Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 159 of 182
Found at i:48728612 original size:30 final size:30
Alignment explanation
Indices: 48728576--48728713 Score: 95
Period size: 30 Copynumber: 4.6 Consensus size: 30
48728566 GGACCTCAAA
* *
48728576 AAGTTTAAGTACTAACTTA-AAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAAAAA-TGTC
* *
48728606 AAGTTTAGGTACCAAATTAGGAAAAATGTC
1 AAGTTTAAGTACCAAATTAGAAAAAATGTC
** * **
48728636 AAGTTCGAGTACCAAATTGGACCAAAAA--AA
1 AAGTTTAAGTACCAAATTAGA--AAAAATGTC
* *
48728666 AAGTTTAGGTACCAAATTA-AGAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGA-AAAAATGTC
* *
48728696 AAGTTCAGGTACCAAATT
1 AAGTTTAAGTACCAAATT
48728714 TATATTAAGC
Statistics
Matches: 83, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
28 4 0.05
29 1 0.01
30 68 0.82
31 5 0.06
32 5 0.06
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (30 bp):
AAGTTTAAGTACCAAATTAGAAAAAATGTC
Found at i:48728706 original size:90 final size:88
Alignment explanation
Indices: 48728526--48728713 Score: 243
Period size: 90 Copynumber: 2.1 Consensus size: 88
48728516 AACAAATTAA
* ** *
48728526 GTACCAAATTAAAAAAAAAGTTAAGTTCAGGTACCAAATTGGACCTCAAAAAGTTTAAGTACTAA
1 GTACCAAATTAAAAAAAAAGTCAAGTTCAGGTACCAAATTGGACCAAAAAAAGTTTAAGTACCAA
* *
48728591 CTTAAAAAAAGTGTCAAGTTTAG
66 ATTAAAAAAAGTGTCAAGTTCAG
** * *
48728614 GTACCAAATTAGGAAAAATGTCAAGTTC-GAGTACCAAATTGGACCAAAAAAAAAGTTTAGGTAC
1 GTACCAAATTAAAAAAAAAGTCAAGTTCAG-GTACCAAATTGGACC--AAAAAAAGTTTAAGTAC
*
48728678 CAAATTAAGAAAAGTGTCAAGTTCAG
63 CAAATTAAAAAAAGTGTCAAGTTCAG
48728704 GTACCAAATT
1 GTACCAAATT
48728714 TATATTAAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 1 0.01
88 39 0.45
90 46 0.53
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.24
Consensus pattern (88 bp):
GTACCAAATTAAAAAAAAAGTCAAGTTCAGGTACCAAATTGGACCAAAAAAAGTTTAAGTACCAA
ATTAAAAAAAGTGTCAAGTTCAG
Found at i:48740722 original size:36 final size:36
Alignment explanation
Indices: 48740670--48740749 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
48740660 AAGTCTCTAC
*
48740670 TCCACGGTTGAACGATCAAGTAATGGCCGTAAATCA
1 TCCAAGGTTGAACGATCAAGTAATGGCCGTAAATCA
48740706 TCCAAGGTTGAACGATCAAGTAATGGCCGTAAATCA
1 TCCAAGGTTGAACGATCAAGTAATGGCCGTAAATCA
48740742 TCCAAGGT
1 TCCAAGGT
48740750 CCTCCCATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (36 bp):
TCCAAGGTTGAACGATCAAGTAATGGCCGTAAATCA
Found at i:48744478 original size:25 final size:24
Alignment explanation
Indices: 48744450--48744505 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
48744440 TTTTACATAT
48744450 ATGAATTAATTTTTTAACAATAAAA
1 ATGAATTAATTTTTTAACAA-AAAA
* *
48744475 ATGAATGACTTTTTTAACAAAAAA
1 ATGAATTAATTTTTTAACAAAAAA
*
48744499 ATCAATT
1 ATGAATT
48744506 TTCTTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (24 bp):
ATGAATTAATTTTTTAACAAAAAA
Found at i:48745710 original size:22 final size:22
Alignment explanation
Indices: 48745689--48745739 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
48745679 TTCTAAAATT
* *
48745689 TTTATTTTAT-AAA-TTATTAA
1 TTTATTTTTTAAAATTTATAAA
48745709 TTTATTTTTTAAAATTTATAAA
1 TTTATTTTTTAAAATTTATAAA
48745731 TTTATTTTT
1 TTTATTTTT
48745740 AATACATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
21 3 0.11
22 15 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTATTTTTTAAAATTTATAAA
Found at i:48746015 original size:6 final size:6
Alignment explanation
Indices: 48745997--48746085 Score: 89
Period size: 6 Copynumber: 15.0 Consensus size: 6
48745987 TTAAATTGAT
48745997 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A
* *
48746044 TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
48746086 ACAAATTTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
4 6 0.09
5 5 0.07
6 47 0.67
7 6 0.09
8 6 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:48746015 original size:17 final size:16
Alignment explanation
Indices: 48745997--48746085 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 16
48745987 TTAAATTGAT
48745997 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
48746013 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
*
48746030 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
48746044 TTTAAATTTACCTTAAA
1 TTTAAATTTA-TTTAAA
48746061 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
48746079 TTATAAA
1 TT-TAAA
48746086 ACAAATTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
14 11 0.17
15 2 0.03
16 13 0.21
17 25 0.40
18 7 0.11
19 5 0.08
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:48746028 original size:11 final size:11
Alignment explanation
Indices: 48746014--48746064 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
48746004 TTATTTAAAT
48746014 TTAAATTTATC
1 TTAAATTTATC
**
48746025 TTAAATTTAAA
1 TTAAATTTATC
*
48746036 TTTAA-TTAT-
1 TTAAATTTATC
*
48746045 TTAAATTTACC
1 TTAAATTTATC
48746056 TTAAATTTA
1 TTAAATTTA
48746065 AATTTAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 4 0.12
10 6 0.19
11 22 0.69
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAAATTTATC
Found at i:48746050 original size:37 final size:38
Alignment explanation
Indices: 48745997--48746082 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 38
48745987 TTAAATTGAT
*
48745997 TTTAAATTTATTTAAATTTAAATT-TATCTTAAATTTAAA
1 TTTAAA-TTATTTAAATTTAAATTAAAT-TTAAATTTAAA
**
48746036 TTT-AATTATTTAAATTTACCTTAAATTTAAATTTAAA
1 TTTAAATTATTTAAATTTAAATTAAATTTAAATTTAAA
48746073 TTTAAATTAT
1 TTTAAATTAT
48746083 AAAACAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 29 0.69
38 10 0.24
39 3 0.07
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (38 bp):
TTTAAATTATTTAAATTTAAATTAAATTTAAATTTAAA
Found at i:48746833 original size:3 final size:3
Alignment explanation
Indices: 48746825--48746860 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
48746815 TGAAAGACAT
*
48746825 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48746861 AAAAAAACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:48748040 original size:29 final size:30
Alignment explanation
Indices: 48747933--48748028 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
48747923 TAAATTGTCT
*
48747933 AAAATTATATTTTGACCCTAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
48747963 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
*
48747993 AAAATTATATTTTGACCCCAAAAC-TTTCA
1 AAAATTATATTTTGACCCCAAAACTTTTCC
48748022 AAAATTA
1 AAAATTA
48748029 CCATTTTACC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 11 0.17
30 53 0.83
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTATATTTTGACCCCAAAACTTTTCC
Found at i:48748163 original size:59 final size:59
Alignment explanation
Indices: 48748022--48748387 Score: 531
Period size: 59 Copynumber: 6.2 Consensus size: 59
48748012 AAAACTTTCA
* * * ** *
48748022 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTAAACATCGATTTCACTG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
*
48748080 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCATCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* * * * *
48748139 AAAATTACCATTTTACCCCTGAAGCTTCTAAAATTTCGTTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* *
48748198 AAAATTACCATTTGACCCCCGAAGTTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* *
48748257 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGACTACACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* * *
48748316 AAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTAT-ACC-
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATT-TCACCG
48748374 AAAATTACCATTTT
1 AAAATTACCATTTT
48748388 GCCCTCGGGT
Statistics
Matches: 276, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
58 49 0.18
59 227 0.82
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
Found at i:48748377 original size:29 final size:30
Alignment explanation
Indices: 48748080--48748387 Score: 124
Period size: 29 Copynumber: 10.5 Consensus size: 30
48748070 GATTTCACTG
* ** * *
48748080 AAAATTACCA-TTTTACCCCCGAAGCTTCT
1 AAAATTACCATTTTTAACCCCGAATATACC
* *
48748109 AAAATT-CCATTTTTAACCCCG-ATTTCATCG
1 AAAATTACCATTTTTAACCCCGAATAT-A-CC
** * *
48748139 AAAATTACCA-TTTT-ACCCCTGAAGCTTCT
1 AAAATTACCATTTTTAACCCC-GAATATACC
* * * *
48748168 AAAATT-TCGTTTTTAACCTCG-ATTTCACC
1 AAAATTACCATTTTTAACCCCGAATAT-ACC
* * * *
48748197 AAAAATTACCA-TTTGACCCCCGAAGT-TTCT
1 -AAAATTACCATTTTTAACCCCGAA-TATACC
*
48748227 AAAATT-CCATTTTTAACCCCG-ATTTCACC
1 AAAATTACCATTTTTAACCCCGAATAT-ACC
* ** * *
48748256 GAAAATTACCA-TTTTACCCCCGAAGCTTCT
1 -AAAATTACCATTTTTAACCCCGAATATACC
* *
48748286 AAAATT-CCATTTTTAACCCCGACTACACC
1 AAAATTACCATTTTTAACCCCGAATATACC
* * * ***
48748315 GAAAATTGCCA-TTTTACCCCCGAATCTTTT
1 -AAAATTACCATTTTTAACCCCGAATATACC
*
48748345 AAAATT-CCATTTTTAACCCCGATTATACC
1 AAAATTACCATTTTTAACCCCGAATATACC
48748374 AAAATTACCATTTT
1 AAAATTACCATTTT
48748388 GCCCTCGGGT
Statistics
Matches: 203, Mismatches: 52, Indels: 47
0.67 0.17 0.16
Matches are distributed among these distances:
27 1 0.00
28 19 0.09
29 93 0.46
30 73 0.36
31 16 0.08
32 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (30 bp):
AAAATTACCATTTTTAACCCCGAATATACC
Found at i:48760451 original size:68 final size:68
Alignment explanation
Indices: 48760342--48760998 Score: 640
Period size: 68 Copynumber: 9.5 Consensus size: 68
48760332 GGTCACCAAT
* * * *
48760342 GTCATCCCCTCGAAATTGATGTAGAGTGGATAGCACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
48760407 AAC
66 AAC
* *
48760410 GTCATTCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCCCCTTGAAATTGAAGTAGAG
1 GTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCAT-CTC-TGAAATTGAAGTA-AG
* *
48760475 TGGATAAC
63 -AG-CAAC
* ** * ** * **
48760483 AGGTCTTTATCTCCGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT-TGAAATTGAAGTAGA
1 --GTCATTCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A
**
48760542 GTGGATAACAC
62 ---GAGCA-AC
* *
48760553 GTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCTGAAATTGAAGTAAGA
1 GTCAT--TCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
*
48760618 GCAAT
64 GCAAC
* * *
48760623 GTCATCCCCCTGAAATTGAAGTAGAGTGGATAACACGTC--C-CCT-TGAAATTGAAGTAGAGTG
1 GTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A---
**
48760684 GATAACAC
62 GAGCA-AC
* * *
48760692 GTCTTCATCCCTTGAAATCGAAGTAGAGTGGATAGA-ACGTCTTCATCTCCGAAATTGAAGTAAG
1 GTCAT--TCCCTTGAAATTGAAGTAGAGTGGATA-ACACGTCTTCATCTCTGAAATTGAAGTAAG
*
48760756 AGCAAT
63 AGCAAC
* *
48760762 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
1 GTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
48760827 AAC
66 AAC
* *
48760830 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
1 GTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
48760895 AAC
66 AAC
48760898 GTCA-TCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAACG-
1 GTCATTCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA-GA
*
48760961 GCAGC
64 GCAAC
*
48760966 GTCA-TCCTCTTGAAATTGAAGTAAAGTTGGATA
1 GTCATTCC-CTTGAAATTGAAGTAGAG-TGGATA
48760999 GCGAAGTCTT
Statistics
Matches: 494, Mismatches: 58, Indels: 73
0.79 0.09 0.12
Matches are distributed among these distances:
64 13 0.03
65 3 0.01
66 1 0.00
67 4 0.01
68 301 0.61
69 28 0.06
70 30 0.06
71 44 0.09
72 5 0.01
73 7 0.01
74 13 0.03
75 33 0.07
76 12 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (68 bp):
GTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
AAC
Found at i:48760697 original size:139 final size:139
Alignment explanation
Indices: 48760521--48760936 Score: 639
Period size: 139 Copynumber: 3.0 Consensus size: 139
48760511 AGCAACGTCA
48760521 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGAT
1 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGAT
* *
48760586 AAAACGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCCTGAAATTGAAGTAGAGTG
66 AAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTG
48760651 GATAACACG
131 GATAACACG
*
48760660 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATCGAAGTAGAGTGGAT
1 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGAT
*
48760725 AGAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTG
66 AAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTG
48760790 GATAACACG
131 GATAACACG
* * ** *
48760799 TCTTCATCTCCGAAATTGAAGTA-A---GAGCA-ACGTCATC--CCCTTGAAATTGAAGTAGAGT
1 TC--C-CCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGT
* * *
48760857 GGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTCATCCCTTTGAAATTGAAGTAG
62 GGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAG
48760922 AGTGGATAACACG
127 AGTGGATAACACG
48760935 TC
1 TC
48760937 TTCATCTCTG
Statistics
Matches: 259, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
136 96 0.37
138 7 0.03
139 140 0.54
141 1 0.00
142 3 0.01
143 12 0.05
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (139 bp):
TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGAT
AAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTG
GATAACACG
Found at i:48760802 original size:207 final size:208
Alignment explanation
Indices: 48760342--48760998 Score: 733
Period size: 207 Copynumber: 3.2 Consensus size: 208
48760332 GGTCACCAAT
* * *
48760342 GTCATCCCCTCGAAATTGATGTAGAGTGGATAGCACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
* *
48760407 AACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCCCCTTGAAATTGAAGTA
66 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG------TCCCCTTGAAATTGAAGTA
* * * **
48760472 GAGTGGATAACAGGTCTTTATCTCC--GAAATTGAAGTA-A---G--AGCAACGTCATCCCCT-T
125 GAGTGGATAACACGTCTTCATC-CCTTGAAATTGAAGTAGAGTGGATAG-AACGTCTTCATCTCT
**
48760528 GAAATTGAAGTAGAGTGGATAACAC
188 GAAATTGAAGTA-A--GGAGCA-AC
* *
48760553 GTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCTGAAATTGAAGTAAGA
1 GTCATC--CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
* *
48760618 GCAATGTCATCCCCCTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGT
64 GCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGT
* *
48760683 GGATAACACGTCTTCATCCCTTGAAATCGAAGTAGAGTGGATAGAACGTCTTCATCTCCGAAATT
129 GGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAGAACGTCTTCATCTCTGAAATT
*
48760748 GAAGTAA-GAGCAAT
194 GAAGTAAGGAGCAAC
*
48760762 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
* *
48760827 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTA-A
66 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTC--C-CCT-TGAAATTGAAGTAGA
**
48760891 ---GAGCA-ACG---TCATCCCTTTGAAATTGAAGTAGAGTGGATA-ACACGTCTTCATCTCTGA
127 GTGGATAACACGTCTTCATCCC-TTGAAATTGAAGTAGAGTGGATAGA-ACGTCTTCATCTCTGA
* *
48760948 AATTGAAGTAACG-GCAGC
190 AATTGAAGTAAGGAGCAAC
* *
48760966 GTCATCCTCTTGAAATTGAAGTAAAGTTGGATA
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATA
48760999 GCGAAGTCTT
Statistics
Matches: 393, Mismatches: 34, Indels: 44
0.83 0.07 0.09
Matches are distributed among these distances:
203 8 0.02
204 75 0.19
205 7 0.02
206 5 0.01
207 139 0.35
208 11 0.03
209 8 0.02
210 6 0.02
211 17 0.04
212 1 0.00
213 102 0.26
214 14 0.04
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (208 bp):
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGG
ATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAGAACGTCTTCATCTCTGAAATTGA
AGTAAGGAGCAAC
Found at i:48761314 original size:6 final size:6
Alignment explanation
Indices: 48761296--48761384 Score: 89
Period size: 6 Copynumber: 15.0 Consensus size: 6
48761286 TTAAATTGAT
48761296 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A
* *
48761343 TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
48761385 ACAAATTTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
4 6 0.09
5 5 0.07
6 47 0.67
7 6 0.09
8 6 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:48761314 original size:17 final size:16
Alignment explanation
Indices: 48761296--48761384 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 16
48761286 TTAAATTGAT
48761296 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
48761312 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
*
48761329 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
48761343 TTTAAATTTACCTTAAA
1 TTTAAATTTA-TTTAAA
48761360 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
48761378 TTATAAA
1 TT-TAAA
48761385 ACAAATTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
14 11 0.17
15 2 0.03
16 13 0.21
17 25 0.40
18 7 0.11
19 5 0.08
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:48761327 original size:11 final size:11
Alignment explanation
Indices: 48761313--48761363 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
48761303 TTATTTAAAT
48761313 TTAAATTTATC
1 TTAAATTTATC
**
48761324 TTAAATTTAAA
1 TTAAATTTATC
*
48761335 TTTAA-TTAT-
1 TTAAATTTATC
*
48761344 TTAAATTTACC
1 TTAAATTTATC
48761355 TTAAATTTA
1 TTAAATTTA
48761364 AATTTAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 4 0.12
10 6 0.19
11 22 0.69
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAAATTTATC
Found at i:48761349 original size:37 final size:38
Alignment explanation
Indices: 48761296--48761381 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 38
48761286 TTAAATTGAT
*
48761296 TTTAAATTTATTTAAATTTAAATT-TATCTTAAATTTAAA
1 TTTAAA-TTATTTAAATTTAAATTAAAT-TTAAATTTAAA
**
48761335 TTT-AATTATTTAAATTTACCTTAAATTTAAATTTAAA
1 TTTAAATTATTTAAATTTAAATTAAATTTAAATTTAAA
48761372 TTTAAATTAT
1 TTTAAATTAT
48761382 AAAACAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 29 0.69
38 10 0.24
39 3 0.07
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (38 bp):
TTTAAATTATTTAAATTTAAATTAAATTTAAATTTAAA
Found at i:48762122 original size:3 final size:3
Alignment explanation
Indices: 48762114--48762158 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
48762104 TGAAAGACAT
*
48762114 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48762159 AAAAAAACTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:48763262 original size:30 final size:30
Alignment explanation
Indices: 48763228--48763367 Score: 169
Period size: 30 Copynumber: 4.7 Consensus size: 30
48763218 CCCTAAATTG
48763228 TCCAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTATATTTTAACCCCAAAACTTT
*
48763258 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTAACCCCAAAACTTT
* *
48763288 TCCAAAATTACATTTTGACCCCAAAAC-TT
1 TCCAAAATTATATTTTAACCCCAAAACTTT
* * * * *
48763317 TCAAAAATTACCATTTTACCCCCGAATCTTT
1 TCCAAAATTA-TATTTTAACCCCAAAACTTT
*
48763348 T--AAAATTCTATTTTAACCCC
1 TCCAAAATTATATTTTAACCCC
48763368 GATTTCACTG
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
28 10 0.10
29 17 0.17
30 68 0.69
31 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (30 bp):
TCCAAAATTATATTTTAACCCCAAAACTTT
Found at i:48763352 original size:29 final size:28
Alignment explanation
Indices: 48763291--48763605 Score: 186
Period size: 29 Copynumber: 10.8 Consensus size: 28
48763281 AAACTTTTCC
* * * * *
48763291 AAAATTACATTTTGACCCCAAAACTTTCA
1 AAAATTCCATTTTAACCCCGAATC-TTCT
* *
48763320 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATT-CCATTTTAACCCCGAATCTTCT
*
48763349 AAAATTCTATTTTAACCCCG-AT-TTCACT
1 AAAATTCCATTTTAACCCCGAATCTT--CT
* *
48763377 GAAAATTACCATTTTACCCCCGAAGCTTCT
1 -AAAATT-CCATTTTAACCCCGAATCTTCT
* * ** *
48763407 AAAATTCCGTTTTTAACCCCGATTTCACCG
1 AAAATTCC-ATTTTAACCCCGA-ATCTTCT
* *
48763437 AAAATTACCATTTGACCCCCGAAGT-TTCT
1 AAAATT-CCATTTTAACCCCGAA-TCTTCT
* ** *
48763466 AAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTCCA-TTTTAACCCCGA-ATCTTCT
* *
48763496 AAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATT-CCATTTTAACCCCGAATCTTCT
* ** * *
48763525 AAAATTCCGTTTTTAACCCCGTCTACGTCG
1 AAAATTCC-ATTTTAACCCCGAAT-CTTCT
* *
48763555 AAAATTGCCATTTTACCCCCGAATCTTTT
1 AAAATT-CCATTTTAACCCCGAATCTTCT
48763584 AAAATTCCATTTTTAACCCCGA
1 AAAATTCCA-TTTTAACCCCGA
48763606 TTACACCAAA
Statistics
Matches: 213, Mismatches: 54, Indels: 38
0.70 0.18 0.12
Matches are distributed among these distances:
26 2 0.01
27 2 0.01
28 23 0.11
29 92 0.43
30 84 0.39
31 8 0.04
32 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (28 bp):
AAAATTCCATTTTAACCCCGAATCTTCT
Found at i:48763448 original size:59 final size:59
Alignment explanation
Indices: 48763320--48763633 Score: 456
Period size: 59 Copynumber: 5.4 Consensus size: 59
48763310 AAAACTTTCA
* * * *
48763320 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCTA-TTTTAACCCCGATTTCACTG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
*
48763378 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* *
48763437 AAAATTACCATTTGACCCCCGAAGTTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* *
48763496 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCG-TCT-ACGTCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC--CG
* * * *
48763555 AAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACACC-
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
*
48763613 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
48763634 GGTATCCATA
Statistics
Matches: 231, Mismatches: 20, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
57 2 0.01
58 55 0.24
59 171 0.74
60 1 0.00
61 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
Found at i:48773660 original size:16 final size:16
Alignment explanation
Indices: 48773639--48773673 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
48773629 ACTTTATCAA
48773639 CAACTTGTT-CAGGTTC
1 CAACTTGTTCCA-GTTC
48773655 CAACTTGTTCCAGTTC
1 CAACTTGTTCCAGTTC
48773671 CAA
1 CAA
48773674 GCTGATGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (16 bp):
CAACTTGTTCCAGTTC
Found at i:48778413 original size:22 final size:21
Alignment explanation
Indices: 48778385--48778456 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 21
48778375 ATTTATATTG
48778385 TTGTTTTGGTGCTCTTTTTTTA
1 TTGTTTTGGTGCT-TTTTTTTA
*
48778407 TTGTTTTGGTTGCTATTTTTTA
1 TTGTTTTGG-TGCTTTTTTTTA
* *
48778429 CTGTTTGGGTG-TTATTTTTTA
1 TTGTTTTGGTGCTT-TTTTTTA
48778450 TTGTTTT
1 TTGTTTT
48778457 AATTGTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
20 1 0.02
21 14 0.33
22 23 0.55
23 4 0.10
ACGTcount: A:0.07, C:0.06, G:0.19, T:0.68
Consensus pattern (21 bp):
TTGTTTTGGTGCTTTTTTTTA
Found at i:48778435 original size:21 final size:21
Alignment explanation
Indices: 48778385--48778455 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
48778375 ATTTATATTG
* *
48778385 TTGTTTTGGTGCTCTTTTTTTA
1 TTGTTTGGGTGCT-ATTTTTTA
*
48778407 TTGTTTTGGTTGCTATTTTTTA
1 TTG-TTTGGGTGCTATTTTTTA
* *
48778429 CTGTTTGGGTGTTATTTTTTA
1 TTGTTTGGGTGCTATTTTTTA
48778450 TTGTTT
1 TTGTTT
48778456 TAATTGTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 21 0.51
22 12 0.29
23 8 0.20
ACGTcount: A:0.07, C:0.06, G:0.20, T:0.68
Consensus pattern (21 bp):
TTGTTTGGGTGCTATTTTTTA
Found at i:48778463 original size:22 final size:22
Alignment explanation
Indices: 48778400--48778468 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
48778390 TTGGTGCTCT
*
48778400 TTTTTTATTGTTTTGGTTGCTA
1 TTTTTTATTGTTTTGGTTGTTA
* *
48778422 TTTTTTACTG-TTTGGGTGTTA
1 TTTTTTATTGTTTTGGTTGTTA
**
48778443 TTTTTTATTGTTTTAATTGTTA
1 TTTTTTATTGTTTTGGTTGTTA
48778465 TTTT
1 TTTT
48778469 GATGCTGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 18 0.46
22 21 0.54
ACGTcount: A:0.12, C:0.03, G:0.16, T:0.70
Consensus pattern (22 bp):
TTTTTTATTGTTTTGGTTGTTA
Found at i:48778512 original size:23 final size:23
Alignment explanation
Indices: 48778459--48778528 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
48778449 ATTGTTTTAA
*
48778459 TTGTTATTTTGATGCTGTTTTTT
1 TTGTTATTTTGATGCTGTTTTTG
**
48778482 TTACTATTTTGATGCTGTTTTTG
1 TTGTTATTTTGATGCTGTTTTTG
* *
48778505 TTGTTATTTTTGTTGCTATTTTTG
1 TTGTTA-TTTTGATGCTGTTTTTG
48778529 CAATCCTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 24 0.62
24 15 0.38
ACGTcount: A:0.10, C:0.06, G:0.17, T:0.67
Consensus pattern (23 bp):
TTGTTATTTTGATGCTGTTTTTG
Found at i:48778514 original size:11 final size:12
Alignment explanation
Indices: 48778465--48778528 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
48778455 TTAATTGTTA
* *
48778465 TTTTGATGCTGT
1 TTTTGTTGCTAT
* *
48778477 TTTTTTTACTA-
1 TTTTGTTGCTAT
* *
48778488 TTTTGATGCTGT
1 TTTTGTTGCTAT
*
48778500 TTTTGTTGTTAT
1 TTTTGTTGCTAT
48778512 TTTTGTTGCTAT
1 TTTTGTTGCTAT
48778524 TTTTG
1 TTTTG
48778529 CAATCCTTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
11 7 0.18
12 32 0.82
ACGTcount: A:0.09, C:0.06, G:0.17, T:0.67
Consensus pattern (12 bp):
TTTTGTTGCTAT
Found at i:48779409 original size:34 final size:34
Alignment explanation
Indices: 48779366--48779442 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
48779356 CATTTCATCT
** * *
48779366 TTTAACCTTCCATTTTCCTTAACTTCCTTTGACC
1 TTTAACCTTCCACCTTCCTTAACCTCCCTTGACC
* *
48779400 TTTAACCTTCCACCTTCTTTAACCTCCCTTGATC
1 TTTAACCTTCCACCTTCCTTAACCTCCCTTGACC
48779434 TTTAACCTT
1 TTTAACCTT
48779443 TCATCATTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.18, C:0.34, G:0.03, T:0.45
Consensus pattern (34 bp):
TTTAACCTTCCACCTTCCTTAACCTCCCTTGACC
Found at i:48779456 original size:34 final size:34
Alignment explanation
Indices: 48779366--48779456 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
48779356 CATTTCATCT
* * *
48779366 TTTAACCTTCCAT-TTTCCTTAACTTCCTTTGACC
1 TTTAACCTTCCATCATT-CTTAACCTCCCTTGACC
* *
48779400 TTTAACCTTCCA-CCTTCTTTAACCTCCCTTGATC
1 TTTAACCTTCCATCATTC-TTAACCTCCCTTGACC
*
48779434 TTTAACCTTTCATCATTCTTAAC
1 TTTAACCTTCCATCATTCTTAAC
48779457 TTTTCATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
33 1 0.02
34 43 0.90
35 4 0.08
ACGTcount: A:0.20, C:0.33, G:0.02, T:0.45
Consensus pattern (34 bp):
TTTAACCTTCCATCATTCTTAACCTCCCTTGACC
Found at i:48779467 original size:16 final size:17
Alignment explanation
Indices: 48779435--48779469 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48779425 CCCTTGATCT
48779435 TTAACCTTTCATCATTC
1 TTAACCTTTCATCATTC
*
48779452 TTAACTTTTCAT-ATTC
1 TTAACCTTTCATCATTC
48779468 TT
1 TT
48779470 GTAACTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAACCTTTCATCATTC
Found at i:48784886 original size:34 final size:34
Alignment explanation
Indices: 48784843--48784935 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 34
48784833 CCTTTCATCT
* *
48784843 TTTAGCCTTCCATTTTCCTTAACTTCCTTTGACC
1 TTTAACCTTCCATTTTCCTTAACTTCCCTTGACC
* * *
48784877 TTTAACCTTCCATCTTCCTTAACCTCCCTTGATC
1 TTTAACCTTCCATTTTCCTTAACTTCCCTTGACC
*
48784911 TTTAACCTTTCATCTTT-CTTAACTT
1 TTTAACCTTCCAT-TTTCCTTAACTT
48784936 TTCATATTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
34 48 0.96
35 2 0.04
ACGTcount: A:0.17, C:0.32, G:0.03, T:0.47
Consensus pattern (34 bp):
TTTAACCTTCCATTTTCCTTAACTTCCCTTGACC
Found at i:48784898 original size:17 final size:17
Alignment explanation
Indices: 48784831--48784933 Score: 54
Period size: 17 Copynumber: 6.2 Consensus size: 17
48784821 ATGGATGTTC
*
48784831 AACCTTTCATCTT--TT
1 AACCTTCCATCTTCCTT
* *
48784846 AGCCTTCCATTTTCCTT
1 AACCTTCCATCTTCCTT
48784863 AA-CTTCC-T-TTGACCTTT
1 AACCTTCCATCTT--CC-TT
48784880 AACCTTCCATCTTCCTT
1 AACCTTCCATCTTCCTT
* * ** *
48784897 AACCTCCCTTGATCTTT
1 AACCTTCCATCTTCCTT
* *
48784914 AACCTTTCATCTTTCTT
1 AACCTTCCATCTTCCTT
48784931 AAC
1 AAC
48784934 TTTTCATATT
Statistics
Matches: 64, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
14 2 0.03
15 11 0.17
16 7 0.11
17 34 0.53
18 7 0.11
19 1 0.02
20 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.03, T:0.46
Consensus pattern (17 bp):
AACCTTCCATCTTCCTT
Found at i:48792366 original size:24 final size:23
Alignment explanation
Indices: 48792316--48792378 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
48792306 AAATTTGATG
* * *
48792316 AAAATAATTTATTAAATAAAAAT
1 AAAATAATTTTTTAAAGAAAAAC
*
48792339 AAAATAATTTTTTCAAAGGAAAAC
1 AAAATAATTTTTT-AAAGAAAAAC
*
48792363 AAAATAATATTTTAAA
1 AAAATAATTTTTTAAA
48792379 TTTTTTTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (23 bp):
AAAATAATTTTTTAAAGAAAAAC
Found at i:48793592 original size:24 final size:25
Alignment explanation
Indices: 48793565--48793612 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
48793555 ATAAGCTAAT
* *
48793565 AAAATATTTATTTAATAA-AAACTA
1 AAAATAATAATTTAATAATAAACTA
*
48793589 AAAATAATAATTTTATAATAAACT
1 AAAATAATAATTTAATAATAAACT
48793613 TGAATTTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATAATAATTTAATAATAAACTA
Found at i:48793957 original size:25 final size:24
Alignment explanation
Indices: 48793899--48793962 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
48793889 AAATTTGATG
* * * *
48793899 AAAATAACTTATT-AAATAAAAAT
1 AAAATAATTTTTTCAAAGAAAAAC
48793922 AAAATAATTTTTTCAAAGAAAAAC
1 AAAATAATTTTTTCAAAGAAAAAC
48793946 AAAATAATTTTTTCAAA
1 AAAATAATTTTTTCAAA
48793963 TTTCTTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 11 0.31
24 25 0.69
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATAATTTTTTCAAAGAAAAAC
Found at i:48801824 original size:149 final size:149
Alignment explanation
Indices: 48801536--48801836 Score: 412
Period size: 149 Copynumber: 2.0 Consensus size: 149
48801526 TCAAAGAGTC
* * *
48801536 ATTGTAATGTATTTTTGAACCTTTTAGTTTTTGGAATTATTTTATATATCATGGGTGATTTTCAC
1 ATTGTAATGCATTTTTGAACCTTTTACTTTTTGGAATTATTTTATATATCATGGGTCATTTTCAC
* * * *
48801601 ATTTATACACCTCAAGAAATTCTATTATTCTCGGCTAGTTTATTTTCTCCTACTTGAGTTTGATG
66 ATTTATACACCTCAAGAAAATCAACTATTCTCGGCTAGTTCATTTTCTCCTACTTGAGTTTGATG
*
48801666 AGTATTTTCTGTTCAATCT
131 AGTATTTTCTATTCAATCT
* *
48801685 ATTGTAATGCATTTTTTAACCTTTTACTTTTTGGAATTATTTTATATATCA-GGATTCATTTTCA
1 ATTGTAATGCATTTTTGAACCTTTTACTTTTTGGAATTATTTTATATATCATGG-GTCATTTTCA
** * *
48801749 CATTTATACACCTCAAGAAAATCAACTATTCTTTGTTCA-TTCA-TTTCTCCTGCTTTTGAGTTT
65 CATTTATACACCTCAAGAAAATCAACTATTCTCGGCT-AGTTCATTTTCTCCTAC--TTGAGTTT
48801812 GATGAGTA-TTTCTATTCAATCT
127 GATGAGTATTTTCTATTCAATCT
48801834 ATT
1 ATT
48801837 ATTAGAGTCT
Statistics
Matches: 134, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
148 11 0.08
149 106 0.79
150 17 0.13
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (149 bp):
ATTGTAATGCATTTTTGAACCTTTTACTTTTTGGAATTATTTTATATATCATGGGTCATTTTCAC
ATTTATACACCTCAAGAAAATCAACTATTCTCGGCTAGTTCATTTTCTCCTACTTGAGTTTGATG
AGTATTTTCTATTCAATCT
Found at i:48802031 original size:2 final size:2
Alignment explanation
Indices: 48802024--48802049 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48802014 TTTTCTATTC
48802024 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
48802050 TCATACATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48803850 original size:15 final size:15
Alignment explanation
Indices: 48803830--48803871 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
48803820 TCAAAGATTA
48803830 AATTAT-TAAAATATT
1 AATTATATAAAA-ATT
48803845 AATTATATAAAAATT
1 AATTATATAAAAATT
**
48803860 AAAAATATAAAA
1 AATTATATAAAA
48803872 TACTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTATATAAAAATT
Found at i:48803878 original size:17 final size:16
Alignment explanation
Indices: 48803836--48803879 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
48803826 ATTAAATTAT
**
48803836 TAAAATATTAATTATA
1 TAAAATATTAAAAATA
48803852 TAAAA-ATTAAAAATA
1 TAAAATATTAAAAATA
48803867 TAAAATACTTAAA
1 TAAAATA-TTAAA
48803880 TTTTATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 6 0.25
17 5 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAATATTAAAAATA
Found at i:48804220 original size:18 final size:17
Alignment explanation
Indices: 48804199--48804249 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
48804189 TAAAAAACAA
48804199 TAAAATTATATAAAATT
1 TAAAATTATATAAAATT
*
48804216 GTAAAA--ATATAAAAAT
1 -TAAAATTATATAAAATT
*
48804232 TAAAATTTATTTAAAATT
1 TAAAA-TTATATAAAATT
48804250 AGATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.19
16 9 0.33
18 13 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAAATTATATAAAATT
Found at i:48804376 original size:21 final size:21
Alignment explanation
Indices: 48804335--48804378 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48804325 AAAAATCATG
* *
48804335 AAATTTTATAAATTTATAAGA
1 AAATTATATAAATGTATAAGA
48804356 AAATTATATAAAATGTA-AAGA
1 AAATTATAT-AAATGTATAAGA
48804377 AA
1 AA
48804379 TATAAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
AAATTATATAAATGTATAAGA
Found at i:48804471 original size:11 final size:11
Alignment explanation
Indices: 48804427--48804462 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
48804417 AAAGGAAACA
48804427 TTTTATAATTT
1 TTTTATAATTT
48804438 TTTTATAATTT
1 TTTTATAATTT
*
48804449 TTAT-TAATTT
1 TTTTATAATTT
48804459 TTTT
1 TTTT
48804463 TATCATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:48806824 original size:97 final size:97
Alignment explanation
Indices: 48806706--48806909 Score: 245
Period size: 100 Copynumber: 2.1 Consensus size: 97
48806696 ATATTTTAAA
* * * *
48806706 AATAAAAATATATTTAACATAATCGTAT-ATATATATATA-ATTTTTTAATCATATAATTACATG
1 AATAAAAATATATTTAACATAATCATATAATAAAAATATATATTTTTTAATCATATAATTACATA
48806769 GATATTA-TTT-TTTATATAAATAAAGGAATAATT
66 GATATTATTTTATTTATATAAATAAA-GAAT--TT
* * * *
48806802 AATTAAAAATGTATTTAACATAATTATATAAATAAAAATATATATTTTTTCATTATATAATTACA
1 AA-TAAAAATATATTTAACATAATCATAT-AATAAAAATATATATTTTTTAATCATATAATTACA
**
48806867 TATTTATTATTTTATTTATATAAATAAAGAATTT
64 TAGATATTATTTTATTTATATAAATAAAGAATTT
48806901 AATAAAAAT
1 AATAAAAAT
48806910 TAAAATTTAA
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
96 2 0.02
97 23 0.25
98 7 0.08
99 13 0.14
100 26 0.28
101 7 0.08
102 14 0.15
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (97 bp):
AATAAAAATATATTTAACATAATCATATAATAAAAATATATATTTTTTAATCATATAATTACATA
GATATTATTTTATTTATATAAATAAAGAATTT
Found at i:48806856 original size:29 final size:29
Alignment explanation
Indices: 48806824--48806894 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
48806814 ATTTAACATA
48806824 ATTATATAAATAAAAATATATATT-TTTT
1 ATTATATAAATAAAAATATATATTATTTT
* * *
48806852 CATTATAT-AAT-TACATATTTATTATTTT
1 -ATTATATAAATAAAAATATATATTATTTT
48806880 ATTTATATAAATAAA
1 A-TTATATAAATAAA
48806895 GAATTTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
27 10 0.29
28 13 0.38
29 10 0.29
30 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTATATAAATAAAAATATATATTATTTT
Found at i:48806901 original size:29 final size:27
Alignment explanation
Indices: 48806824--48806901 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 27
48806814 ATTTAACATA
48806824 ATTATATAAATAAAAATATATATTTTTTC
1 ATTATATAAATAAAAAT-T-TATTTTTTC
* * *
48806853 ATTATATAATTACATATTTATTATTTT-
1 ATTATATAAATAAAAATTTATT-TTTTC
48806880 ATTTATATAAATAAAGAATTTA
1 A-TTATATAAATAAA-AATTTA
48806902 ATAAAAATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
27 5 0.12
28 16 0.40
29 19 0.47
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (27 bp):
ATTATATAAATAAAAATTTATTTTTTC
Found at i:48807037 original size:20 final size:20
Alignment explanation
Indices: 48807010--48807056 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
48807000 TAAAAACATT
48807010 AATT-AAAAA-TTAAAATTAA
1 AATTAAAAAACTTAAAA-TAA
*
48807029 AATTAAAAAACTTGAAATAA
1 AATTAAAAAACTTAAAATAA
*
48807049 GATTAAAA
1 AATTAAAA
48807057 TAAAAAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAAAAACTTAAAATAA
Found at i:48807985 original size:22 final size:21
Alignment explanation
Indices: 48807957--48808002 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
48807947 TTCTCCTTAA
48807957 TTTTTTATATTCAGTTTTTATT
1 TTTTTTATATTCAGTTTTT-TT
**
48807979 TTTTTTATATTTTGTTTTTTT
1 TTTTTTATATTCAGTTTTTTT
48808000 TTT
1 TTT
48808003 AATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (21 bp):
TTTTTTATATTCAGTTTTTTT
Found at i:48808009 original size:18 final size:18
Alignment explanation
Indices: 48807977--48808019 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
48807967 TCAGTTTTTA
*
48807977 TTTTTTTTATATTTTGTT
1 TTTTTTTTATATTTTATT
48807995 TTTTTTTTA-ATTTTTATT
1 TTTTTTTTATA-TTTTATT
48808013 TATTTTT
1 T-TTTTT
48808020 GTGGCACGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 16 0.73
19 5 0.23
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTTTTTATATTTTATT
Found at i:48808018 original size:17 final size:17
Alignment explanation
Indices: 48807971--48808019 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
48807961 TTATATTCAG
48807971 TTTTTATTTTTTTTATA
1 TTTTTATTTTTTTTATA
*
48807988 TTTTGTTTTTTTTTTA-A
1 TTTT-TATTTTTTTTATA
48808005 TTTTTATTTATTTTT
1 TTTTTATTT-TTTTT
48808020 GTGGCACGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.14
17 14 0.50
18 10 0.36
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (17 bp):
TTTTTATTTTTTTTATA
Found at i:48812894 original size:2 final size:2
Alignment explanation
Indices: 48812887--48812932 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
48812877 AGACACATTA
48812887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48812929 AT AT
1 AT AT
48812933 TTCAAATACG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48826140 original size:5 final size:5
Alignment explanation
Indices: 48826130--48826157 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48826120 TATATGTTAA
48826130 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
48826158 TGGATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:48830218 original size:18 final size:18
Alignment explanation
Indices: 48830197--48830238 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
48830187 GCAAACGACT
* *
48830197 CCTCAACCATTCATCACA
1 CCTCAACCATCCACCACA
48830215 CCTCAACCATCCACCACA
1 CCTCAACCATCCACCACA
48830233 CCTCAA
1 CCTCAA
48830239 AGCGGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (18 bp):
CCTCAACCATCCACCACA
Found at i:48840577 original size:6 final size:6
Alignment explanation
Indices: 48840568--48840610 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
48840558 TAAATTGATT
* *
48840568 TTTAAA TTTAAA TTTAAA -GTAAA TTTAAA TTT-AG TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
48840611 GAAACGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 8 0.26
6 23 0.74
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:48840605 original size:11 final size:11
Alignment explanation
Indices: 48840568--48840610 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
48840558 TAAATTGATT
48840568 TTTAAATTTAAA
1 TTTAAATTT-AA
* *
48840580 TTTAAAGTAAA
1 TTTAAATTTAA
*
48840591 TTTAAATTTAG
1 TTTAAATTTAA
48840602 TTTAAATTT
1 TTTAAATTT
48840611 GAAACGGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:48840607 original size:17 final size:17
Alignment explanation
Indices: 48840568--48840610 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
48840558 TAAATTGATT
48840568 TTTAAATTTAAATTTAA
1 TTTAAATTTAAATTTAA
** *
48840585 AGTAAATTTAAATTTAG
1 TTTAAATTTAAATTTAA
48840602 TTTAAATTT
1 TTTAAATTT
48840611 GAAACGGTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:48842879 original size:40 final size:40
Alignment explanation
Indices: 48842806--48842903 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
48842796 AACACACCAA
* * *
48842806 AATGGCACCCAGTGCCTCATCGGATAGTTCGAAGCAATAA-
1 AATGACACCCAGTGTCTCATCGGATAGTCCGAAGCAA-AAT
* * *
48842846 AGTGACACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAAT
1 AATGACACCCAGTGTCTCATCGG-ATAGTCCGAAGCAAAAT
48842886 AATGACACCCAGTGTCTC
1 AATGACACCCAGTGTCTC
48842904 GTCGACTCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
39 2 0.04
40 44 0.90
41 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (40 bp):
AATGACACCCAGTGTCTCATCGGATAGTCCGAAGCAAAAT
Found at i:48843026 original size:6 final size:6
Alignment explanation
Indices: 48842992--48843053 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
48842982 TAATAGGAAT
* * * *
48842992 TTTCAA TTTACAA -TTC-A TATCAC TTTCAA TTTCAA TTTCAC TTTCAC
1 TTTCAA TTT-CAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
*
48843039 TTTCAC TTTCAA TTT
1 TTTCAA TTTCAA TTT
48843054 TGATTACAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.02
5 3 0.06
6 40 0.85
7 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTCAA
Found at i:48845391 original size:87 final size:85
Alignment explanation
Indices: 48845243--48845410 Score: 223
Period size: 87 Copynumber: 2.0 Consensus size: 85
48845233 AAAAATCATA
*
48845243 TTTTGACCCCAAACTTCCTAAAAATTACATTTTGACCTCTAAACTTTCCAAAAATTACATTTTAA
1 TTTTGACCCCAAACTTCCTAAAAATTACATTTTGACCTCCAAACTTTCCAAAAATTACATTTT-A
*
48845308 CTCTCAAACTTTCCAAAATACG
65 CCCTCAAAC-TTCCAAAATACG
* ** *
48845330 TTTTGACCCTCAAACTT-CTAAAAATTCCATTTTGACC-CCAATTTTTTCAAAAATTACCATTTT
1 TTTTGACCC-CAAACTTCCTAAAAATTACATTTTGACCTCCAAACTTTCCAAAAATTA-CATTTT
*
48845393 ACCCTCGAACTTCCAAAA
64 ACCCTCAAACTTCCAAAA
48845411 AGTCCATTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
85 8 0.11
86 23 0.32
87 34 0.47
88 7 0.10
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (85 bp):
TTTTGACCCCAAACTTCCTAAAAATTACATTTTGACCTCCAAACTTTCCAAAAATTACATTTTAC
CCTCAAACTTCCAAAATACG
Found at i:48845454 original size:59 final size:59
Alignment explanation
Indices: 48845330--48845546 Score: 249
Period size: 59 Copynumber: 3.6 Consensus size: 59
48845320 CCAAAATACG
* *
48845330 TTTTGACCCTCAAACTTCTAAAAATTCCA-TTTTGACCCCAATTTTTTCAAAAATTACCA
1 TTTT-ACCCTCAAACTTCCAAAAATTCCATTTTTGACCCCGATTTTTTCAAAAATTACCA
* * * *
48845389 TTTTACCCTCGAACTTCCAAAAAGTCCATTTTTAACCCCGATTTTTACAAAAATTACCA
1 TTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCCGATTTTTTCAAAAATTACCA
* * ** *
48845448 TTTTACCCCCAAAC-TCTCAAAAATTCTATTTTTTGACCTTGATTTTTTTCCAAAATTACCA
1 TTTTACCCTCAAACTTC-CAAAAATTCCA-TTTTTGACCCCGA-TTTTTTCAAAAATTACCA
* * *
48845509 TTTTACCCTCGAACTTCCAAAGATTCTATCTTTTGACC
1 TTTTACCCTCAAACTTCCAAAAATTCCAT-TTTTGACC
48845547 TCGAAGTGTC
Statistics
Matches: 134, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
58 23 0.17
59 52 0.39
60 11 0.08
61 46 0.34
62 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (59 bp):
TTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCCGATTTTTTCAAAAATTACCA
Found at i:48845456 original size:29 final size:29
Alignment explanation
Indices: 48845349--48845457 Score: 96
Period size: 30 Copynumber: 3.7 Consensus size: 29
48845339 TCAAACTTCT
* * *
48845349 AAAAATTCCATTTTGACCCCAATTTTTTC
1 AAAAATTCCATTTTAACCCCGATTTTTAC
** *
48845378 AAAAATTACCATTTT-ACCCTCGA-ACTTCC
1 AAAAATT-CCATTTTAACCC-CGATTTTTAC
*
48845407 AAAAAGTCCATTTTTAACCCCGATTTTTAC
1 AAAAATTCCA-TTTTAACCCCGATTTTTAC
*
48845437 AAAAATTACCATTTTACCCCC
1 AAAAATT-CCATTTTAACCCC
48845458 AAACTCTCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
28 3 0.05
29 27 0.42
30 31 0.48
31 3 0.05
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAAATTCCATTTTAACCCCGATTTTTAC
Found at i:48845468 original size:29 final size:31
Alignment explanation
Indices: 48845220--48845472 Score: 162
Period size: 29 Copynumber: 8.6 Consensus size: 31
48845210 CCCTGAAGGT
* *
48845220 CCCCAAACTGTT-CAAAAATCA-TATTTTGA-
1 CCCCAAACT-TTCCAAAAATTACCATTTTGAC
48845249 CCCCAAAC-TTCCTAAAAATTA-CATTTTGAC
1 CCCCAAACTTTCC-AAAAATTACCATTTTGAC
* * *
48845279 CTCTAAACTTTCCAAAAATTA-CATTTTAAC
1 CCCCAAACTTTCCAAAAATTACCATTTTGAC
* * *
48845309 TCTCAAACTTTCC-AAAA-TA-CGTTTTGAC
1 CCCCAAACTTTCCAAAAATTACCATTTTGAC
* *
48845337 CCTCAAAC-TTCTAAAAATT-CCATTTTGA-
1 CCCCAAACTTTCCAAAAATTACCATTTTGAC
** *
48845365 CCCCAATTTTTTCAAAAATTACCATTTT-AC
1 CCCCAAACTTTCCAAAAATTACCATTTTGAC
* * * * *
48845395 CCTCGAAC-TTCCAAAAAGT-CCATTTTTAA
1 CCCCAAACTTTCCAAAAATTACCATTTTGAC
* ** *
48845424 CCCCGATTTTTACAAAAATTACCATTTT-AC
1 CCCCAAACTTTCCAAAAATTACCATTTTGAC
*
48845454 CCCCAAACTCT-CAAAAATT
1 CCCCAAACTTTCCAAAAATT
48845473 CTATTTTTTG
Statistics
Matches: 175, Mismatches: 36, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
27 5 0.03
28 33 0.19
29 67 0.38
30 59 0.34
31 11 0.06
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (31 bp):
CCCCAAACTTTCCAAAAATTACCATTTTGAC
Found at i:48845600 original size:120 final size:120
Alignment explanation
Indices: 48845330--48845577 Score: 290
Period size: 120 Copynumber: 2.1 Consensus size: 120
48845320 CCAAAATACG
* ** *
48845330 TTTTGACCCTCAAACT-TCTAAAAATTCCA--TTTTGACC-CCAATTTTTTCAAAAATTACCATT
1 TTTT-ACCCCCAAACTCTC-AAAAATTCCATTTTTTGACCTTGATTTTTTTCAAAAATTACCATT
** *
48845391 TTACCCTCGAACTTCCAAAAAGTCCATTTTTAACCCCGATTTTTACAAAAATTACCA
64 TTACCCTCGAACTTCCAAAAAGTCCATTTTTAACCCCGAAGTGTACAAAAATTACCA
* *
48845448 TTTTACCCCCAAACTCTCAAAAATTCTATTTTTTGACCTTGATTTTTTTCCAAAATTACCATTTT
1 TTTTACCCCCAAACTCTCAAAAATTCCATTTTTTGACCTTGATTTTTTTCAAAAATTACCATTTT
* * * * * * *
48845513 ACCCTCGAACTTCCAAAGATTCTATCTTTTGACCTCGAAGTGT-CAAAAATTATCG
66 ACCCTCGAACTTCCAAAAAGTCCAT-TTTTAACCCCGAAGTGTACAAAAATTACCA
48845568 TTTTACCCCC
1 TTTTACCCCC
48845578 GGGCATCCAA
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
117 19 0.17
118 6 0.06
119 8 0.07
120 64 0.59
121 12 0.11
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.38
Consensus pattern (120 bp):
TTTTACCCCCAAACTCTCAAAAATTCCATTTTTTGACCTTGATTTTTTTCAAAAATTACCATTTT
ACCCTCGAACTTCCAAAAAGTCCATTTTTAACCCCGAAGTGTACAAAAATTACCA
Found at i:48852744 original size:10 final size:9
Alignment explanation
Indices: 48852718--48852742 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48852708 GGGCGTCTCG
48852718 AAAAAAAGA
1 AAAAAAAGA
48852727 AAAAAAAGA
1 AAAAAAAGA
48852736 AAAAAAA
1 AAAAAAA
48852743 AGGTTTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:48853554 original size:49 final size:49
Alignment explanation
Indices: 48853501--48854043 Score: 257
Period size: 49 Copynumber: 11.0 Consensus size: 49
48853491 AATCTAATAT
* *
48853501 CATGAAGATGAAATGGGAAAGATTGAGGCCGCAACGACGAACCCGGTAC
1 CATGAAGATGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* *
48853550 CATGAAGATTTG-AA-GGGAAAGGTTGAGGCCACAACGACGAACCCGGTAC
1 CATGAAGA--TGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * * *
48853599 CTTAGCAGAT-ATTATGAG-AAGGATTGAGTCCGCAACAGCAAATCCGGTTC
1 CAT-GAAGATGA-AATGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTAC
** * * * ***
48853649 TGTGAGGAAGAAATGGGAAAGGTTGAGACCGCAACGGCGAACCTAATAC
1 CATGAAGATGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
48853698 CATGAGGATTTAAA-GGGAAAAGTTGAGGTCGCAACGGTGAACCCGGTAC
1 CATGAAGA-TGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * ** * * *
48853747 CTTAGCAGAT-ATTATGAG-AAGGATTAAGGCCGTAACAGTAAATCCGATTC
1 CAT-GAAGATGA-AATGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTAC
** * * * ** * *
48853797 TGTGAGGAAGAAATGGGAAAGGTTAAGGCTACAACGGTGAACTCGGTAC
1 CATGAAGATGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* *
48853846 CATGAAGATTTG-AAT-GGAAAGGTTAAGGCCGCAACGGCGAACCCGATAC
1 CATGAAGA--TGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * ** * *
48853895 CTTAGCAGAT-ATTATGGG-AAGGATTGAGGCTGCAACGGTAAATCCGGTTC
1 CAT-GAAGATGA-AATGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
48853945 CATGAGGAAGAAATGGGAAAGGTTGAGGTCGTAACGGCGAACCCGATAC
1 CATGAAGATGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * *
48853994 CATGAAGATTTG-AA-GGGAAAGGTTAAGGCCGCAATGGTGAACCCGATAC
1 CATGAAGA--TGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
48854043 C
1 C
48854044 TTAGCAGATA
Statistics
Matches: 359, Mismatches: 108, Indels: 54
0.69 0.21 0.10
Matches are distributed among these distances:
48 3 0.01
49 247 0.69
50 105 0.29
51 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.18
Consensus pattern (49 bp):
CATGAAGATGAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:48853748 original size:148 final size:148
Alignment explanation
Indices: 48853510--48854090 Score: 784
Period size: 148 Copynumber: 3.9 Consensus size: 148
48853500 TCATGAAGAT
* * * *
48853510 GAAATGGGAAAGATTGAGGCCGCAACGACGAACCCGGTACCATGAAGATTTGAAGGGAAAGGTTG
1 GAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTA
* * * * * *
48853575 AGGCCACAACGACGAACCCGGTACCTTAGCAGATATTATGAGAAGGATTGAGTCCGCAACAGCAA
66 AGGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGAGAAGGATTAAGGCCGCAACAGTAA
48853640 ATCCGGTTCTGTGAGGAA
131 ATCCGGTTCTGTGAGGAA
* ** * * * *
48853658 GAAATGGGAAAGGTTGAGACCGCAACGGCGAACCTAATACCATGAGGATTTAAAGGGAAAAGTTG
1 GAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTA
* * * *
48853723 AGGTCGCAACGGTGAACCCGGTACCTTAGCAGATATTATGAGAAGGATTAAGGCCGTAACAGTAA
66 AGGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGAGAAGGATTAAGGCCGCAACAGTAA
*
48853788 ATCCGATTCTGTGAGGAA
131 ATCCGGTTCTGTGAGGAA
* ** * * * *
48853806 GAAATGGGAAAGGTTAAGGCTACAACGGTGAACTCGGTACCATGAAGATTTGAATGGAAAGGTTA
1 GAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTA
* * * *
48853871 AGGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGGGAAGGATTGAGGCTGCAACGGTAA
66 AGGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGAGAAGGATTAAGGCCGCAACAGTAA
**
48853936 ATCCGGTTCCATGAGGAA
131 ATCCGGTTCTGTGAGGAA
* *
48853954 GAAATGGGAAAGGTTGAGGTCGTAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTA
1 GAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTA
* * * * *
48854019 AGGCCGCAATGGTGAACCCGATACCTTAGCAGATATTATGGGAAGGATTAAGGCCGCATCAGTGA
66 AGGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGAGAAGGATTAAGGCCGCAACAGTAA
48854084 ATCCGGT
131 ATCCGGT
48854091 ACCATGAATA
Statistics
Matches: 374, Mismatches: 59, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
148 374 1.00
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (148 bp):
GAAATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTA
AGGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGAGAAGGATTAAGGCCGCAACAGTAA
ATCCGGTTCTGTGAGGAA
Found at i:48854060 original size:99 final size:99
Alignment explanation
Indices: 48853661--48854116 Score: 290
Period size: 99 Copynumber: 4.6 Consensus size: 99
48853651 TGAGGAAGAA
* * ** * * * *
48853661 ATGGGAAAGGTTGAGACCGCAACGGCGAACCTAATACCATGAGGATTTAAAGGGAAAAGTTGAGG
1 ATGGGAAAGGTTAAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTAAGG
* *
48853726 TCGCAACGGTGAACCCGGTACCTTAGCAGATATT
66 CCGCAACGGTGAACCCGGTACCTTAGAAGATATT
* * * ** * * ** * *
48853760 ATGAG-AAGGATTAAGGCCGTAACAGTAAATCCGATTCTGTGAGGA--AGAAATGGGAAAGGTTA
1 ATGGGAAAGG-TTAAGGCCGCAACGGCGAACCCGATACCATGAAGATTTG-AA-GGGAAAGGTTA
** * *
48853822 AGGCTACAACGGTGAACTCGGTACCAT-GAAGAT-TT
63 AGGCCGCAACGGTGAACCCGGTACCTTAGAAGATATT
* * *
48853857 GAAT-GGAAAGGTTAAGGCCGCAACGGCGAACCCGATACCTTAGCAGATATT-ATGGG-AAGGAT
1 --ATGGGAAAGGTTAAGGCCGCAACGGCGAACCCGATACCAT-GAAGAT-TTGAAGGGAAAGG-T
* * * * * *
48853919 TGAGGCTGCAACGGTAAATCCGGTTCCATGAGGAAGA-A--
61 TAAGGCCGCAACGGTGAACCCGGTACC-TTA-GAAGATATT
* * *
48853957 ATGGGAAAGGTTGAGGTCGTAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTAAGG
1 ATGGGAAAGGTTAAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTAAGG
* * *
48854022 CCGCAATGGTGAACCCGATACCTTAGCAGATATT
66 CCGCAACGGTGAACCCGGTACCTTAGAAGATATT
* * * * * * *
48854056 ATGGG-AAGGATTAAGGCCGCATCAGTGAATCCGGTACCATGAATA-TTCAGAGGGAAAGGTT
1 ATGGGAAAGG-TTAAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGA-AGGGAAAGGTT
48854117 TAAGTTGCAA
Statistics
Matches: 265, Mismatches: 69, Indels: 46
0.70 0.18 0.12
Matches are distributed among these distances:
96 4 0.02
97 7 0.03
98 77 0.29
99 171 0.65
100 1 0.00
102 5 0.02
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (99 bp):
ATGGGAAAGGTTAAGGCCGCAACGGCGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTAAGG
CCGCAACGGTGAACCCGGTACCTTAGAAGATATT
Found at i:48854156 original size:148 final size:148
Alignment explanation
Indices: 48853501--48854182 Score: 548
Period size: 148 Copynumber: 4.6 Consensus size: 148
48853491 AATCTAATAT
** * * * * * **
48853501 CATGAAGATGAAATGGGAAAGATTGAGGCCGCAAC-GACGAACCCGGTACCATGAAGATTTGAAG
1 CATGAAGAACAAATGGGAAAGGTTGAAGTCGCAACGGA-GAACCCGATACCATCAAGACATGAAG
* * * * * * * *
48853565 GGAAAGGTTGAGGCCACAACGACGAACCCGGTACCTTAGCAGATATTATGAGAAGGATTGAGTCC
65 GGAAAGGTTAAGGCCGCAATGGCGAACCCGATACCTTAGCAGATATTATGGGAAGGATTAAGGCC
* *
48853630 GCAACAGCAAATCCGGTTC
130 GCAACAGTAAATCCGGTAC
** * * * * ** * * ** *
48853649 TGTGAGGAAGAAATGGGAAAGGTTG-AGACCGCAACGGCGAACCTAATACCATGAGGATTTAAAG
1 CATGAAGAACAAATGGGAAAGGTTGAAG-TCGCAACGGAGAACCCGATACCATCAAGACATGAAG
* * * * * * *
48853713 GGAAAAGTTGAGGTCGCAACGGTGAACCCGGTACCTTAGCAGATATTATGAGAAGGATTAAGGCC
65 GGAAAGGTTAAGGCCGCAATGGCGAACCCGATACCTTAGCAGATATTATGGGAAGGATTAAGGCC
* * *
48853778 GTAACAGTAAATCCGATTC
130 GCAACAGTAAATCCGGTAC
** * * * * * * * * ** *
48853797 TGTGAGGAAGAAATGGGAAAGGTT-AAGGCTACAACGGTGAACTCGGTACCATGAAGATTTGAAT
1 CATGAAGAACAAATGGGAAAGGTTGAAGTC-GCAACGGAGAACCCGATACCATCAAGACATGAAG
* * *
48853861 GGAAAGGTTAAGGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGGGAAGGATTGAGGCT
65 GGAAAGGTTAAGGCCGCAATGGCGAACCCGATACCTTAGCAGATATTATGGGAAGGATTAAGGCC
* *
48853926 GCAACGGTAAATCCGGTTC
130 GCAACAGTAAATCCGGTAC
* * * * * * **
48853945 CATGAGGAAGAAATGGGAAAGGTTGAGGTCGTAACGGCGAACCCGATACCATGAAGATTTGAAGG
1 CATGAAGAACAAATGGGAAAGGTTGAAGTCGCAACGGAGAACCCGATACCATCAAGACATGAAGG
*
48854010 GAAAGGTTAAGGCCGCAATGGTGAACCCGATACCTTAGCAGATATTATGGGAAGGATTAAGGCCG
66 GAAAGGTTAAGGCCGCAATGGCGAACCCGATACCTTAGCAGATATTATGGGAAGGATTAAGGCCG
* *
48854075 CATCAGTGAATCCGGTAC
131 CAACAGTAAATCCGGTAC
* * * * * * **
48854093 CATGAATATTCAGA-GGGAAAGGTTTAAGTTGCAATGGAGAACCTTATACC-TCAGAGACATGAA
1 CATGAAGA-ACAAATGGGAAAGGTTGAAGTCGCAACGGAGAACCCGATACCATCA-AGACATGAA
*
48854156 GGGAAAGATTTAA-GCCGCAATGGCGAA
64 GGGAAAG-GTTAAGGCCGCAATGGCGAA
48854183 TCCAGTACCG
Statistics
Matches: 447, Mismatches: 79, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
147 4 0.01
148 433 0.97
149 10 0.02
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.19
Consensus pattern (148 bp):
CATGAAGAACAAATGGGAAAGGTTGAAGTCGCAACGGAGAACCCGATACCATCAAGACATGAAGG
GAAAGGTTAAGGCCGCAATGGCGAACCCGATACCTTAGCAGATATTATGGGAAGGATTAAGGCCG
CAACAGTAAATCCGGTAC
Found at i:48854159 original size:49 final size:49
Alignment explanation
Indices: 48854106--48854340 Score: 182
Period size: 49 Copynumber: 4.8 Consensus size: 49
48854096 GAATATTCAG
* * *
48854106 AGGGAAAGGTTTAAGTTGCAATGGAGAACCTTATACCTCAGAGACATGA
1 AGGGAAAGATTTAAGTCGCAATGGCGAACCTTATACCTCAGAGACATGA
* * **
48854155 AGGGAAAGATTTAAGCCGCAATGGCGAATCC--AGTACCGC-GAAGACACAA
1 AGGGAAAGATTTAAGTCGCAATGGCGAA-CCTTA-TACCTCAG-AGACATGA
* *
48854204 AAGGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGA-AGCATGAA
1 AGGGAAAGATTTAAGTCGCAATGGCGAACCTTATACCTCAGAGA-CATG-A
* * * *
48854254 AGGGAAAGATTTAAGCCGCAACGGTGAATCC--AGTACCAC-GAAGACA--A
1 AGGGAAAGATTTAAGTCGCAATGGCGAA-CCTTA-TACCTCAG-AGACATGA
* * * *
48854301 GGGGAAAGGTTTAAGTCGTAATAGCGAACCTTATACCTCA
1 AGGGAAAGATTTAAGTCGCAATGGCGAACCTTATACCTCA
48854341 AAAGCATGAA
Statistics
Matches: 144, Mismatches: 27, Indels: 31
0.71 0.13 0.15
Matches are distributed among these distances:
46 2 0.01
47 27 0.19
48 6 0.04
49 70 0.49
50 36 0.25
51 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (49 bp):
AGGGAAAGATTTAAGTCGCAATGGCGAACCTTATACCTCAGAGACATGA
Found at i:48854175 original size:296 final size:295
Alignment explanation
Indices: 48853501--48854182 Score: 717
Period size: 296 Copynumber: 2.3 Consensus size: 295
48853491 AATCTAATAT
** * * ** * * * **
48853501 CATGAAGATGAAATGGGAAAGATTGAGGCCGCAAC-GACGAACCCGGTACCATGAAGATTTGAAG
1 CATGAAGAACAAATGGGAAAGGTTAAGGCTACAACGGA-GAACTCGATACCATCAAGACATGAAG
* * * * * *
48853565 GGAAAGGTTGAGGCCACAACGACGAACCCGGTACCTTAGCAGATATTATGAGAAGGATTGAGTCC
65 GGAAA-GTTTAAGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGAGAAGGATTGAGGCC
** *
48853630 GCAACAGCAAATCCGGTTCTGTGAGGAAGAAATGGGAAAGGTTGAGACCGCAACGGCGAACCTAA
129 GCAACAGCAAATCCGGTTCCATGAGGAAGAAATGGGAAAGGTTGAGACCGCAACGGCGAACCCAA
* * * *
48853695 TACCATGAGGATTTAAAGGGAAAAGTTGAGGTCGCAACGGTGAACCCGGTACCTTAGCAGATATT
194 TACCATGAAGATTTAAAGGGAAAAGTTAAGGCCGCAACGGTGAACCCGATACCTTAGCAGATATT
* *
48853760 ATGAGAAGGATTAAGGCCGTAACAGTAAATCCGATTC
259 ATGAGAAGGATTAAGGCCGCAACAGTAAATCCGATAC
** * * * * * ** *
48853797 TGTGAGGAAGAAATGGGAAAGGTTAAGGCTACAACGGTGAACTCGGTACCATGAAGATTTGAATG
1 CATGAAGAACAAATGGGAAAGGTTAAGGCTACAACGGAGAACTCGATACCATCAAGACATGAAGG
* * *
48853862 GAAAGGTTAAGGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGGGAAGGATTGAGGCTG
66 GAAAGTTTAA-GCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGAGAAGGATTGAGGCCG
* * ** * *
48853927 CAACGGTAAATCCGGTTCCATGAGGAAGAAATGGGAAAGGTTGAGGTCGTAACGGCGAACCCGAT
130 CAACAGCAAATCCGGTTCCATGAGGAAGAAATGGGAAAGGTTGAGACCGCAACGGCGAACCCAAT
* * *
48853992 ACCATGAAGATTTGAAGGGAAAGGTTAAGGCCGCAATGGTGAACCCGATACCTTAGCAGATATTA
195 ACCATGAAGATTTAAAGGGAAAAGTTAAGGCCGCAACGGTGAACCCGATACCTTAGCAGATATTA
* * * *
48854057 TGGGAAGGATTAAGGCCGCATCAGTGAATCCGGTAC
260 TGAGAAGGATTAAGGCCGCAACAGTAAATCCGATAC
* * * * * * *
48854093 CATGAATATTCAGA-GGGAAAGGTTTAA-GTTGCAATGGAGAAC-CTTATACC-TCAGAGACATG
1 CATGAAGA-ACAAATGGGAAAGG-TTAAGGCTACAACGGAGAACTC-GATACCATCA-AGACATG
*
48854154 AAGGGAAAGATTTAAGCCGCAATGGCGAA
62 AAGGGAAAG-TTTAAGCCGCAACGGCGAA
48854183 TCCAGTACCG
Statistics
Matches: 318, Mismatches: 61, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
295 6 0.02
296 301 0.95
297 11 0.03
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.19
Consensus pattern (295 bp):
CATGAAGAACAAATGGGAAAGGTTAAGGCTACAACGGAGAACTCGATACCATCAAGACATGAAGG
GAAAGTTTAAGCCGCAACGGCGAACCCGATACCTTAGCAGATATTATGAGAAGGATTGAGGCCGC
AACAGCAAATCCGGTTCCATGAGGAAGAAATGGGAAAGGTTGAGACCGCAACGGCGAACCCAATA
CCATGAAGATTTAAAGGGAAAAGTTAAGGCCGCAACGGTGAACCCGATACCTTAGCAGATATTAT
GAGAAGGATTAAGGCCGCAACAGTAAATCCGATAC
Found at i:48854215 original size:98 final size:97
Alignment explanation
Indices: 48854108--48854370 Score: 363
Period size: 97 Copynumber: 2.7 Consensus size: 97
48854098 ATATTCAGAG
* *
48854108 GGAAAGGTTTAAGTTGCAATGGAGAACCTTATACCTCAG-AGACATG-AAGGGAAAGATTTAAGC
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAAG-CATGAAAGGGAAAGATTTAAGC
* *
48854171 CGCAATGGCGAATCCAGTACCGCGAAGACACAAAA
65 CGCAACGGCGAATCCAGTACCACGAAG--ACAAAA
48854206 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAAGCATGAAAGGGAAAGATTTAAGCC
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAAGCATGAAAGGGAAAGATTTAAGCC
* **
48854271 GCAACGGTGAATCCAGTACCACGAAGACAAGG
66 GCAACGGCGAATCCAGTACCACGAAGACAAAA
* * * * *
48854303 GGAAAGGTTTAAGTCGTAATAGCGAACCTTATACCTCAAAAGCATGAAA-GGAAA-ATTGAAGCA
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAAGCATGAAAGGGAAAGATTTAAGCC
48854366 GCAAC
66 GCAAC
48854371 AGAGAATCTA
Statistics
Matches: 151, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
95 12 0.08
96 5 0.03
97 50 0.33
98 41 0.27
99 43 0.28
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (97 bp):
GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAAGCATGAAAGGGAAAGATTTAAGCC
GCAACGGCGAATCCAGTACCACGAAGACAAAA
Found at i:48854802 original size:6 final size:6
Alignment explanation
Indices: 48854793--48854865 Score: 78
Period size: 6 Copynumber: 12.5 Consensus size: 6
48854783 TTAAATTGAT
* * * **
48854793 TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTGAA TTTGAA TTTATT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
48854840 TTTAAA TTTAAA TTT-AG TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
48854866 GCAACAGTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 8 0.15
6 47 0.85
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:48854802 original size:17 final size:17
Alignment explanation
Indices: 48854777--48854865 Score: 71
Period size: 17 Copynumber: 5.5 Consensus size: 17
48854767 AAACTTTTGA
*
48854777 TTAAGTTTAAATTGATT
1 TTAAATTTAAATTGATT
* *
48854794 TTAAATTTAAATTTACT
1 TTAAATTTAAATTGATT
*
48854811 TTAAATTTAAATTTGAAT
1 TTAAATTTAAA-TTGATT
*
48854829 TTGAATTT--A-T--TT
1 TTAAATTTAAATTGATT
* *
48854841 TTAAATTTAAATTTAGT
1 TTAAATTTAAATTGATT
48854858 TTAAATTT
1 TTAAATTT
48854866 GCAACAGTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
12 8 0.14
14 2 0.04
15 1 0.02
16 1 0.02
17 34 0.60
18 11 0.19
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (17 bp):
TTAAATTTAAATTGATT
Found at i:48856846 original size:29 final size:29
Alignment explanation
Indices: 48856814--48856915 Score: 116
Period size: 30 Copynumber: 3.5 Consensus size: 29
48856804 CAAGCTGATC
* * *
48856814 AAAAATCATATTTTGACCCCAAACTTCCT
1 AAAAATTACATTTTGACCCCAAACTTTCT
* *
48856843 AAAAATTACATTTTAACACCTAAACTTTCT
1 AAAAATTACATTTTGAC-CCCAAACTTTCT
*
48856873 AAATATTACATTTTGACCCTCAAACTTTC-
1 AAAAATTACATTTTGACCC-CAAACTTTCT
*
48856902 AAAAATTCCATTTT
1 AAAAATTACATTTT
48856916 TAACCCTAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
29 28 0.46
30 33 0.54
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTTGACCCCAAACTTTCT
Found at i:48856875 original size:30 final size:29
Alignment explanation
Indices: 48856814--48857073 Score: 135
Period size: 29 Copynumber: 8.9 Consensus size: 29
48856804 CAAGCTGATC
* * * * *
48856814 AAAAATCATATTTTGACCCCAAACTTCCT
1 AAAAATTACATTTTAACCCTAAACTTTCT
48856843 AAAAATTACATTTTAACACCTAAACTTTCT
1 AAAAATTACATTTTAAC-CCTAAACTTTCT
* *
48856873 AAATATTACATTTTGACCCTCAAACTTTC-
1 AAAAATTACATTTTAACCCT-AAACTTTCT
* **
48856902 AAAAATTCCATTTTTAACCCTAATTTTTC-
1 AAAAATTACA-TTTTAACCCTAAACTTTCT
* * *
48856931 AAGAATTACCA-TTTACCCCTAAAC-TTCC
1 AAAAATTA-CATTTTAACCCTAAACTTTCT
* * ** *
48856959 AAAAAGTCTA-TTTTTAACCCTGATTTTTCC
1 AAAAA-T-TACATTTTAACCCTAAACTTTCT
* *
48856989 AAAAATTACCATTTT-ACGTCTAAACTCTC-
1 AAAAATTA-CATTTTAAC-CCTAAACTTTCT
*
48857018 AAAAATTCCATTATTAACCCT-AA-TTT-T
1 AAAAATTACATT-TTAACCCTAAACTTTCT
* *
48857045 ACCAAAATTACCATTTTACCCCCAAACTT
1 A--AAAATTA-CATTTTAACCCTAAACTT
48857074 CCAAAGATTC
Statistics
Matches: 176, Mismatches: 35, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
27 6 0.03
28 22 0.12
29 73 0.41
30 73 0.41
31 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTTAACCCTAAACTTTCT
Found at i:48857054 original size:58 final size:56
Alignment explanation
Indices: 48856823--48857091 Score: 242
Period size: 58 Copynumber: 4.6 Consensus size: 56
48856813 CAAAAATCAT
* * *
48856823 ATTTTGACCCC-AAACTTCCTAAAAATTACA-TTTTAACACCTAAACTTTCTAAATATTA-C
1 ATTTT-ACCCCTAAACTT-C-AAAAATTCCATTTTTAAC-CCT-AATTTTCCAAA-ATTACC
*
48856882 ATTTTGA-CCCTCAAACTTTCAAAAATTCCATTTTTAACCCTAATTTTTCAAGAATTACC
1 ATTTT-ACCCCT-AAAC-TTCAAAAATTCCATTTTTAACCCTAATTTTCCAA-AATTACC
* * *
48856941 A-TTTACCCCTAAACTTCCAAAAAGTCTATTTTTAACCCTGATTTTTCCAAAAATTACC
1 ATTTTACCCCTAAACTT-CAAAAATTCCATTTTTAACCCT-AATTTTCC-AAAATTACC
** *
48856999 ATTTTACGTCTAAACTCTCAAAAATTCCATTATTAACCCTAATTTTACCAAAATTACC
1 ATTTTACCCCTAAACT-TCAAAAATTCCATTTTTAACCCTAATTTT-CCAAAATTACC
* *
48857057 ATTTTACCCCCAAACTTCCAAAGATTCCATCTTTT
1 ATTTTACCCCTAAACTT-CAAAAATTCCAT-TTTT
48857092 GACCTCGAAG
Statistics
Matches: 176, Mismatches: 19, Indels: 30
0.78 0.08 0.13
Matches are distributed among these distances:
56 2 0.01
57 26 0.15
58 73 0.41
59 60 0.34
60 13 0.07
61 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (56 bp):
ATTTTACCCCTAAACTTCAAAAATTCCATTTTTAACCCTAATTTTCCAAAATTACC
Found at i:48858648 original size:17 final size:17
Alignment explanation
Indices: 48858620--48858667 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
48858610 TGTGGAAGAG
48858620 GTAGAGAA--CTTGTTC
1 GTAGAGAATTCTTGTTC
* *
48858635 GTTGAGAGTTCTTGTTC
1 GTAGAGAATTCTTGTTC
48858652 GTAGAGAATTCTTGTT
1 GTAGAGAATTCTTGTT
48858668 AAGGTGGAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 6 0.22
17 21 0.78
ACGTcount: A:0.21, C:0.10, G:0.27, T:0.42
Consensus pattern (17 bp):
GTAGAGAATTCTTGTTC
Found at i:48858713 original size:41 final size:41
Alignment explanation
Indices: 48858656--48858751 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
48858646 TTGTTCGTAG
*
48858656 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTAGGTGACT
* *
48858697 AGAATTCTTGTTAAGGTGGAGATTGTTATAATTAGGTGATT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTAGGTGACT
*
48858738 AGAATTATTGTTAA
1 AGAATTCTTGTTAA
48858752 ATAAAATTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.40
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTAGGTGACT
Found at i:48860293 original size:24 final size:24
Alignment explanation
Indices: 48860248--48860295 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
48860238 CAAGAATATG
* **
48860248 AAAGGTTAAGGAAGATGGAAGGTT
1 AAAGGTCAAGGAAGATAAAAGGTT
*
48860272 AAAGGTCAAGGGAGATAAAAGGTT
1 AAAGGTCAAGGAAGATAAAAGGTT
48860296 GAACATCCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.35, T:0.19
Consensus pattern (24 bp):
AAAGGTCAAGGAAGATAAAAGGTT
Found at i:48865546 original size:24 final size:24
Alignment explanation
Indices: 48865512--48865559 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
48865502 CAAAAATATG
* *
48865512 AAAGGTTAAGGAAGATGGAAGGTT
1 AAAGGTCAAGGAAGATGAAAGGTT
*
48865536 AAAGGTCAAGGGAGATGAAAGGTT
1 AAAGGTCAAGGAAGATGAAAGGTT
48865560 GAACATCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.38, T:0.19
Consensus pattern (24 bp):
AAAGGTCAAGGAAGATGAAAGGTT
Found at i:48869165 original size:210 final size:210
Alignment explanation
Indices: 48868838--48869460 Score: 908
Period size: 210 Copynumber: 3.0 Consensus size: 210
48868828 AAGACTGCTC
* * * * * * *
48868838 AGATTTCCAATTGAAGAGGGAAGTTGTTCAATGTTTGTCCCATCTAAATAGAGCTTTAGCAGGCA
1 AGATTTCCGATTGAAGAAGGTAGCTCTTCAATGTTTGTCCCATCTAAATAGAGCTCTAGCAAGCA
*
48868903 TTCCATTTTGCCATCAATCTCCGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAA-TTCT
66 TTCCATTTTGCCATCAATCTCTGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAACTT-T
* * * * * *
48868967 TGAAGAGATTCCATTCCAAATTTGATTGGCAGACTCCCAAGACTTTTGCAATCTTTTAAATTCAA
130 TCAAGAGATTCCATTCCAATTTTGGTTGGAAGACTCCCAAGACTTTTGCAGTCTCTTAAATTCAA
48869032 AAGTTTAAGTCTTCTG
195 AAGTTTAAGTCTTCTG
48869048 AGATTTCCGATTGAAGAAGGTAGCTCTTCAATGTTTGTCCCATCTAAATAGAGCTCTAGCAAGCA
1 AGATTTCCGATTGAAGAAGGTAGCTCTTCAATGTTTGTCCCATCTAAATAGAGCTCTAGCAAGCA
48869113 TTCCATTTTGCCATCAATCTCTGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAACTTTT
66 TTCCATTTTGCCATCAATCTCTGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAACTTTT
* *
48869178 CAAGAGATTCCATTCCAATTTTGGTTGGAAGGCTCCTAAGACTTTTGCAGTCTCTTAAATTCAAA
131 CAAGAGATTCCATTCCAATTTTGGTTGGAAGACTCCCAAGACTTTTGCAGTCTCTTAAATTCAAA
48869243 AGTTTAAGTCTTCTG
196 AGTTTAAGTCTTCTG
* * * * * * * *
48869258 AGATTTCCGATTGAAGAAGGTATCTCTTTAATGTTTGTCCCATCAAAACAAAGCTCCAACAAACA
1 AGATTTCCGATTGAAGAAGGTAGCTCTTCAATGTTTGTCCCATCTAAATAGAGCTCTAGCAAGCA
* * * * *
48869323 TTCCATTTTCCCACCAATCTCTGGAAAGCTTTGAAGTTTTGAGCAACCTGAAAGAATTAACTTTT
66 TTCCATTTTGCCATCAATCTCTGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAACTTTT
* * * *
48869388 CAAGAGATTCCATTCCAATTTTGGTAGGAAAACTCCTC-AGACTTTTGCAGCCTCTTAAATACAA
131 CAAGAGATTCCATTCCAATTTTGGTTGGAAGACTCC-CAAGACTTTTGCAGTCTCTTAAATTCAA
*
48869452 AAGCTTAAG
195 AAGTTTAAG
48869461 CCTCGTAAGA
Statistics
Matches: 375, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
210 373 0.99
211 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (210 bp):
AGATTTCCGATTGAAGAAGGTAGCTCTTCAATGTTTGTCCCATCTAAATAGAGCTCTAGCAAGCA
TTCCATTTTGCCATCAATCTCTGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAACTTTT
CAAGAGATTCCATTCCAATTTTGGTTGGAAGACTCCCAAGACTTTTGCAGTCTCTTAAATTCAAA
AGTTTAAGTCTTCTG
Found at i:48875378 original size:24 final size:24
Alignment explanation
Indices: 48875339--48875401 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
48875329 TAGACTAATA
* * *
48875339 AGAGTTTGACTCAAACAACTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
48875363 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
48875387 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
48875402 AATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:48875862 original size:21 final size:21
Alignment explanation
Indices: 48875838--48875897 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
48875828 ATAATAGCAT
*
48875838 AATCCAAATATAAAGTTTAGA
1 AATCCAAATATAAAATTTAGA
* *
48875859 AATCTAAATATAAAATTTATA
1 AATCCAAATATAAAATTTAGA
* *
48875880 AATTCAAATTATATAATT
1 AATCCAAA-TATAAAATT
48875898 CAAATATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (21 bp):
AATCCAAATATAAAATTTAGA
Found at i:48875897 original size:14 final size:13
Alignment explanation
Indices: 48875875--48875907 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
48875865 AATATAAAAT
48875875 TTATAAATTCAAA
1 TTATAAATTCAAA
48875888 TTATATAATTCAAA
1 TTATA-AATTCAAA
48875902 -TATAAA
1 TTATAAA
48875908 ACTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 9 0.47
14 8 0.42
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATAAATTCAAA
Found at i:48877254 original size:30 final size:29
Alignment explanation
Indices: 48877179--48877255 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
48877169 TTTAGGTTTT
* *
48877179 TTAAAAGTTG-TAAAAGAAATTTTGGACTC
1 TTAAAAGTTGATAAAA-AAAATTTGGACCC
* * * *
48877208 TTAAAAATTAAAAAAAAAAATTTGCGGCCC
1 TTAAAAGTTGATAAAAAAAATTTG-GACCC
48877238 TTAAAAGTTGATAAAAAA
1 TTAAAAGTTGATAAAAAA
48877256 TCGTTGACCT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 15 0.41
30 22 0.59
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (29 bp):
TTAAAAGTTGATAAAAAAAATTTGGACCC
Found at i:48879427 original size:25 final size:25
Alignment explanation
Indices: 48879380--48879427 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
48879370 TATATATTGC
* * *
48879380 ATATATAAATAATTAAATTTATTCA
1 ATATAAAAATAAATAAATGTATTCA
*
48879405 ATATAAAAATAAATAGATGTATT
1 ATATAAAAATAAATAAATGTATT
48879428 TTTTATTTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (25 bp):
ATATAAAAATAAATAAATGTATTCA
Found at i:48880112 original size:14 final size:15
Alignment explanation
Indices: 48880080--48880127 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
48880070 GCCAACAAAT
48880080 AATTAAAAAACTATAA
1 AATTAAAAAA-TATAA
*
48880096 AAATAAATAAAT-TAA
1 AATTAAA-AAATATAA
48880111 AATTAAAAAATATAA
1 AATTAAAAAATATAA
48880126 AA
1 AA
48880128 AATTTCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 7 0.25
17 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
AATTAAAAAATATAA
Found at i:48885884 original size:9 final size:9
Alignment explanation
Indices: 48885872--48885905 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
48885862 ATATTTTTAA
48885872 AAAAAATTG
1 AAAAAATTG
*
48885881 AAAAAAATTT
1 -AAAAAATTG
48885891 AAAAAATTG
1 AAAAAATTG
48885900 AAAAAA
1 AAAAAA
48885906 AAAATTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (9 bp):
AAAAAATTG
Found at i:48885886 original size:10 final size:10
Alignment explanation
Indices: 48885871--48885906 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
48885861 AATATTTTTA
48885871 AAAAAAATTG
1 AAAAAAATTG
48885881 AAAAAAATT-
1 AAAAAAATTG
*
48885890 TAAAAAATTG
1 AAAAAAATTG
48885900 AAAAAAA
1 AAAAAAA
48885907 AAATTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:48885953 original size:6 final size:6
Alignment explanation
Indices: 48885935--48885981 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
48885925 AACTAGTATA
* *
48885935 TTTATT TTCATT TTTATT TTTATT TTTA-G TTTA-T TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
48885980 TT
1 TT
48885982 AATTATGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
5 13 0.36
6 23 0.64
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:48885960 original size:5 final size:5
Alignment explanation
Indices: 48885935--48885982 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
48885925 AACTAGTATA
*
48885935 TTTAT TTTCATT TTTATT TTTATT TTTAG TTTAT TTTAT TTTAT TTTA
1 TTTAT TTT-A-T TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTA
48885983 ATTATGTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 21 0.54
6 14 0.36
7 4 0.10
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:48891699 original size:6 final size:6
Alignment explanation
Indices: 48891690--48891744 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
48891680 GATTTATTTC
* * * **
48891690 TAAATT TAAATT T-ACTT AAAATT TAAATT TAAATT CATTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
48891737 TAAATT TA
1 TAAATT TA
48891745 GTATAAATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
5 3 0.08
6 35 0.92
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (6 bp):
TAAATT
Found at i:48891702 original size:18 final size:18
Alignment explanation
Indices: 48891676--48891744 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
48891666 TTAGATTAGT
* *
48891676 TTTAGATTTATTTCTAAA
1 TTTAAATTTATTTTTAAA
48891694 TTTAAATTTACTTAAAATTTAAA
1 TTTAAATTTA-TT----TTTAAA
*
48891717 TTTAAATTCATTTTTAAA
1 TTTAAATTTATTTTTAAA
48891735 TTTAAATTTA
1 TTTAAATTTA
48891745 GTATAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 24 0.57
19 2 0.05
22 2 0.05
23 14 0.33
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (18 bp):
TTTAAATTTATTTTTAAA
Found at i:48891753 original size:41 final size:42
Alignment explanation
Indices: 48891676--48891759 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
48891666 TTAGATTAGT
* *
48891676 TTTAGATTTATTTCTAAATTTAAATTTACTTAAAATTT-AAA
1 TTTAAATTCATTTCTAAATTTAAATTTACTTAAAATTTGAAA
* *
48891717 TTTAAATTCATTTTTAAATTTAAATTTA-GTATAAATTTGAAA
1 TTTAAATTCATTTCTAAATTTAAATTTACTTA-AAATTTGAAA
48891759 T
1 T
48891760 AATTTTAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 2 0.05
41 31 0.84
42 4 0.11
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (42 bp):
TTTAAATTCATTTCTAAATTTAAATTTACTTAAAATTTGAAA
Found at i:48893766 original size:121 final size:120
Alignment explanation
Indices: 48893627--48893869 Score: 346
Period size: 121 Copynumber: 2.0 Consensus size: 120
48893617 CCTTAAAGGT
* * * *
48893627 CCCTAAACTATCCAAAAATCATATTTTGACCCCTAAACTTTTTTAAAATTACATTTTGATCCTTA
1 CCCTAAACTATCCAAAAATCATATTTTGACCCCTAAACCTTTTCAAAATTACATTTTGACCCCTA
48893692 AACTTTTCCAAAATCATAGTTTGA-CCCTCAAACCTTTTCCAAAATTACATTTTAAC
66 AACTTTTCCAAAATCATAGTTTGACCCCT-AAA-CTTTTCCAAAATTACATTTTAAC
* * *
48893748 CCCTAAACATTTCC-AAAATTATATTTTGACCCCTAAACCTTTTCAAAATTATATTTTGACCCCT
1 CCCTAAAC-TATCCAAAAATCATATTTTGACCCCTAAACCTTTTCAAAATTACATTTTGACCCCT
* * * *
48893812 AAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGAC
65 AAACTTTTCCAAAATCATAGTTTGACCCCTAAACTTTTCCAAAATTACATTTTAAC
48893868 CC
1 CC
48893870 TCAATTTTCT
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
120 23 0.21
121 78 0.72
122 8 0.07
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (120 bp):
CCCTAAACTATCCAAAAATCATATTTTGACCCCTAAACCTTTTCAAAATTACATTTTGACCCCTA
AACTTTTCCAAAATCATAGTTTGACCCCTAAACTTTTCCAAAATTACATTTTAAC
Found at i:48893894 original size:30 final size:30
Alignment explanation
Indices: 48893627--48893869 Score: 321
Period size: 30 Copynumber: 8.1 Consensus size: 30
48893617 CCTTAAAGGT
* *
48893627 CCCTAAAC-TATCCAAAAATCATATTTTGAC
1 CCCTAAACTTTTCC-AAAATTATATTTTGAC
** * *
48893657 CCCTAAACTTTTTTAAAATTACATTTTGAT
1 CCCTAAACTTTTCCAAAATTATATTTTGAC
* * *
48893687 CCTTAAACTTTTCCAAAATCATAGTTTGA-
1 CCCTAAACTTTTCCAAAATTATATTTTGAC
* *
48893716 CCCTCAAACCTTTTCCAAAATTACATTTTAAC
1 CCCT-AAA-CTTTTCCAAAATTATATTTTGAC
*
48893748 CCCTAAACATTTCCAAAATTATATTTTGAC
1 CCCTAAACTTTTCCAAAATTATATTTTGAC
48893778 CCCTAAACCTTTT-CAAAATTATATTTTGAC
1 CCCTAAA-CTTTTCCAAAATTATATTTTGAC
48893808 CCCTAAACTTTTCCAAAATTATATTTTGAC
1 CCCTAAACTTTTCCAAAATTATATTTTGAC
48893838 CCCTAAACTTTTCCAAAATTATATTTTGAC
1 CCCTAAACTTTTCCAAAATTATATTTTGAC
48893868 CC
1 CC
48893870 TCAATTTTCT
Statistics
Matches: 186, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
29 8 0.04
30 147 0.79
31 27 0.15
32 4 0.02
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (30 bp):
CCCTAAACTTTTCCAAAATTATATTTTGAC
Found at i:48893907 original size:90 final size:90
Alignment explanation
Indices: 48893641--48893958 Score: 294
Period size: 90 Copynumber: 3.5 Consensus size: 90
48893631 AAACTATCCA
* ** * *
48893641 AAAATCATATTTTGACCCCTAAACTTTTTTAAAATTACATTTTGATCCTTAAACTTTTC--CAAA
1 AAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACCCCTAAA-TTTTCTTCAAA
* *
48893704 ATCATAGTTTGACCCTCAAACCTTTTCC
65 ATTATATTTTGACCC-CAAA-CTTTTCC
* * * * **
48893732 AAAATTACATTTTAACCCCTAAACATTTCCAAAATTATATTTTGACCCCTAAACCTT-TTCAAAA
1 AAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTCTTCAAAA
48893796 TTATATTTTGACCCCTAAACTTTTCC
66 TTATATTTTGACCCC-AAACTTTTCC
* * *
48893822 AAAATTATATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGA-CCCTCAATTTTCTTGAAAA
1 AAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTCTTCAAAA
* * *
48893886 TTACATTTTTACTCCCGAAC--TTCC
66 TTATATTTTGAC-CCCAAACTTTTCC
* * *
48893910 AAAAATTCCAT-TTTTGACCTCGAAAC--TTCCAAAAATTACATTTTTACCC
1 -AAAATT--ATATTTTGACCCCTAAACTTTTCC-AAAATTACATTTTGACCC
48893959 TCAAACTAAC
Statistics
Matches: 190, Mismatches: 27, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
88 8 0.04
89 27 0.14
90 86 0.45
91 69 0.36
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.39
Consensus pattern (90 bp):
AAAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTCTTCAAAA
TTATATTTTGACCCCAAACTTTTCC
Found at i:48893921 original size:29 final size:28
Alignment explanation
Indices: 48893882--48894099 Score: 138
Period size: 29 Copynumber: 7.5 Consensus size: 28
48893872 AATTTTCTTG
48893882 AAAATTACATTTTTACTCCCGAACTTCCA
1 AAAATTACATTTTTAC-CCCGAACTTCCA
* *
48893911 AAAATTCCATTTTTGACCTCGAAACTTCCA
1 AAAATTACATTTTT-ACCCCG-AACTTCCA
* **
48893941 AAAATTACATTTTTACCCTCAAACTAACA
1 AAAATTACATTTTTACCC-CGAACTTCCA
* * ***
48893970 AAAATTCCATTTTTATCCTCGAAACTTTTG
1 AAAATTACATTTTTA-CCCCG-AACTTCCA
*
48894000 AAAATTAC-TATTTTACCCTTGAACTTCC-
1 AAAATTACAT-TTTTACCC-CGAACTTCCA
* * ** *
48894028 AAAATTTCATTTTTGATCCCGATTTTTCTA
1 AAAATTACATTTTT-ACCCCGA-ACTTCCA
*
48894058 AAAATTACCA-TTTTACCCC-AAATGTCCA
1 AAAATTA-CATTTTTACCCCGAACT-TCCA
*
48894086 AAAATTTCATTTTT
1 AAAATTACATTTTT
48894100 GATCTCGATA
Statistics
Matches: 144, Mismatches: 31, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
27 3 0.02
28 27 0.19
29 59 0.41
30 53 0.37
31 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (28 bp):
AAAATTACATTTTTACCCCGAACTTCCA
Found at i:48893939 original size:30 final size:30
Alignment explanation
Indices: 48893882--48894134 Score: 154
Period size: 30 Copynumber: 8.6 Consensus size: 30
48893872 AATTTTCTTG
48893882 AAAATTACATTTTTACTCC-CG-AACTTCCA
1 AAAATTACATTTTTAC-CCTCGAAACTTCCA
*
48893911 AAAATTCCATTTTTGA-CCTCGAAACTTCCA
1 AAAATTACATTTTT-ACCCTCGAAACTTCCA
**
48893941 AAAATTACATTTTTACCCTC-AAACTAACA
1 AAAATTACATTTTTACCCTCGAAACTTCCA
* * ***
48893970 AAAATTCCATTTTTATCCTCGAAACTTTTG
1 AAAATTACATTTTTACCCTCGAAACTTCCA
*
48894000 AAAATTAC-TATTTTACCCTTG-AACTTCC-
1 AAAATTACAT-TTTTACCCTCGAAACTTCCA
* * *** *
48894028 AAAATTTCATTTTTGATCC-CGATTTTTCTA
1 AAAATTACATTTTT-ACCCTCGAAACTTCCA
48894058 AAAATTACCA-TTTTACCC-C-AAA-TGTCCA
1 AAAATTA-CATTTTTACCCTCGAAACT-TCCA
* * * * *
48894086 AAAATTTCATTTTTGA-TCTCGATATTTCTA
1 AAAATTACATTTTT-ACCCTCGAAACTTCCA
**
48894116 AAAATTACCGTTTTACCCT
1 AAAATTACATTTTTACCCT
48894135 AGAATGTCTA
Statistics
Matches: 171, Mismatches: 35, Indels: 35
0.71 0.15 0.15
Matches are distributed among these distances:
27 3 0.02
28 29 0.17
29 61 0.36
30 75 0.44
31 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTTACCCTCGAAACTTCCA
Found at i:48893948 original size:59 final size:60
Alignment explanation
Indices: 48893882--48894156 Score: 250
Period size: 58 Copynumber: 4.7 Consensus size: 60
48893872 AATTTTCTTG
*
48893882 AAAATTACATTTTTACTCC-CGAACTTCCAAAAATTCCATTTTTGA-CCTCGAAACTTCCA
1 AAAATTACATTTTTAC-CCTCGAACTTCCAAAAATTCCATTTTTGATCCTCGAAACTTCTA
* ** * *
48893941 AAAATTACATTTTTACCCTCAAACTAACAAAAATTCCATTTTT-ATCCTCGAAACTTTTG
1 AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATCCTCGAAACTTCTA
* * ***
48894000 AAAATTAC-TATTTTACCCTTGAACTTCC-AAAATTTCATTTTTGATCC-CGATTTTTCTA
1 AAAATTACAT-TTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATCCTCGAAACTTCTA
* * * *
48894058 AAAATTACCA-TTTTACCC-C-AAATGTCCAAAAATTTCATTTTTGAT-CTCGATATTTCTA
1 AAAATTA-CATTTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGATCCTCGAAACTTCTA
** * *
48894116 AAAATTACCGTTTTACCCTAGAA-TGT-CTAAAATTCCATTTT
1 AAAATTACATTTTTACCCTCGAACT-TCCAAAAATTCCATTTT
48894157 AACCCCAAAT
Statistics
Matches: 181, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
56 3 0.02
57 5 0.03
58 93 0.51
59 78 0.43
60 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (60 bp):
AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATCCTCGAAACTTCTA
Found at i:48894062 original size:58 final size:57
Alignment explanation
Indices: 48894000--48894191 Score: 210
Period size: 58 Copynumber: 3.3 Consensus size: 57
48893990 GAAACTTTTG
*
48894000 AAAATTACTATTTTACCCTTGAACT-TCCAAAATTTCATTTTTGATCCCGATTTTTCTA
1 AAAATTACCATTTTACCC-TGAA-TGTCCAAAATTTCATTTTTGATCCCGATTTTTCTA
** * *
48894058 AAAATTACCATTTTACCCCAAATGTCCAAAAATTTCATTTTTGATCTCGATATTTCTA
1 AAAATTACCATTTTACCCTGAATGTCC-AAAATTTCATTTTTGATCCCGATTTTTCTA
* * * * * * *
48894116 AAAATTACCGTTTTACCCTAGAATGTCTAAAATTCCA-TTTTAACCCCAAATTTTCCT-
1 AAAATTACCATTTTACCCT-GAATGTCCAAAATTTCATTTTTGATCCC-GATTTTTCTA
48894173 AAAATTACCATTTTACCCT
1 AAAATTACCATTTTACCCT
48894192 CGAGAGACTA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
56 1 0.01
57 30 0.27
58 76 0.67
59 6 0.05
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (57 bp):
AAAATTACCATTTTACCCTGAATGTCCAAAATTTCATTTTTGATCCCGATTTTTCTA
Found at i:48894144 original size:29 final size:29
Alignment explanation
Indices: 48894054--48894217 Score: 103
Period size: 28 Copynumber: 5.7 Consensus size: 29
48894044 TCCCGATTTT
*
48894054 TCTAAAAATTACCATTTTACCCCA-AATG
1 TCTAAAAATTACCATTTTACCCTAGAATG
* * * * *
48894082 TCCAAAAATT-TCATTTTTGA-TCTCGATATT
1 TCTAAAAATTACCA-TTTT-ACCCTAGA-ATG
*
48894112 TCTAAAAATTACCGTTTTACCCTAGAATG
1 TCTAAAAATTACCATTTTACCCTAGAATG
* *
48894141 TCT-AAAATT-CCATTTTAACCCCA-AATTT
1 TCTAAAAATTACCATTTT-ACCCTAGAA-TG
*
48894169 TCCT-AAAATTACCATTTTACCCTCGAGA-G
1 T-CTAAAAATTACCATTTTACCCTAGA-ATG
*
48894198 ACT-AAAATTACCATTTTACC
1 TCTAAAAATTACCATTTTACC
48894218 TCCGGGTATC
Statistics
Matches: 105, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
27 10 0.10
28 46 0.44
29 20 0.19
30 27 0.26
31 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
TCTAAAAATTACCATTTTACCCTAGAATG
Found at i:48903262 original size:21 final size:22
Alignment explanation
Indices: 48903216--48903263 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
48903206 TGATCTAAGG
* *
48903216 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAACT
48903237 AAAAATAAAAGAAAATAGAACT
1 AAAAATAAAAGAAAATAGAACT
48903259 AAAAA
1 AAAAA
48903264 ATAGAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:48904098 original size:19 final size:19
Alignment explanation
Indices: 48904074--48904116 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48904064 AAACATAAAT
48904074 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
48904093 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
48904112 TAAAT
1 TAAAT
48904117 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:48905606 original size:6 final size:6
Alignment explanation
Indices: 48905591--48905621 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
48905581 AAGATTGAAA
48905591 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
48905622 TTGGGTTGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:48909685 original size:21 final size:21
Alignment explanation
Indices: 48909659--48909698 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48909649 ATAGATGCCT
*
48909659 CAGTTTTCTTTTGAAAATCCA
1 CAGTTTGCTTTTGAAAATCCA
*
48909680 CAGTTTGCTTTTGGAAATC
1 CAGTTTGCTTTTGAAAATC
48909699 TATAGATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
CAGTTTGCTTTTGAAAATCCA
Found at i:48909708 original size:21 final size:21
Alignment explanation
Indices: 48909666--48909709 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
48909656 CCTCAGTTTT
*
48909666 CTTTTGAAAATCCACAGTTTG
1 CTTTTGAAAATCCACAGATTG
* * *
48909687 CTTTTGGAAATCTATAGATTG
1 CTTTTGAAAATCCACAGATTG
48909708 CT
1 CT
48909710 GCTGAAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (21 bp):
CTTTTGAAAATCCACAGATTG
Found at i:48911295 original size:21 final size:22
Alignment explanation
Indices: 48911249--48911309 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
48911239 TGATCTAAGG
*
48911249 AAAAATAAAAGAAACA-A-AATT
1 AAAAATAAAAGAAA-ATAGAACT
48911270 AAAAATAAAAGAAAATAGAACT
1 AAAAATAAAAGAAAATAGAACT
*
48911292 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
48911310 GGAAGTCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 1 0.03
21 15 0.43
22 18 0.51
23 1 0.03
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:48911302 original size:15 final size:16
Alignment explanation
Indices: 48911275--48911304 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48911265 AAATTAAAAA
48911275 TAAAAGAAAATAGAAC
1 TAAAAGAAAATAGAAC
48911291 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
48911305 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (16 bp):
TAAAAGAAAATAGAAC
Found at i:48912133 original size:19 final size:19
Alignment explanation
Indices: 48912109--48912151 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48912099 AAACATAAAT
48912109 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
48912128 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
48912147 TAAAT
1 TAAAT
48912152 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:48914755 original size:18 final size:18
Alignment explanation
Indices: 48914729--48914764 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48914719 GCATCTAATA
*
48914729 TTGTCCCTTGTAATTATT
1 TTGTCCCTTGTAAATATT
*
48914747 TTGTTCCTTGTAAATATT
1 TTGTCCCTTGTAAATATT
48914765 CAGCAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.56
Consensus pattern (18 bp):
TTGTCCCTTGTAAATATT
Found at i:48915599 original size:92 final size:93
Alignment explanation
Indices: 48915424--48918489 Score: 3137
Period size: 92 Copynumber: 31.9 Consensus size: 93
48915414 TATCTTGAAG
* * *
48915424 CAAGGCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATGAAGCTTTAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* *
48915489 TCTTGAAGTTGCAATAAAGTTGGATAT-
66 TCTTGAAGTTGCAGTAAAGTGGGATATA
* * * * * *
48915516 CAAGTCTTTTTCTTTGTAAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAACTCCTATTC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* *
48915581 TCTTGAAGTTACAGTAAAGTAGGATTAAAAATAA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T----AT-A
* * * *
48915615 CGAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATAAAGCTTCAAACGTCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
48915680 TCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATAA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T-------AT-A
* *
48915717 TAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* * * *
48915782 TCTTAAAGTTGCAATAAAGTTGGATA-G
66 TCTTGAAGTTGCAGTAAAGTGGGATATA
* **
48915809 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAATGTCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
48915874 TCTTGAAGTTGTAGTAAAGTGGGATTAAAAATAATA
66 TCTTGAAGTTGCAGTAAAGTGGG-------AT-ATA
* * *
48915910 GTAAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * *
48915975 CTCTTGAAGTTGCAATAAAGTCGGATA-G
65 CTCTTGAAGTTGCAGTAAAGTGGGATATA
* *
48916003 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCTTTAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* * *
48916068 TCTTGAAGTTGCAATAAAGTTGGATA-G
66 TCTTGAAGTTGCAGTAAAGTGGGATATA
* * **
48916095 CAAGTCTTTATCTATCTGAAGTTGTAGTAAGAGCAAGATGAAACTTCAAACGCCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
48916160 TCTTGAAGTTGCAGTAAAGTGGGATTAAAAAAATA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T------ATA
*
48916195 GCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * *
48916260 CTCTTGAAGTTGCAATAAAGTCGGATA-G
65 CTCTTGAAGTTGCAGTAAAGTGGGATATA
* * *
48916288 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAACGTCAATTCATATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
48916353 TCTTGAAATTGCAGTAAAGTGGGATTAAAAACAATA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T-------ATA
* *
48916389 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * * *
48916454 CTATTGAAGTTGTAGTAAAGTTGCATTAAAAACAATA
65 CTCTTGAAGTTGCAGTAAAGTGGGA-T-------ATA
* * * * *
48916491 GTAAGTCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACATCAACTCCTATT
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* *
48916556 CTCTTGAAGTTACAGTAAAGTAGGATTAAAAATAA
65 CTCTTGAAGTTGCAGTAAAGTGGGA-T----AT-A
* * * *
48916591 CGAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATAAAGCTTCAAACGTCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
48916656 TCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T-------ATA
* *
48916692 GTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * * *
48916757 CTCTTAAAGTTGCAATAAAGTTGGATA-G
65 CTCTTGAAGTTGCAGTAAAGTGGGATATA
* **
48916785 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAATGTCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
48916850 TCTTGAAGTTGTAGTAAAGTGGGATTAAAAATAATA
66 TCTTGAAGTTGCAGTAAAGTGGG-------AT-ATA
* * *
48916886 GTAAGTCTTTATCTCTCT-AA-----AGTAAGAACAAGATGAAGCTTTAAACATCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* ** *
48916945 CTCTTGAAGTTGCAATAAAGCCGGATA-G
65 CTCTTGAAGTTGCAGTAAAGTGGGATATA
* *
48916973 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCTTTAAACATCAATTCCTAT-C
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* * *
48917037 TCTTGAAGTTGCAATAAAGTTGGATA-G
66 TCTTGAAGTTGCAGTAAAGTGGGATATA
* * **
48917064 CAAGTCTTTATCTATCTGAAGTTGTAGTAAGAGCAAGATGAAACTTCAAACGCCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
48917129 TCTTGAAGTTGCAGTAAAGTGGGATTAAAAAAAATA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T-------ATA
* *
48917165 GTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * * *
48917230 CTCTTGAAGTTGCAATAAAATCGGATA-G
65 CTCTTGAAGTTGCAGTAAAGTGGGATATA
* * *
48917258 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAACGTCAATTCATATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
48917323 TCTTGAAATTGCAGTAAAGTGGGATTAAAAACAATA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T-------ATA
* *
48917359 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * * *
48917424 CTATTAAAGTTGCAGTAAAGTTGCAT-TA
65 CTCTTGAAGTTGCAGTAAAGTGGGATATA
* * * *
48917452 -AA------A-----ATGAAGTTGCAGTAAGAGTAAGATGAAGCTTCAAACGTCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* * *** *
48917505 TATTGAAGTTGCATTAAA--AACA-ACA
66 TCTTGAAGTTGCAGTAAAGTGGGATATA
* * * * *
48917530 GTAAGTCTTTATCTCTGTAAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAACTCCTATT
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* *
48917595 CTCTTGAAGTTACAGTAAAGTAGGATTAAAAATAA
65 CTCTTGAAGTTGCAGTAAAGTGGGA-T----AT-A
* * * * *
48917630 CGAGTTTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATAAAGCTTCAAACGTCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
48917695 TCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T-------ATA
* *
48917731 GTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * *
48917796 CTCTT-ACAGTTGCAATAAAGTTGGATA-G
65 CTCTTGA-AGTTGCAGTAAAGTGGGATATA
* **
48917824 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAATGTCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
48917889 TCTTGAAGTTGTAGTAAAGTGGGATTAAAAATAATA
66 TCTTGAAGTTGCAGTAAAGTGGG-------AT-ATA
* * *
48917925 GTAAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * *
48917990 CTCTTGAAGTTGCAATAAAGTCGGATA-G
65 CTCTTGAAGTTGCAGTAAAGTGGGATATA
* *
48918018 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCTTTAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* * *
48918083 TCTTGAAGTTGCAATAAAGTTGGATA-G
66 TCTTGAAGTTGCAGTAAAGTGGGATATA
* * **
48918110 CAAGTCTTTATCTATCTGAAGTTGTAGTAAGAGCAAGATGAAACTTCAAACGCCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
48918175 TCTTGAAGTTGCAGTAAAGTGGGATTAAAAAAATAA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T------AT-A
* *
48918211 TAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* * *
48918276 TCTTGAAGTTGCAATAAAGTCGGATA-G
66 TCTTGAAGTTGCAGTAAAGTGGGATATA
* * *
48918303 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAACGTCAATTCATATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
48918368 TCTTGAAATTGCAGTAAAGTGGGATTAAAAACAATA
66 TCTTGAAGTTGCAGTAAAGTGGGA-T-------ATA
* * * *
48918404 GCAAGTCTTTATCTCTCTGAAATTGCAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTACTATC
1 -CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
*
48918469 CTATTGAAGTTGCAGTAAAGT
65 CTCTTGAAGTTGCAGTAAAGT
48918490 TGCATTAAAA
Statistics
Matches: 2549, Mismatches: 286, Indels: 268
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.00
80 66 0.03
85 1 0.00
86 17 0.01
87 2 0.00
88 1 0.00
89 2 0.00
91 143 0.06
92 953 0.37
93 12 0.00
94 8 0.00
95 4 0.00
96 54 0.02
97 2 0.00
99 256 0.10
100 11 0.00
101 173 0.07
102 841 0.33
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (93 bp):
CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
TCTTGAAGTTGCAGTAAAGTGGGATATA
Found at i:48915866 original size:194 final size:194
Alignment explanation
Indices: 48915422--48917455 Score: 2272
Period size: 194 Copynumber: 10.5 Consensus size: 194
48915412 TCTATCTTGA
* * * *
48915422 AGCAAGGCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATGAAGCTTTAAACATCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* * * * * * *
48915487 CCTCTTGAAGTTGCAATAAAGTTGGA-T-------AT-CAAGTCTTTTTCTTTGTAAAGTTGTAG
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATATAAGTCTTTATCTCTCTGAAGTTGTAG
* * *
48915543 TAAGAGCAAGATGAAGCTTCAAACATCAACTCCTATTCTCTTGAAGTTACAGTAAAGTAGGATTA
131 TAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGT-GG----
*
48915608 AAAAT
191 -GAAT
* * * *
48915613 AACGAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATAAAGCTTCAAACGTCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
48915678 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATAATAAGTCTTTATCTCTCTGAAGTTGTA
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAAT-ATAAGTCTTTATCTCTCTGAAGTTGTA
* * * *
48915743 GTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCTCTTAAAGTTGCAATAAAGTTGG-AT
130 GTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGAAT
* *
48915807 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAATGTCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* * *
48915872 CCTCTTGAAGTTGTAGTAAAGTGGGATTAAAAATAATAGTAAGTCTTTATCTCTCTAAAGTTGTA
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATA-TAAGTCTTTATCTCTCTGAAGTTGTA
* * *
48915937 GTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCTCTTGAAGTTGCAATAAAGTCGG-AT
130 GTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGAAT
* * *
48916001 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCTTTAAACATCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* * * *
48916066 CCTCTTGAAGTTGCAATAAAGTTGGA-T---AGC-----AAGTCTTTATCTATCTGAAGTTGTAG
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATATAAGTCTTTATCTCTCTGAAGTTGTAG
* **
48916122 TAAGAGCAAGATGAAACTTCAAACGCCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGATTA
131 TAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGG----
48916187 AAAAAAT
192 ----AAT
* *
48916194 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* * *
48916259 CCTCTTGAAGTTGCAATAAAGTCGGA-T---AGC-----AAGTCTTTATCTCTCTGAAGTTGTAG
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATATAAGTCTTTATCTCTCTGAAGTTGTAG
* * * *
48916315 TAAGAGGAAGATGAAGCTTCAAACGTCAATTCATATCCTCTTGAAATTGCAGTAAAGTGGGATTA
131 TAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGG----
48916380 AAAACAAT
192 -----AAT
*
48916388 AGCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* * * * * *
48916453 CCTATTGAAGTTGTAGTAAAGTTGCATTAAAAACAATAGTAAGTCTTTATCTCTCTAAAGTTATA
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATA-TAAGTCTTTATCTCTCTGAAGTTGTA
* * *
48916518 GTAAGAGCAAGATGAAGCTTCAAACATCAACTCCTATTCTCTTGAAGTTACAGTAAAGTAGGATT
130 GTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGT-GG---
*
48916583 AAAAAT
191 --GAAT
* * * *
48916589 AACGAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATAAAGCTTCAAACGTCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
48916654 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATAGTAAGTCTTTATCTCTCTGAAGTTGTA
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATA-TAAGTCTTTATCTCTCTGAAGTTGTA
* * * *
48916719 GTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCTCTTAAAGTTGCAATAAAGTTGG-AT
130 GTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGAAT
* *
48916783 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAATGTCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* *
48916848 CCTCTTGAAGTTGTAGTAAAGTGGGATTAAAAATAATAGTAAGTCTTTATCTCTCT-AA-----A
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATA-TAAGTCTTTATCTCTCTGAAGTTGTA
* * * **
48916907 GTAAGAACAAGATGAAGCTTTAAACATCAATTCCTATCCTCTTGAAGTTGCAATAAAGCCGG-AT
130 GTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGAAT
* * *
48916971 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCTTTAAACATCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* * * *
48917036 -CTCTTGAAGTTGCAATAAAGTTGGA-T---AGC-----AAGTCTTTATCTATCTGAAGTTGTAG
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATATAAGTCTTTATCTCTCTGAAGTTGTAG
* **
48917091 TAAGAGCAAGATGAAACTTCAAACGCCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGATTA
131 TAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGG----
48917156 AAAAAAAT
192 -----AAT
* * *
48917164 AGTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* * * *
48917229 CCTCTTGAAGTTGCAATAAAATCGGA-T---AGC-----AAGTCTTTATCTCTCTGAAGTTGTAG
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATATAAGTCTTTATCTCTCTGAAGTTGTAG
* * * *
48917285 TAAGAGGAAGATGAAGCTTCAAACGTCAATTCATATCCTCTTGAAATTGCAGTAAAGTGGGATTA
131 TAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGG----
48917350 AAAACAAT
192 -----AAT
*
48917358 AGCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
1 AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
* * * *
48917423 CCTATTAAAGTTGCAGTAAAGTTGCATTAAAAA
66 CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAA
48917456 TGAAGTTGCA
Statistics
Matches: 1632, Mismatches: 153, Indels: 109
0.86 0.08 0.06
Matches are distributed among these distances:
177 15 0.01
178 2 0.00
183 56 0.03
184 79 0.05
186 1 0.00
187 22 0.01
188 121 0.07
190 1 0.00
191 81 0.05
192 1 0.00
193 245 0.15
194 673 0.41
195 2 0.00
198 3 0.00
199 2 0.00
200 2 0.00
201 249 0.15
204 75 0.05
205 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (194 bp):
AGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTAT
CCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAACAATATAAGTCTTTATCTCTCTGAAGTTGTAG
TAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGAAT
Found at i:48917907 original size:194 final size:195
Alignment explanation
Indices: 48917517--48918506 Score: 1153
Period size: 194 Copynumber: 5.1 Consensus size: 195
48917507 TTGAAGTTGC
* * *
48917517 ATTAAAAACAACAGTAAGTCTTTATCTCTGTAAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAAC
1 ATTAAAAACAATAGTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAAC
* * * * * * *
48917582 ATCAACTCCTATTCTCTTGAAGTTACAGTAAAGTAGGATTAAAAATAACGAGTTTTTATCTCTCT
66 ATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGT-GG-----GAATAGCAAGTCTTTATCTCTCT
* *
48917647 AAAGTTGTAGTAAGAGCAAGATAAAGCTTCAAACGTCAATTCCTATCCTCTTGAAGTTGCAGTAA
125 GAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTATCCTCTTGAAGTTGCAGTAA
48917712 AGTGGG
190 AGTGGG
*
48917718 ATTAAAAACAATAGTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAAC
1 ATTAAAAACAATAGTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAAC
* *
48917783 ATCAATTCCTATCCTCTT-ACAGTTGCAATAAAGTTGG-ATAGCAAGTCTTTATCTCTCTGAAGT
66 ATCAATTCCTATCCTCTTGA-AGTTGCAGTAAAGTGGGAATAGCAAGTCTTTATCTCTCTGAAGT
* * *
48917846 TGTAGTAAGAGGAAGATGAAGCTTCAAATGTCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTGG
130 TGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGG
48917911 G
195 G
* * *
48917912 ATTAAAAATAATAGTAAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAAC
1 ATTAAAAACAATAGTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAAC
* *
48917977 ATCAATTCCTATCCTCTTGAAGTTGCAATAAAGTCGG-ATAGCAAGTCTTTATCTCTCTGAAGTT
66 ATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGAATAGCAAGTCTTTATCTCTCTGAAGTT
* * * * *
48918041 GTAGTAAGAGCAAGATAAAGCTTTAAACATCAATTCCTATCCTCTTGAAGTTGCAATAAAGTTGG
131 GTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGG
* * *
48918106 ----------ATAGCAAGTCTTTATCTATCTGAAGTTGTAGTAAGAGCAAGATGAAACTTCAAAC
1 ATTAAAAACAATAGTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAAC
** **
48918161 GCCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGATTAAAAAAATAATAAGTCTTTATCTCT
66 ATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGG--------AATAGCAAGTCTTTATCTCT
* * *
48918226 CTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCTCTTGAAGTTGCAAT
123 CTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTATCCTCTTGAAGTTGCAGT
*
48918291 AAAGTCGG
188 AAAGTGGG
* *
48918299 ----------ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGGAAGATGAAGCTTCAAAC
1 ATTAAAAACAATAGTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAAC
* * *
48918354 GTCAATTCATATCCTCTTGAAATTGCAGTAAAGTGGGATTAAAAACAATAGCAAGTCTTTATCTC
66 ATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGG---------AATAGCAAGTCTTTATCTC
* * * *
48918419 TCTGAAATTGCAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTACTATCCTATTGAAGTTGCAG
122 TCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTATCCTCTTGAAGTTGCAG
* *
48918484 TAAAGTTGC
187 TAAAGTGGG
48918493 ATTAAAAACAATAG
1 ATTAAAAACAATAG
48918507 CAGTCGTAGC
Statistics
Matches: 705, Mismatches: 62, Indels: 41
0.87 0.08 0.05
Matches are distributed among these distances:
184 83 0.12
193 174 0.25
194 352 0.50
195 1 0.00
200 2 0.00
201 89 0.13
204 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (195 bp):
ATTAAAAACAATAGTAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAAC
ATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGGAATAGCAAGTCTTTATCTCTCTGAAGTT
GTAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTGGG
Found at i:48918733 original size:6 final size:6
Alignment explanation
Indices: 48918724--48918818 Score: 54
Period size: 6 Copynumber: 16.5 Consensus size: 6
48918714 GATTTATTTC
* * * **
48918724 TAAATT TAAATT T-ACTT AAAACT TAAATT TAAATT T-GTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * * * * *
48918770 TAAATT T-AGTA TAAATT TAAA-A TAATTT TAAACT TAACTT TAAAAT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
48918816 TAA
1 TAA
48918819 GGTCCAATTA
Statistics
Matches: 62, Mismatches: 23, Indels: 8
0.67 0.25 0.09
Matches are distributed among these distances:
5 12 0.19
6 50 0.81
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (6 bp):
TAAATT
Found at i:48918750 original size:23 final size:23
Alignment explanation
Indices: 48918724--48918777 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
48918714 GATTTATTTC
48918724 TAAATTTAAATTTACTTAAAACT
1 TAAATTTAAATTTACTTAAAACT
** * *
48918747 TAAATTTAAATTTGTTTTAAATT
1 TAAATTTAAATTTACTTAAAACT
48918770 TAAATTTA
1 TAAATTTA
48918778 GTATAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAATTTAAATTTACTTAAAACT
Found at i:48918788 original size:23 final size:22
Alignment explanation
Indices: 48918724--48918790 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 22
48918714 GATTTATTTC
* *
48918724 TAAATTTAAATTTACTTAAAACT
1 TAAATTTAAATTTAGTT-AAATT
48918747 TAAATTTAAATTT-G-T---TT
1 TAAATTTAAATTTAGTTAAATT
48918764 TAAATTTAAATTTAGTATAAATT
1 TAAATTTAAATTTAGT-TAAATT
48918787 TAAA
1 TAAA
48918791 ATAATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 14 0.39
18 1 0.03
20 1 0.03
21 1 0.03
23 19 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (22 bp):
TAAATTTAAATTTAGTTAAATT
Found at i:48918799 original size:34 final size:34
Alignment explanation
Indices: 48918747--48918811 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
48918737 ACTTAAAACT
* ** *
48918747 TAAATTTAAATTTGTTTTAAATTTAAATTTAGTA
1 TAAATTTAAAATAATTTTAAACTTAAATTTAGTA
*
48918781 TAAATTTAAAATAATTTTAAACTTAACTTTA
1 TAAATTTAAAATAATTTTAAACTTAAATTTA
48918812 AAATTAAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (34 bp):
TAAATTTAAAATAATTTTAAACTTAAATTTAGTA
Done.