTCTGTCAATGGCCGGCATCCAACAGTAAT
64 A---TTTT-GGTGTTGGCCTGTCAATGGCCGGCACCCAACAGTAAT
* *
17944674 AAAAAAATTTAC-TTTTTTTCGTGTTAAAATTAGGTATCAGTATATGAAAAAAAGT---AAAAAA
1 AAAAAAATTTACTTTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAA-TAAAAAAAAA
* * *
17944735 --TTGGTGTTGGCCTGTTAATGGCCGGCACCCAACGGTAAA
65 TTTTGGTGTTGGCCTGTCAATGGCCGGCACCCAACAGTAAT
*
17944774 AAAAATAATTTTTAACTTTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAGTAAAAAA
1 AAAAA-AA--TTT-ACTTTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAA--ATAAAA
*
17944839 AAAAATTTTGGATGTTGGCCTGTCAATGGCCGACACCCAACAGTAAT
60 AAAAATTTTGG-TGTTGGCCTGTCAATGGCCGGCACCCAACAGTAAT
**** *
17944886 AAATTTTTTTTAC-TTTTTTTCGTGTTAAAATCAAGTATCAGTATAC-AAAAAAAGTAAAAAAAA
1 AAA-AAAATTTACTTTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAA-TAAAAAAAA
17944949 TTTCCTTTTT
Statistics
Matches: 239, Mismatches: 20, Indels: 37
0.81 0.07 0.12
Matches are distributed among these distances:
100 36 0.15
101 4 0.02
103 3 0.01
104 2 0.01
105 39 0.16
106 14 0.06
107 7 0.03
108 32 0.13
109 48 0.20
110 4 0.02
111 16 0.07
112 34 0.14
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (105 bp):
AAAAAAATTTACTTTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAATAAAAAAAAAT
TTTGGTGTTGGCCTGTCAATGGCCGGCACCCAACAGTAAT
Found at i:17944924 original size:108 final size:107
Alignment explanation
Indices: 17944577--17944948 Score: 427
Period size: 108 Copynumber: 3.5 Consensus size: 107
17944567 AAATTTACTT
* * ** *
17944577 TTTTTTTCGTGTTAAAATTAGGTATCAGTATACGAAAAAAATAATAAAAAAATTTTTTTAGGTGC
1 TTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAGTAA-AAAAAAA-AATTTT-GGTGT
* * ***
17944642 TGGTCTGTCAATGGCCGGCATCCAACAGTAATAAA-AAAATTTAC
63 TGGCCTGTCAATGGCCGGCACCCAACAGTAATAAATATTTTTTAC
* *
17944686 TTTTTTTCGTGTTAAAATTAGGTATCAGTATATGAAAAAAAGT-----AAAAAA--TTGGTGTTG
1 TTTTTTTCGTGTTAAAATCAGGTATCAGTATACG-AAAAAAGTAAAAAAAAAAATTTTGGTGTTG
* * * *
17944744 GCCTGTTAATGGCCGGCACCCAACGGTAAAAAAAATAATTTTTAAC
65 GCCTGTCAATGGCCGGCACCCAACAGT--AATAAAT-ATTTTTTAC
17944790 TTTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTGGATGTT
1 -TTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTGG-TGTT
* *
17944855 GGCCTGTCAATGGCCGACACCCAACAGTAATAAATTTTTTTTAC
64 GGCCTGTCAATGGCCGGCACCCAACAGTAATAAATATTTTTTAC
* *
17944899 TTTTTTTCGTGTTAAAATCAAGTATCAGTATACAAAAAAAGTAAAAAAAA
1 TTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAGTAAAAAAAA
17944949 TTTCCTTTTT
Statistics
Matches: 225, Mismatches: 24, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
100 29 0.13
101 2 0.01
102 5 0.02
104 17 0.08
105 32 0.14
108 48 0.21
109 46 0.20
110 13 0.06
111 4 0.02
112 29 0.13
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (107 bp):
TTTTTTTCGTGTTAAAATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTGGTGTTGG
CCTGTCAATGGCCGGCACCCAACAGTAATAAATATTTTTTAC
Found at i:17948718 original size:18 final size:18
Alignment explanation
Indices: 17948680--17948718 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17948670 TATAAGAAAG
* * *
17948680 TATTTTAATTTTAGAATA
1 TATTTTAATTTAAAAAAA
17948698 TATTTTAATTTAAAAAAA
1 TATTTTAATTTAAAAAAA
17948716 TAT
1 TAT
17948719 AATTATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TATTTTAATTTAAAAAAA
Found at i:17955493 original size:17 final size:19
Alignment explanation
Indices: 17955471--17955505 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
17955461 TTTAAGTAAA
17955471 AATATTG-AAG-AATTTCG
1 AATATTGTAAGAAATTTCG
17955488 AATATTGTAAGAAATTTC
1 AATATTGTAAGAAATTTC
17955506 AAGAGCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (19 bp):
AATATTGTAAGAAATTTCG
Found at i:17956163 original size:2 final size:2
Alignment explanation
Indices: 17956156--17956188 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17956146 ATATAAATAT
17956156 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
17956189 CTTATCATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17960423 original size:18 final size:18
Alignment explanation
Indices: 17960390--17960442 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
17960380 ATTCAACTAA
*
17960390 ACCCAATCCAAACCCAAAT
1 ACCCAA-CCCAACCCAAAT
** *
17960409 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAAT
17960427 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
17960443 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAAT
Found at i:17960575 original size:9 final size:9
Alignment explanation
Indices: 17960563--17960612 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
17960553 TCAATTAAGT
17960563 TAATTCGGG
1 TAATTCGGG
17960572 TAATTCGGG
1 TAATTCGGG
*
17960581 TAATTCGGT
1 TAATTCGGG
17960590 TAATTCGGG
1 TAATTCGGG
* *
17960599 TCATTCGGT
1 TAATTCGGG
17960608 TAATT
1 TAATT
17960613 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:17960584 original size:18 final size:18
Alignment explanation
Indices: 17960563--17960612 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
17960553 TCAATTAAGT
*
17960563 TAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTCGGG
17960581 TAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
*
17960599 TCATTCGGTTAATT
1 TAATTCGGTTAATT
17960613 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.40
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGG
Found at i:17960591 original size:27 final size:27
Alignment explanation
Indices: 17960561--17960612 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
17960551 ATTCAATTAA
17960561 GTTAATTCGGGTAATTCGGGTAATTCG
1 GTTAATTCGGGTAATTCGGGTAATTCG
* *
17960588 GTTAATTCGGGTCATTCGGTTAATT
1 GTTAATTCGGGTAATTCGGGTAATT
17960613 TTTAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.40
Consensus pattern (27 bp):
GTTAATTCGGGTAATTCGGGTAATTCG
Found at i:17960686 original size:14 final size:14
Alignment explanation
Indices: 17960654--17960696 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
17960644 GTTAATTCGG
**
17960654 TTAACCGACCAAA-
1 TTAACCGAAAAAAT
17960667 TTAACCGAAAAAAT
1 TTAACCGAAAAAAT
17960681 TTAACCGAAAAAAT
1 TTAACCGAAAAAAT
17960695 TT
1 TT
17960697 TGGTTCGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.23
Consensus pattern (14 bp):
TTAACCGAAAAAAT
Found at i:17965701 original size:16 final size:16
Alignment explanation
Indices: 17965680--17965711 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17965670 TTTAAAATAT
17965680 TTTTAAAATATTTTAA
1 TTTTAAAATATTTTAA
17965696 TTTTAAAATATTTTAA
1 TTTTAAAATATTTTAA
17965712 AATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTAAAATATTTTAA
Found at i:17965708 original size:10 final size:11
Alignment explanation
Indices: 17965615--17965757 Score: 107
Period size: 11 Copynumber: 13.9 Consensus size: 11
17965605 TTTTTTTAAA
17965615 TTTTAAAATAT
1 TTTTAAAATAT
17965626 TTTTAAAATACTTT
1 TTTTAAAATA---T
**
17965640 TTTTTTAAT-T
1 TTTTAAAATAT
*
17965650 TTTT-TAA-A-
1 TTTTAAAATAT
17965658 TTTTAAAATAT
1 TTTTAAAATAT
17965669 TTTTAAAATAT
1 TTTTAAAATAT
17965680 TTTTAAAATA-
1 TTTTAAAATAT
17965690 TTTT---A-A-
1 TTTTAAAATAT
17965696 TTTTAAAATA-
1 TTTTAAAATAT
17965706 TTTTAAAATAT
1 TTTTAAAATAT
17965717 TTTTAAAATACT
1 TTTTAAAATA-T
**
17965729 TTTT-TTA-AT
1 TTTTAAAATAT
17965738 TTTTAAAA-AT
1 TTTTAAAATAT
17965748 TTTTAAAATA
1 TTTTAAAATA
17965758 AAAATGGGCC
Statistics
Matches: 110, Mismatches: 7, Indels: 30
0.75 0.05 0.20
Matches are distributed among these distances:
6 5 0.05
7 1 0.01
8 4 0.04
9 11 0.10
10 33 0.30
11 43 0.39
12 5 0.05
14 8 0.07
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:17965722 original size:27 final size:27
Alignment explanation
Indices: 17965669--17965719 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
17965659 TTTAAAATAT
17965669 TTTTAAAATATTTTTAAAATATTTTAA
1 TTTTAAAATATTTTTAAAATATTTTAA
17965696 TTTTAAAATA-TTTTAAAATATTTT
1 TTTTAAAATATTTTTAAAATATTTT
17965720 TAAAATACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTAAAATATTTTTAAAATATTTTAA
Found at i:17969914 original size:33 final size:33
Alignment explanation
Indices: 17969877--17969946 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
17969867 ATTATTTAAA
* *
17969877 TATGATTTGAACATGCTTTTGAGTATGTTTAGG
1 TATGATTTGAACATACTTTTGAGAATGTTTAGG
* * *
17969910 TATGATTTGAACATATTTTTGGGAATGTTTTGG
1 TATGATTTGAACATACTTTTGAGAATGTTTAGG
17969943 TATG
1 TATG
17969947 GTTGATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.47
Consensus pattern (33 bp):
TATGATTTGAACATACTTTTGAGAATGTTTAGG
Found at i:17982956 original size:42 final size:42
Alignment explanation
Indices: 17982892--17982974 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
17982882 CCATAGTCGT
*
17982892 TACTCAATTTATTTGAGAATATCAACTATGGCACTAGGCAGC
1 TACTAAATTTATTTGAGAATATCAACTATGGCACTAGGCAGC
17982934 TACTAAATTTATTTGAGAATATCAACTATGGCACTAGGCAG
1 TACTAAATTTATTTGAGAATATCAACTATGGCACTAGGCAG
17982975 ATGGCTGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (42 bp):
TACTAAATTTATTTGAGAATATCAACTATGGCACTAGGCAGC
Found at i:17997519 original size:29 final size:29
Alignment explanation
Indices: 17997457--17997555 Score: 150
Period size: 28 Copynumber: 3.5 Consensus size: 29
17997447 AAAAATAAAA
*
17997457 ATTTACCAAAACATTACAAC-TTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTTT
17997485 ATTTACCAAAATATTACAACTTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTTT
*
17997514 ATTTACCAAAATATATA-AA-TATTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTTTT
17997542 ATTTACCAAAATAT
1 ATTTACCAAAATAT
17997556 ATCAAAAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 41 0.61
29 24 0.36
30 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTTACCAAAATATTACAACTTTTTTTTT
Found at i:17997627 original size:27 final size:27
Alignment explanation
Indices: 17997589--17997672 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
17997579 CCTGATCACC
17997589 CCAATGCCATTGGCGGCACCAAAGGTG
1 CCAATGCCATTGGCGGCACCAAAGGTG
*
17997616 CCAATGCCATTGGCGGCACCAATGGTG
1 CCAATGCCATTGGCGGCACCAAAGGTG
* *
17997643 CCAATGCCATTGGCGGTACC-AATGTG
1 CCAATGCCATTGGCGGCACCAAAGGTG
17997669 CCAA
1 CCAA
17997673 AGGACTAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 8 0.15
27 45 0.85
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (27 bp):
CCAATGCCATTGGCGGCACCAAAGGTG
Found at i:17998214 original size:18 final size:19
Alignment explanation
Indices: 17998163--17998223 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
17998153 CTAATATTTC
*
17998163 TATTAATTTAAAATA-TAGT
1 TATTAAATTAAAATAGTA-T
* *
17998182 TATTAAATGAGAATAGT-T
1 TATTAAATTAAAATAGTAT
*
17998200 TATTAAATTAAAATAGAAT
1 TATTAAATTAAAATAGTAT
17998219 TATTA
1 TATTA
17998224 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 15 0.44
19 18 0.53
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (19 bp):
TATTAAATTAAAATAGTAT
Found at i:17998351 original size:35 final size:35
Alignment explanation
Indices: 17998312--17998381 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 35
17998302 AAATAGAAAA
*
17998312 AATAAA-GTATAATTATAACTATTCTCATCAAATTT
1 AATAAATGTATAAATA-AACTATTCTCATCAAATTT
* *
17998347 AATAAATTTTTTAAATAAACTATTCTCATCAAATT
1 AATAAA-TGTATAAATAAACTATTCTCATCAAATT
17998382 ACGAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 6 0.20
36 18 0.60
37 6 0.20
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.41
Consensus pattern (35 bp):
AATAAATGTATAAATAAACTATTCTCATCAAATTT
Found at i:17998759 original size:27 final size:26
Alignment explanation
Indices: 17998721--17998777 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
17998711 TTTTAGTCCT
17998721 TTGGCACATTGGTGCCACCAATGGCA
1 TTGGCACATTGGTGCCACCAATGGCA
* *
17998747 TTGGCACCTTTGGTGCCGCCAATGGCA
1 TTGGCA-CATTGGTGCCACCAATGGCA
17998774 TTGG
1 TTGG
17998778 GGTGATCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (26 bp):
TTGGCACATTGGTGCCACCAATGGCA
Found at i:17998897 original size:29 final size:29
Alignment explanation
Indices: 17998820--17998920 Score: 161
Period size: 29 Copynumber: 3.5 Consensus size: 29
17998810 TTTTTTTGAT
17998820 ATATTTTGGTAAAT-AAAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAAAGTTGTA
*
17998847 TATATTTTGATAAATAATAAAAAAAGTTGTA
1 -ATATTTTGGTAAATAA-AAAAAAAGTTGTA
17998878 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAAGTTGTA
17998907 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
17998921 TTTTATTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
28 13 0.19
29 28 0.41
30 25 0.37
31 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.39
Consensus pattern (29 bp):
ATATTTTGGTAAATAAAAAAAAAGTTGTA
Found at i:18003589 original size:2 final size:2
Alignment explanation
Indices: 18003582--18003606 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18003572 AGACTAAATC
18003582 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18003607 TTTAAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18005090 original size:88 final size:88
Alignment explanation
Indices: 18004909--18005612 Score: 1038
Period size: 88 Copynumber: 7.9 Consensus size: 88
18004899 AAATACCGGC
* *
18004909 CCTTATCTCCCTGAGAAGAAGTGGAGTAGGTTGAAGATAGCAGATCAGATTTTGTCTTCCTGTAC
1 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATC-----TTGTCTTCCTGTAC
**
18004974 TGGCAGCA-AAGTAGATCGAAGATACTAG
61 TGGCAG-AGAAGTAGATCGAAGACCCTAG
18005002 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCA
1 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCA
18005067 GAGAAGTAGATCGAAGACCCTAG
66 GAGAAGTAGATCGAAGACCCTAG
*
18005090 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATATTGTCTTCCTGTACTGGCA
1 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCA
18005155 GAGAAGTAGATCGAAGACCCTAG
66 GAGAAGTAGATCGAAGACCCTAG
* * *
18005178 CCTTATCTCTCTAAGAAGCAGTGGAGTAGGTTGAAGAAAACAGATCTTGTCTTCCTGTACTGGCA
1 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCA
*
18005243 GAGAAGTAAATCGAAGACCCTAG
66 GAGAAGTAGATCGAAGACCCTAG
* * * *
18005266 CCTTATCTCTCTAAGAAGCAGTAGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTAGTA
1 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCA
* **
18005331 GCGAAGTAGATCGAAGATACTAG
66 GAGAAGTAGATCGAAGACCCTAG
* *
18005354 CCTTATCTCTCTGAGAAGCAGTGGAGTAGATTGAAGATAGCAGATCTTGTCTTCCTATACTGGCA
1 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCA
* * *
18005419 GTGAAGTAGATCGAAAACCCTAA
66 GAGAAGTAGATCGAAGACCCTAG
* * *
18005442 CCTTATCTCTCTGAGTAGCAGTGAAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCA
1 CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCA
* *
18005507 GCGAAGTAGGTCGAAGACTCC-AG
66 GAGAAGTAGATCGAAGAC-CCTAG
* *
18005530 CCTTATCTC-CTTGAGAAGCAATGGAGTAGGTTGAAGATAGCAGATCTTGTCTTTCTGTACTGGC
1 CCTTATCTCTC-TGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGC
*
18005594 A-ACGAAGCAGATCGAAGAC
65 AGA-GAAGTAGATCGAAGAC
18005613 ACCAGTCTTA
Statistics
Matches: 560, Mismatches: 47, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
87 2 0.00
88 512 0.91
89 2 0.00
93 44 0.08
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
CCTTATCTCTCTGAGAAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCA
GAGAAGTAGATCGAAGACCCTAG
Found at i:18005347 original size:45 final size:45
Alignment explanation
Indices: 18004954--18005611 Score: 215
Period size: 43 Copynumber: 14.9 Consensus size: 45
18004944 GATAGCAGAT
* * **
18004954 CAGATTTTGTCTTCCTGTACTGGCAGCAAAGTAGATCGAAGATA-
1 CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * ** * * *
18004998 CTAG-CCTTATC-TCTCTG-AGAAGCAGTGGAGTAGGTTGAAGATAG
1 C-AGATCTTGTCTTC-CTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * **
18005042 CAGATCTTGTCTTCCTGTACTGGCAGAGAAGTAGATCGAAGA-CC
1 CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * ** * * *
18005086 CTAG-CCTTATC-TCTCTG-AGAAGCAGTGGAGTAGGTTGAAGATAG
1 C-AGATCTTGTCTTC-CTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * * **
18005130 CAGATATTGTCTTCCTGTACTGGCAGAGAAGTAGATCGAAGA-CC
1 CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * * ** * * * * *
18005174 CTAG-CCTTATC-TCTCT-AAGAAGCAGTGGAGTAGGTTGAAGAAAA
1 C-AGATCTTGTCTTC-CTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * * **
18005218 CAGATCTTGTCTTCCTGTACTGGCAGAGAAGTAAATCGAAGA-CC
1 CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * * ** * *
18005262 CTAG-CCTTATC-TCTCT-AAGAAGCAGT-AGAGTAGGTTGAAGATAG
1 C-AGATCTTGTCTTC-CTGTACTAGCAGTGA-AGTAGATCGAAGATAG
* *
18005306 CAGATCTTGTCTTCCTGTACTAGTAGCGAAGTAGATCGAAGATA-
1 CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * ** * *
18005350 CTAG-CCTTATC-TCTCTG-AGAAGCAGTGGAGTAGATTGAAGATAG
1 C-AGATCTTGTCTTC-CTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * *
18005394 CAGATCTTGTCTTCCTATACTGGCAGTGAAGTAGATCGAA-A-ACC
1 CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGATA-G
* * * * *
18005438 CTA-ACCTTATC-TCTCTG-AGTAGCAGTGAAGTAGGTTGAAGATAG
1 C-AGATCTTGTCTTC-CTGTACTAGCAGTGAAGTAGATCGAAGATAG
* * * * *
18005482 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGGTCGAAGACT-C
1 CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGA-TAG
* * ** * * * *
18005527 CAG-CCTTATC-TCCT-TGAGAAGCAATGGAGTAGGTTGAAGATAG
1 CAGATCTTGTCTTCCTGT-ACTAGCAGTGAAGTAGATCGAAGATAG
* * ** *
18005570 CAGATCTTGTCTTTCTGTACTGGCAACGAAGCAGATCGAAGA
1 CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGA
18005612 CACCAGTCTT
Statistics
Matches: 423, Mismatches: 145, Indels: 91
0.64 0.22 0.14
Matches are distributed among these distances:
42 3 0.01
43 153 0.36
44 113 0.27
45 151 0.36
46 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCGAAGATAG
Found at i:18007753 original size:16 final size:16
Alignment explanation
Indices: 18007732--18007788 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
18007722 TTTGGTTCGC
*
18007732 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
18007748 TGTATTGGATTAGATG
1 TGTAATGGATTAGAGG
*
18007764 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
18007780 TGTAATGGA
1 TGTAATGGA
18007789 AAAGCTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:18007798 original size:16 final size:16
Alignment explanation
Indices: 18007759--18007801 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
18007749 GTATTGGATT
*
18007759 AGATGTGTAATGGAAT
1 AGATGTGTAATGGAAA
*
18007775 AGAGGTGTAATGGAAA
1 AGATGTGTAATGGAAA
*
18007791 AGCTGTGTAAT
1 AGATGTGTAAT
18007802 AGCAAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.33, T:0.28
Consensus pattern (16 bp):
AGATGTGTAATGGAAA
Found at i:18007798 original size:32 final size:32
Alignment explanation
Indices: 18007732--18007801 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
18007722 TTTGGTTCGC
* * * **
18007732 TGTATTGGATTAGAGGTGTATTGGATTAGATG
1 TGTAATGGAATAGAGGTGTAATGGAAAAGATG
*
18007764 TGTAATGGAATAGAGGTGTAATGGAAAAGCTG
1 TGTAATGGAATAGAGGTGTAATGGAAAAGATG
18007796 TGTAAT
1 TGTAAT
18007802 AGCAAATCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.01, G:0.33, T:0.34
Consensus pattern (32 bp):
TGTAATGGAATAGAGGTGTAATGGAAAAGATG
Found at i:18008055 original size:18 final size:17
Alignment explanation
Indices: 18008034--18008068 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18008024 TTATTATTAA
*
18008034 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18008052 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18008069 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18008161 original size:15 final size:15
Alignment explanation
Indices: 18008133--18008173 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18008123 ATAAAATATA
18008133 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
18008148 TATTAAATATATTAT
1 AATTAAATATATTAT
18008163 AATTAAA-ATAT
1 AATTAAATATAT
18008174 CATGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:18008221 original size:122 final size:122
Alignment explanation
Indices: 18008017--18008311 Score: 499
Period size: 122 Copynumber: 2.4 Consensus size: 122
18008007 ATCATATTTA
18008017 AACATAATTATTATTAAATATATTTTAATTAAAATATAT-AATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATGAATTTAATAAAATTCTTAATAATCA
*
18008081 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
18008137 AACATAATTATTATTAAATATATTATAATTAAAATATCATGAATTTAATAAAATTCTTAATAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATAT-ATGAATTTAATAAAATTCTTAATAATC
*
18008202 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
65 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
18008260 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATG-ACTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATGAATTTAATAAAATT
18008312 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
120 48 0.29
121 5 0.03
122 110 0.67
123 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (122 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATGAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:18008357 original size:101 final size:92
Alignment explanation
Indices: 18008308--18008539 Score: 276
Period size: 91 Copynumber: 2.5 Consensus size: 92
18008298 GACTTAATAA
* *
18008308 AATTT-AAAATAATTATA-ACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTATACA-TAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAA
*
18008371 TATTACATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * * *
18008399 AATTTCATAAAATTCTTCATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTATACATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAATA
*
18008464 TTAAATATAATTTAA-TAATGATATAT
66 TTAAATATAATTTAATTAATAATATAT
* * * *
18008490 AATTTCATAAAATTCTTA-ATAATAAAATATTCTTATATGAATTCATATAA
1 AATTTCAAAAAATT-ATACATAATAAATTA-TCTTATATGAATTTATATAA
18008540 GATAATTTAT
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
91 99 0.81
92 23 0.19
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (92 bp):
AATTTCAAAAAATTATACATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:18008381 original size:26 final size:28
Alignment explanation
Indices: 18008352--18008412 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
18008342 TATGAATTTG
*
18008352 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
18008378 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
18008406 TAAAATT
1 TATAATT
18008413 CTTCATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:18008410 original size:47 final size:46
Alignment explanation
Indices: 18008359--18008502 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
18008349 TTGTATAATT
18008359 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
18008406 TAAAAT--TCT-TCA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
18008450 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
18008497 TAAAAT
1 TAAAAT
18008503 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:18008422 original size:91 final size:91
Alignment explanation
Indices: 18008327--18008532 Score: 331
Period size: 91 Copynumber: 2.3 Consensus size: 91
18008317 TAATTATAAC
* * * *
18008327 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
18008392 AATATATAATTTCATAAAATTCTTCA
66 AATATATAATTTCATAAAATTCTTAA
*
18008418 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
18008483 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
18008509 TAATAAAATATTCTTATATGAATT
1 TAATAAATTA-TCTTATATGAATT
18008533 CATATAAGAT
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 92 0.88
92 13 0.12
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (91 bp):
TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:18008494 original size:44 final size:43
Alignment explanation
Indices: 18008352--18008494 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
18008342 TATGAATTTG
* *
18008352 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
18008396 TATAATTTCATAAAATTCTTCATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
18008443 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
18008487 TATAATTT
1 TATAATTT
18008495 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:18008509 original size:47 final size:47
Alignment explanation
Indices: 18008377--18008515 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
18008367 TTATTATTAC
* *
18008377 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTCATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
18008424 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
18008468 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
18008515 A
1 A
18008516 ATATTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:18016638 original size:15 final size:15
Alignment explanation
Indices: 18016620--18016652 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18016610 AACAATTATG
18016620 TTTCTTCTTCTTCCT
1 TTTCTTCTTCTTCCT
*
18016635 TTTCTTTTTCTTCCT
1 TTTCTTCTTCTTCCT
18016650 TTT
1 TTT
18016653 GTAGTTACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCTTCTTCTTCCT
Found at i:18021591 original size:101 final size:101
Alignment explanation
Indices: 18021416--18021604 Score: 378
Period size: 101 Copynumber: 1.9 Consensus size: 101
18021406 AGATTGCATT
18021416 GTTTGAATTCCTTTAATCATGATTTCTGAAGTTGATTGGCCATGAGAATTGCTATGCCAATCTTC
1 GTTTGAATTCCTTTAATCATGATTTCTGAAGTTGATTGGCCATGAGAATTGCTATGCCAATCTTC
18021481 GGCTGTTTAAATTCCATAATGTTATTTAACATTTAA
66 GGCTGTTTAAATTCCATAATGTTATTTAACATTTAA
18021517 GTTTGAATTCCTTTAATCATGATTTCTGAAGTTGATTGGCCATGAGAATTGCTATGCCAATCTTC
1 GTTTGAATTCCTTTAATCATGATTTCTGAAGTTGATTGGCCATGAGAATTGCTATGCCAATCTTC
18021582 GGCTGTTTAAATTCCATAATGTT
66 GGCTGTTTAAATTCCATAATGTT
18021605 TAAATCACCC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 88 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (101 bp):
GTTTGAATTCCTTTAATCATGATTTCTGAAGTTGATTGGCCATGAGAATTGCTATGCCAATCTTC
GGCTGTTTAAATTCCATAATGTTATTTAACATTTAA
Found at i:18021873 original size:24 final size:23
Alignment explanation
Indices: 18021829--18021873 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
18021819 GGTACTGTAG
*
18021829 TTCATTTCATGTTATTTTGGTAT
1 TTCATTTCATGTTATTATGGTAT
* *
18021852 TTCATATTCTTGTTCTTATGGT
1 TTCAT-TTCATGTTATTATGGT
18021874 CAATTTCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.60
Consensus pattern (23 bp):
TTCATTTCATGTTATTATGGTAT
Found at i:18023515 original size:21 final size:21
Alignment explanation
Indices: 18023451--18023523 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
18023441 ATTTTGATTT
*
18023451 TGAATGATTGAATTTAGAAAA
1 TGAAAGATTGAATTTAGAAAA
** * ***
18023472 TGGGAGAGTG-ATTT-GATTG
1 TGAAAGATTGAATTTAGAAAA
18023491 TGAAAGATTGAATTTAGAAAA
1 TGAAAGATTGAATTTAGAAAA
18023512 TGAAAGATTGAA
1 TGAAAGATTGAA
18023524 CGTGCAAGTA
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 20 0.54
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (21 bp):
TGAAAGATTGAATTTAGAAAA
Found at i:18033123 original size:17 final size:18
Alignment explanation
Indices: 18033101--18033142 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
18033091 GACATATTAC
18033101 CCCTAATTTCTAATT-GG
1 CCCTAATTTCTAATTAGG
18033118 CCCTAATTTCTAATTAGG
1 CCCTAATTTCTAATTAGG
*
18033136 CCTTAAT
1 CCCTAAT
18033143 CAATTAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (18 bp):
CCCTAATTTCTAATTAGG
Found at i:18040923 original size:36 final size:37
Alignment explanation
Indices: 18040883--18040963 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 37
18040873 TGAAACATAG
*
18040883 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAATATA-AAAAATATGTAGTATATATATATATTATA
* *
18040919 AAAAT-TAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATATAAAAAATATGTA-GTATATATATATATTATA
18040956 AAACATAT
1 AAA-ATAT
18040964 GTATGTATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
34 8 0.22
35 2 0.05
36 16 0.43
37 8 0.22
38 2 0.05
39 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (37 bp):
AAAATATAAAAAATATGTAGTATATATATATATTATA
Found at i:18041520 original size:23 final size:24
Alignment explanation
Indices: 18041490--18041536 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
18041480 AAATTAAATC
18041490 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
18041513 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
18041537 AAGATTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:18041539 original size:21 final size:21
Alignment explanation
Indices: 18041513--18041567 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
18041503 AATCATATCT
18041513 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
18041534 TCTAAGATTTC--ATATCATA
1 TCTAAGATTGCATATATCATA
18041553 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
18041568 TCTTGAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:18041553 original size:24 final size:21
Alignment explanation
Indices: 18041490--18041555 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 21
18041480 AAATTAAATC
18041490 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC--AATCATATCT
*
18041513 TCTAAGATTGC-AT-ATATCAT
1 TCTAAGATTACAATCATATC-T
*
18041533 ATCTAAGATTTCATATCATATCT
1 -TCTAAGATTACA-ATCATATCT
18041556 AAGATTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
19 5 0.14
20 3 0.08
21 10 0.28
23 13 0.36
24 5 0.14
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (21 bp):
TCTAAGATTACAATCATATCT
Found at i:18043514 original size:46 final size:46
Alignment explanation
Indices: 18043402--18043611 Score: 302
Period size: 46 Copynumber: 4.6 Consensus size: 46
18043392 CTTACGTATG
*
18043402 ACCACTTATCACTT-GTC-CTTGATCAGATAAATGTAGCT-AGGCT
1 ACCACTTATCACTTCGTCACTTGATCAGATAAGTGTAGCTAAGGCT
* * *
18043445 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTCGTCACTTGATCAGATAAGTGTAGCTAAGGCT
18043491 ACCACTTATCACTTCGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTCGTCACTTGATCAGATAAGTGTAGCTAAGGCT
*
18043537 ACCACTTATCACTTTC-TCACTTGATCAGATAAGTGTAGCTAGGGCT
1 ACCACTTATCAC-TTCGTCACTTGATCAGATAAGTGTAGCTAAGGCT
* ** *
18043583 AACACTTATCACTTTATCTCTTGATCAGA
1 ACCACTTATCACTTCGTCACTTGATCAGA
18043612 AGTACTCAAA
Statistics
Matches: 152, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
43 13 0.09
44 3 0.02
45 22 0.14
46 111 0.73
47 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
ACCACTTATCACTTCGTCACTTGATCAGATAAGTGTAGCTAAGGCT
Found at i:18046826 original size:19 final size:19
Alignment explanation
Indices: 18046802--18046840 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18046792 ACTTTTCACG
18046802 GCACTTTTCAACTTCAAAA
1 GCACTTTTCAACTTCAAAA
18046821 GCACTTTTCAACTTCAAAA
1 GCACTTTTCAACTTCAAAA
18046840 G
1 G
18046841 TAAACTGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (19 bp):
GCACTTTTCAACTTCAAAA
Found at i:18049382 original size:42 final size:42
Alignment explanation
Indices: 18049273--18049400 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 42
18049263 AAGCTCGTAC
* * * *
18049273 GATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAAT-AT
* * *
18049316 GATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATATAT
1 GATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAT
* *
18049358 GATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACATAT
1 GATGCCAATGTCCCAGACATGGTCTTACACGT-AATCAAATAT
18049401 CGAAACCCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 30 0.41
43 43 0.59
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAT
Found at i:18058079 original size:37 final size:37
Alignment explanation
Indices: 18058018--18058163 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
18058008 TACGTATGAT
*
18058018 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
18058053 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
18058090 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
18058127 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
18058164 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 4 0.04
37 91 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:18058206 original size:52 final size:52
Alignment explanation
Indices: 18058127--18058395 Score: 370
Period size: 52 Copynumber: 5.2 Consensus size: 52
18058117 TAAGTGTAGC
* * ** *
18058127 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCATTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
18058180 CACTTTTCACTTGTCACTTGATCAGATAAATGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
18058232 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
18058284 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
18058330 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
18058382 CACTTTGTCACTTG
1 CACTTT-TCACTTG
18058396 ATCAGAAGTA
Statistics
Matches: 193, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
46 43 0.22
49 1 0.01
52 134 0.69
53 15 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:18058301 original size:46 final size:46
Alignment explanation
Indices: 18058229--18058401 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
18058219 AGCTATCACT
*
18058229 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
18058274 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
18058320 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
18058372 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
18058402 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:18058315 original size:98 final size:98
Alignment explanation
Indices: 18058127--18058401 Score: 397
Period size: 98 Copynumber: 2.7 Consensus size: 98
18058117 TAAGTGTAGC
* * *
18058127 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCATTTATCACTTTTCACTT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC---T---TT
*
18058192 GTCACTTGATCAGATAAATGTAGCCGAAGCTATCACTTAT
59 GTCACTTGATCAGATAAATATAGCCGAAGCTATCACTTAT
**
18058232 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
* *
18058297 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAATATAGCCGAAGCTATCACTTAT
* *
18058330 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
18058395 GATCAGA
66 GATCAGA
18058402 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
98 107 0.68
101 1 0.01
104 41 0.26
105 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAATATAGCCGAAGCTATCACTTAT
Found at i:18060373 original size:49 final size:50
Alignment explanation
Indices: 18060318--18060521 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
18060308 TTCGTTTTCT
*
18060318 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
18060367 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
18060416 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
18060474 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
18060522 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:18060488 original size:58 final size:59
Alignment explanation
Indices: 18060402--18060520 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
18060392 TACACGAAAT
18060402 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
18060460 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
18060519 CA
1 CA
18060521 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:18060501 original size:28 final size:28
Alignment explanation
Indices: 18060411--18060501 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
18060401 TCACATATCA
18060411 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
18060439 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
18060469 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
18060497 CTTAC
1 CTTAC
18060502 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:18061835 original size:37 final size:37
Alignment explanation
Indices: 18061774--18061919 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
18061764 TACGTATGAT
*
18061774 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
18061809 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
18061846 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
18061883 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
18061920 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 4 0.04
37 91 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:18061962 original size:52 final size:52
Alignment explanation
Indices: 18061883--18062151 Score: 370
Period size: 52 Copynumber: 5.2 Consensus size: 52
18061873 TAAGTGTAGC
* * ** *
18061883 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCATTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
18061936 CACTTTTCACTTGTCACTTGATCAGATAAATGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
18061988 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
18062040 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
18062086 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
18062138 CACTTTGTCACTTG
1 CACTTT-TCACTTG
18062152 ATCAGAAGTA
Statistics
Matches: 193, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
46 43 0.22
49 1 0.01
52 134 0.69
53 15 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:18062057 original size:46 final size:46
Alignment explanation
Indices: 18061985--18062157 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
18061975 AGCTATCACT
*
18061985 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
18062030 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
18062076 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
18062128 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
18062158 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:18062071 original size:98 final size:98
Alignment explanation
Indices: 18061883--18062157 Score: 397
Period size: 98 Copynumber: 2.7 Consensus size: 98
18061873 TAAGTGTAGC
* * *
18061883 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCATTTATCACTTTTCACTT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC---T---TT
*
18061948 GTCACTTGATCAGATAAATGTAGCCGAAGCTATCACTTAT
59 GTCACTTGATCAGATAAATATAGCCGAAGCTATCACTTAT
**
18061988 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
* *
18062053 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAATATAGCCGAAGCTATCACTTAT
* *
18062086 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
18062151 GATCAGA
66 GATCAGA
18062158 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
98 107 0.68
101 1 0.01
104 41 0.26
105 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAATATAGCCGAAGCTATCACTTAT
Found at i:18064733 original size:15 final size:15
Alignment explanation
Indices: 18064713--18064750 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
18064703 GTGTGACAGA
18064713 GCCCAGACCGTGTCG
1 GCCCAGACCGTGTCG
18064728 GCCCAGACCGTGTCG
1 GCCCAGACCGTGTCG
18064743 GCCCAGAC
1 GCCCAGAC
18064751 AAGGCCATGT
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:0.16, C:0.42, G:0.32, T:0.11
Consensus pattern (15 bp):
GCCCAGACCGTGTCG
Found at i:18067874 original size:21 final size:21
Alignment explanation
Indices: 18067825--18067876 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
18067815 AAATAAATAC
*
18067825 TAAAATCCTAAACCTTGAACT
1 TAAAATCCTAAACCCTGAACT
* * *
18067846 CAATATCCTAAACCCTGAGCT
1 TAAAATCCTAAACCCTGAACT
18067867 TAAAATCCTA
1 TAAAATCCTA
18067877 GATTTGAGAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.27
Consensus pattern (21 bp):
TAAAATCCTAAACCCTGAACT
Found at i:18068305 original size:10 final size:11
Alignment explanation
Indices: 18068269--18068305 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
18068259 AAAAAAATAA
18068269 AAAAAGTATTTT
1 AAAAA-TATTTT
18068281 AAAAATATTTT
1 AAAAATATTTT
18068292 -AAAAT-TTTT
1 AAAAATATTTT
18068301 AAAAA
1 AAAAA
18068306 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.17
10 9 0.38
11 6 0.25
12 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:18086971 original size:16 final size:17
Alignment explanation
Indices: 18086950--18086985 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18086940 TTTTTTGTTT
18086950 TTTGGGC-TAGGTTTAG
1 TTTGGGCTTAGGTTTAG
18086966 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
18086983 TTT
1 TTT
18086986 ATTGGGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.11, C:0.06, G:0.33, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:18087143 original size:27 final size:27
Alignment explanation
Indices: 18087103--18087160 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
18087093 TTGCTTTAAG
*
18087103 TTTTTTTTGATTGTTGTTTTACTGTCA
1 TTTTTTTTGATTGTTATTTTACTGTCA
*
18087130 TTTTGTTTTG-TTGTTATTTTATTGTCA
1 TTTT-TTTTGATTGTTATTTTACTGTCA
18087157 TTTT
1 TTTT
18087161 ATTATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.10, C:0.05, G:0.14, T:0.71
Consensus pattern (27 bp):
TTTTTTTTGATTGTTATTTTACTGTCA
Found at i:18088546 original size:10 final size:10
Alignment explanation
Indices: 18088504--18088547 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
18088494 TTTTTCAAAT
18088504 AATTATAAAA
1 AATTATAAAA
*
18088514 TATTA-AAAA
1 AATTATAAAA
* *
18088523 AATTATTAAG
1 AATTATAAAA
18088533 AATTATAAAA
1 AATTATAAAA
18088543 AATTA
1 AATTA
18088548 AAATTAATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
AATTATAAAA
Found at i:18088907 original size:20 final size:21
Alignment explanation
Indices: 18088884--18088922 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18088874 TATTTATTGT
18088884 AATTTTAA-ATGTTTTTATTA
1 AATTTTAATATGTTTTTATTA
*
18088904 AATTTTAATATTTTTTTAT
1 AATTTTAATATGTTTTTAT
18088923 AATTATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
AATTTTAATATGTTTTTATTA
Found at i:18088926 original size:19 final size:19
Alignment explanation
Indices: 18088883--18088926 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
18088873 ATATTTATTG
18088883 TAATTTTAAATGTTTTTAT
1 TAATTTTAAATGTTTTTAT
*
18088902 TAAATTTTAATATTTTTTTA-
1 T-AATTTTAA-ATGTTTTTAT
18088922 TAATT
1 TAATT
18088927 ATTTAAAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 9 0.41
21 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TAATTTTAAATGTTTTTAT
Found at i:18092121 original size:26 final size:26
Alignment explanation
Indices: 18092092--18092143 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18092082 TAAAAGAAAA
18092092 ACACAACGAAAAATGATTTAGAACAT
1 ACACAACGAAAAATGATTTAGAACAT
18092118 ACACAACGAAAAATGATTTAGAACAT
1 ACACAACGAAAAATGATTTAGAACAT
18092144 CTATTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.19
Consensus pattern (26 bp):
ACACAACGAAAAATGATTTAGAACAT
Found at i:18092633 original size:18 final size:18
Alignment explanation
Indices: 18092592--18092633 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18092582 CTTCGGAAGC
* *
18092592 TTCTTCTTCTCCTTCGGA
1 TTCTTCTTCGCCTTCAGA
*
18092610 TGCTTCTTCGCCTTCAGA
1 TTCTTCTTCGCCTTCAGA
18092628 TTCTTC
1 TTCTTC
18092634 GTCTTCTTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.33, G:0.12, T:0.48
Consensus pattern (18 bp):
TTCTTCTTCGCCTTCAGA
Found at i:18092846 original size:5 final size:5
Alignment explanation
Indices: 18092836--18092861 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18092826 TCTTTTCCCC
18092836 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
18092862 AACTTGAATA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:18095862 original size:43 final size:40
Alignment explanation
Indices: 18095789--18095932 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 40
18095779 AGCACCGCAT
* * *
18095789 TGCATCATCAGATAAATCGAAGGAAATATACTGGCACACATAG
1 TGCATCATCAGATAAA-CCAAAG-ATTATACT-GCACACATAG
*
18095832 TGCATCATCAGATAAACCAAAGTAGTTATAC--CACGCATAG
1 TGCATCATCAGATAAACCAAAG-A-TTATACTGCACACATAG
* * *
18095872 TGCATCATCGGATAAACCGAAAGATGAATACTGACACACATAA
1 TGCATCATCAGATAAACC-AAAGAT-TATACTG-CACACATAG
18095915 TGCATCATC-GAATAAACC
1 TGCATCATCAG-ATAAACC
18095933 GAAGGATGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 1 0.01
40 30 0.35
41 4 0.05
42 6 0.07
43 44 0.52
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (40 bp):
TGCATCATCAGATAAACCAAAGATTATACTGCACACATAG
Found at i:18095933 original size:43 final size:43
Alignment explanation
Indices: 18095867--18095953 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
18095857 TTATACCACG
* *
18095867 CATAGTGCATCATCGGATAAACCGAAAGATGAATACTGACACA
1 CATAATGCATCATCGAATAAACCGAAAGATGAATACTGACACA
*
18095910 CATAATGCATCATCGAATAAACCGAAGGATGAATACTGACACA
1 CATAATGCATCATCGAATAAACCGAAAGATGAATACTGACACA
18095953 C
1 C
18095954 TATACTAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (43 bp):
CATAATGCATCATCGAATAAACCGAAAGATGAATACTGACACA
Found at i:18095986 original size:56 final size:56
Alignment explanation
Indices: 18095899--18096009 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
18095889 CGAAAGATGA
* *
18095899 ATACTGACACACATAATGCATCATCGAATAAACCGAAGGA-TGAATACTGACACACT
1 ATACTAACACACATAATGCATCATCGAATAAACCGAAGCAGT-AATACTGACACACT
* * * *
18095955 ATACTAACACACATAGTGCATCATCGGATAAATCGAAGCAGTTATACTGACACAC
1 ATACTAACACACATAATGCATCATCGAATAAACCGAAGCAGTAATACTGACACAC
18096010 ATCATTGGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
56 47 0.98
57 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.21
Consensus pattern (56 bp):
ATACTAACACACATAATGCATCATCGAATAAACCGAAGCAGTAATACTGACACACT
Found at i:18096807 original size:16 final size:16
Alignment explanation
Indices: 18096786--18096837 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
18096776 TTTGGTTCGC
18096786 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18096802 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
18096818 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
18096834 TGTA
1 TGTA
18096838 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18096884 original size:45 final size:44
Alignment explanation
Indices: 18096818--18096912 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
18096808 GGATTAGAGG
* *
18096818 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
18096863 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
18096907 TGTAAT
1 TGTAAT
18096913 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:18097082 original size:25 final size:25
Alignment explanation
Indices: 18097050--18097104 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
18097040 TAATTTAATC
*
18097050 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
18097074 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
18097099 ATATAT
1 ATATAT
18097105 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:18097286 original size:47 final size:46
Alignment explanation
Indices: 18097235--18097395 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
18097225 GATTTAATAA
18097235 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
18097282 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
18097323 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
18097370 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
18097396 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:18103130 original size:107 final size:105
Alignment explanation
Indices: 18102928--18103138 Score: 323
Period size: 107 Copynumber: 2.0 Consensus size: 105
18102918 TGAATTGAGA
* * * * * *
18102928 TTTAAGAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAATCCAGCACATTAGGGCACGTTC
1 TTTAAAAGGATACTTAGCTATTTGGTCAAACGAAAAATCGAAACCCAGCACATTAAGGCACGTTC
18102993 CTCGAATTTCCAAACGCAAAATATTATCTTACTTTGAAAT
66 CTCGAATTTCCAAACGCAAAATATTATCTTACTTTGAAAT
*
18103033 TTTAAAAGGATACTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAAGGCACGTT
1 TTTAAAAGGATACTTAGCTATTTGGTCAAACG-AAAAATCGAAACCCAGCACATTAAGGCACG-T
* *
18103098 TTCTCGAATTTCCAAACGCAAAATATTGTCTTACTTTGAAA
64 TCCTCGAATTTCCAAACGCAAAATATTATCTTACTTTGAAA
18103139 AATTTTCCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 28 0.29
106 27 0.28
107 40 0.42
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (105 bp):
TTTAAAAGGATACTTAGCTATTTGGTCAAACGAAAAATCGAAACCCAGCACATTAAGGCACGTTC
CTCGAATTTCCAAACGCAAAATATTATCTTACTTTGAAAT
Found at i:18103368 original size:22 final size:22
Alignment explanation
Indices: 18103344--18103385 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18103334 CATAAAGTAA
*
18103344 AAAATA-ATAATAATAATAAAT
1 AAAATAGATAAAAATAATAAAT
*
18103365 AAAATAGATAAAAATTATAAA
1 AAAATAGATAAAAATAATAAA
18103386 ATATGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATAGATAAAAATAATAAAT
Found at i:18110485 original size:101 final size:100
Alignment explanation
Indices: 18110311--18110512 Score: 314
Period size: 101 Copynumber: 2.0 Consensus size: 100
18110301 GACTTCACTT
* ** * *
18110311 CCTCTTCGTCCACTCTGTAGCGCTTCTTTAGTCTGTCCCATTTGTCATGGTATTCATTCCACACA
1 CCTCTTCATCCACTCCATAGCGCTTCTTCAGTCTGTCCCACTTGTCATGGTATTCATTCCACACA
18110376 TAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
66 TAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
* ***
18110411 CCTCTTCATCCACTCCATAGCGCTTGCTTCAGTCTGTTCCACTTGTCATGGTATTCATTTTGCAC
1 CCTCTTCATCCACTCCATAGCGCTT-CTTCAGTCTGTCCCACTTGTCATGGTATTCATTCCACAC
18110476 ATAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
65 ATAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
18110512 C
1 C
18110513 TATTCTACTA
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 22 0.24
101 70 0.76
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (100 bp):
CCTCTTCATCCACTCCATAGCGCTTCTTCAGTCTGTCCCACTTGTCATGGTATTCATTCCACACA
TAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
Found at i:18116425 original size:41 final size:41
Alignment explanation
Indices: 18116368--18116448 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
18116358 AACTCGAATG
* * *
18116368 TTCAGTTGTTTGGATGAAAATAGGTTTTTAATTAAATAAAT
1 TTCAATTGTTAGGATGAAAATAGATTTTTAATTAAATAAAT
*
18116409 TTCAATTGTTAGGATGAAAATATATTTTTAATTAAATAAA
1 TTCAATTGTTAGGATGAAAATAGATTTTTAATTAAATAAA
18116449 ATTAATTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (41 bp):
TTCAATTGTTAGGATGAAAATAGATTTTTAATTAAATAAAT
Found at i:18119640 original size:100 final size:100
Alignment explanation
Indices: 18119501--18120154 Score: 923
Period size: 100 Copynumber: 6.5 Consensus size: 100
18119491 CTTAAACTTA
* * * *
18119501 TTAATTGCGCTGTCGGAGAAAACCAGATCCGCCGCTGTGACTTCAATCCGCTCCACTACACCGCC
1 TTAATTGCGCTGTCGG-GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCC
** * **
18119566 AGAAAAGTAAGATCCGCCATTGTCACTTCAATCTTT
65 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
** *
18119602 TTAATTGCGCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTACACCGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
* *
18119667 GAGAAGTAAGATCCGTCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
* * * * * *
18119702 TAAATTGCGCTGTTGGGGAAACCAAATCTGCCGTTGTGACTTCAATCTGCTCCGCTGTACCGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
* *
18119767 GGGAAAGTAAGATCCGTCGTTGTGGCTTTAATC-TT
66 GGG-AAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
* * * *
18119802 TTAATTGCGCTGTCGGGGAAACCAGATCCGCTGTTTTGACTTCAATCTGCTCCGCTGCACAGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
18119867 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
** *
18119902 GAAATTACGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
* *
18119967 GTGAAGTAAGATCCGCCGTTGTGGCTTTAATCTTT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
* * * * *
18120002 TAAATTGCACTGTTGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
*
18120067 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATATTT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
***
18120102 TTAATTGCGCTGTCGAATAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCC
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCC
18120155 GCTACAACGC
Statistics
Matches: 495, Mismatches: 56, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
99 27 0.05
100 425 0.86
101 43 0.09
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (100 bp):
TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
Found at i:18119679 original size:50 final size:50
Alignment explanation
Indices: 18119525--18120097 Score: 317
Period size: 50 Copynumber: 11.5 Consensus size: 50
18119515 GGAGAAAACC
* * * * **
18119525 AGATCCGCCGCTGTGACTTCAATCCGCTCCACTACACCGCCAGAAAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * ** ** * * * * ***
18119575 AGATCCGCCATTGTCACTTCAATCTTTTTAATTGCGCTGTC-GAAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAG-GGAAGTA
* * *
18119625 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGAGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * ** ** * * *** **
18119675 AGATCCGTCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTTGGGGAAACCA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGG-AAGTA
* * * *
18119726 A-ATCTGCCGTTGTGACTTCAATCTGCTCCGCTGTACCGCCAGGGAAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGG-AAGTA
* * * * ** * * * * ***
18119776 AGATCCGTCGTTGTGGCTTTAATCT-TTTAATTGCGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * * *
18119825 AGATCCGCTGTTTTGACTTCAATCTGCTCCGCTGCACAGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * ** * * * * * ***
18119875 AGATCCGCCGTTGTGGCTTCAATCT-TTGAAATTACGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCT-CCACTGCACTGCCAGGGAAGTA
* *
18119925 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGTGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * ** ** * *** ***
18119975 AGATCCGCCGTTGTGGCTTTAATCTTTTAAATTGCACTGTTGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
*
18120025 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
*
18120075 AGATCCGCCGTTGTGGCTTCAAT
1 AGATCCGCCGTTGTGACTTCAAT
18120098 ATTTTTAATT
Statistics
Matches: 357, Mismatches: 159, Indels: 14
0.67 0.30 0.03
Matches are distributed among these distances:
49 24 0.07
50 308 0.86
51 25 0.07
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
Done.