Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 174 of 182
Found at i:52962374 original size:11 final size:10
Alignment explanation
Indices: 52962358--52962396 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
52962348 GCGCAAATTC
52962358 ATATAAATACT
1 ATATAAATA-T
52962369 ATATAAATAT
1 ATATAAATAT
52962379 ATATAATATAT
1 ATATAA-ATAT
*
52962390 ACATAAA
1 ATATAAA
52962397 AAAAATGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (10 bp):
ATATAAATAT
Found at i:52965429 original size:44 final size:45
Alignment explanation
Indices: 52965370--52965521 Score: 150
Period size: 44 Copynumber: 3.4 Consensus size: 45
52965360 TCCGCTCCAT
*
52965370 TGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGCTCCGC
1 TGTAATCTCAGGGAGATAGGATCTACTATCTTTGATCTGCTCCGC
* ** **
52965414 TGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAGGATCTACTATCTTTGATCTGCTCCGC
* * * * *
52965458 TGTAACCTCAGGGAGAT-GAGATCTGA-AATTCTTTGGTCTGTTCCCC
1 TGTAATCTCAGGGAGATAG-GATCT-ACTA-TCTTTGATCTGCTCCGC
52965504 TGTAATCTCAGGGAGATA
1 TGTAATCTCAGGGAGATA
52965522 AGACCTGTAT
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
44 57 0.67
45 1 0.01
46 27 0.32
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (45 bp):
TGTAATCTCAGGGAGATAGGATCTACTATCTTTGATCTGCTCCGC
Found at i:52983532 original size:18 final size:19
Alignment explanation
Indices: 52983511--52983546 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52983501 TAGTAAGCCC
52983511 CTCAA-AACCCAACCCAAA
1 CTCAATAACCCAACCCAAA
*
52983529 CTCAATTACCCAACCCAA
1 CTCAATAACCCAACCCAA
52983547 TAAAACTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (19 bp):
CTCAATAACCCAACCCAAA
Found at i:52983720 original size:9 final size:9
Alignment explanation
Indices: 52983704--52983746 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
52983694 GGTATTTTTC
52983704 GGTAATTCG
1 GGTAATTCG
*
52983713 GTTAATTCG
1 GGTAATTCG
52983722 GGTAATTCG
1 GGTAATTCG
52983731 GGTAATTCG
1 GGTAATTCG
52983740 GGTAATT
1 GGTAATT
52983747 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:52983924 original size:12 final size:12
Alignment explanation
Indices: 52983907--52983931 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52983897 AGTAATTTCG
52983907 GGTCGGTTAACC
1 GGTCGGTTAACC
52983919 GGTCGGTTAACC
1 GGTCGGTTAACC
52983931 G
1 G
52983932 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:52985745 original size:19 final size:19
Alignment explanation
Indices: 52985721--52985757 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52985711 TTTATAATAC
* *
52985721 TTATATGTTATGTTATTTT
1 TTATATATTATGTAATTTT
52985740 TTATATATTATGTAATTT
1 TTATATATTATGTAATTT
52985758 AGAACACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TTATATATTATGTAATTTT
Found at i:52987352 original size:83 final size:83
Alignment explanation
Indices: 52987213--52987366 Score: 249
Period size: 83 Copynumber: 1.9 Consensus size: 83
52987203 TAATTTTTCT
52987213 TACATCCATCCTCAGAAAAAGAGAGATTTACCTTCTCTAAAATACTTATGTGATAATTTGAAAGA
1 TACATCCATCCTCAGAAAAAGAGAGATTTACCTTCTCTAAAATACTTATGTGATAATTTGAAAGA
52987278 TCAAAATTATAAAACTCA
66 TCAAAATTATAAAACTCA
* **
52987296 TACATCCCATCCTCAG-AAAAGAGAGATTTACCTTTTCTAAAATA-TTGATGTGATAATTTGGCA
1 TACAT-CCATCCTCAGAAAAAGAGAGATTTACCTTCTCTAAAATACTT-ATGTGATAATTTGAAA
52987359 GATCAAAA
64 GATCAAAA
52987367 AATCACAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
82 2 0.03
83 54 0.82
84 10 0.15
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (83 bp):
TACATCCATCCTCAGAAAAAGAGAGATTTACCTTCTCTAAAATACTTATGTGATAATTTGAAAGA
TCAAAATTATAAAACTCA
Found at i:52987554 original size:22 final size:22
Alignment explanation
Indices: 52987512--52987554 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
52987502 ATTAAGAATA
**
52987512 AATTAATTTTTATTATTTTTAG
1 AATTAATTTTTATTAAGTTTAG
*
52987534 AATTATTTTTTATTAAGTTTA
1 AATTAATTTTTATTAAGTTTA
52987555 ATGAATTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
AATTAATTTTTATTAAGTTTAG
Found at i:52992352 original size:73 final size:73
Alignment explanation
Indices: 52992233--52992374 Score: 232
Period size: 73 Copynumber: 1.9 Consensus size: 73
52992223 ATCAGATTTT
* * *
52992233 AAAAAAGGGATCATGCTCAGTAAGTTAGGACACAATCTTTTCTTAATTC-CTGAGATCGTTTAAA
1 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCTC-GAGATCGTTTAAA
52992297 ACTTGAGAA
65 ACTTGAGAA
*
52992306 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCGTTTAAAA
1 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCTCGAGATCGTTTAAAA
52992371 CTTG
66 CTTG
52992375 TTTGAAAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 63 0.98
74 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (73 bp):
AAAAAAGGAATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCTCGAGATCGTTTAAAA
CTTGAGAA
Found at i:52992900 original size:13 final size:14
Alignment explanation
Indices: 52992876--52992904 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
52992866 TATACATATA
52992876 AATAATTATATAAT
1 AATAATTATATAAT
52992890 AATAA-TATATAAT
1 AATAATTATATAAT
52992903 AA
1 AA
52992905 GACAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAATTATATAAT
Found at i:52992926 original size:73 final size:73
Alignment explanation
Indices: 52992781--52992944 Score: 171
Period size: 73 Copynumber: 2.3 Consensus size: 73
52992771 GTTTAAAATG
*
52992781 AAAGAAAAGATATAAATAAGTAAATAATAATATTAATATTAATAGTAGAATAACAAATAATCTAA
1 AAAGAAAAGATATAAATAAGTAAATAATAATATTAATAATAATAGTAGAATAACAAATAATCTAA
*
52992846 AGTTTTAA
66 AGATTTAA
* *
52992854 AAAGAAAAGATATATACAT-A-TAAATAATTATA-TAATAATAATA-TATAATAAGACAAATATA
1 AAAGAAAAGATATA-A-ATAAGTAAATAATAATATTAATAATAATAGTAGAAT-A-ACAAATA-A
*
52992915 TTTAAA-ATTTAA
61 TCTAAAGATTTAA
*
52992927 ATAAG-TAA-ATATAAATAA
1 A-AAGAAAAGATATAAATAA
52992945 AATATAGTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
70 2 0.03
71 7 0.09
72 16 0.21
73 40 0.51
74 11 0.14
75 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (73 bp):
AAAGAAAAGATATAAATAAGTAAATAATAATATTAATAATAATAGTAGAATAACAAATAATCTAA
AGATTTAA
Found at i:52994147 original size:13 final size:13
Alignment explanation
Indices: 52994129--52994153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52994119 CGTGTTTGTT
52994129 TCATTTTGCAGGG
1 TCATTTTGCAGGG
52994142 TCATTTTGCAGG
1 TCATTTTGCAGG
52994154 AGGCAGCGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (13 bp):
TCATTTTGCAGGG
Found at i:53001619 original size:255 final size:255
Alignment explanation
Indices: 53001300--53001809 Score: 1020
Period size: 255 Copynumber: 2.0 Consensus size: 255
53001290 TGGAATTAAA
53001300 ACTTATTAAGTCTAGTTTCTCATAGAAGAAACGGTGTAAGTAATGGAATTGTAAATCATGAGATA
1 ACTTATTAAGTCTAGTTTCTCATAGAAGAAACGGTGTAAGTAATGGAATTGTAAATCATGAGATA
53001365 TAATAAATTTGAATAAAAATCATAAAAAATGAATAAAAATAATTAGAGGATTAAATTTATATGTT
66 TAATAAATTTGAATAAAAATCATAAAAAATGAATAAAAATAATTAGAGGATTAAATTTATATGTT
53001430 TAAAATCCAGAATGAGTCTATTTTCAATAGAAATAAACAGAAACATCATCCAAATTCTGTACAAA
131 TAAAATCCAGAATGAGTCTATTTTCAATAGAAATAAACAGAAACATCATCCAAATTCTGTACAAA
53001495 GAGATAATTAATTTTTAGTGAAGAGGGGTCGAAATAAACAGAAACATCATCCAAATTCTG
196 GAGATAATTAATTTTTAGTGAAGAGGGGTCGAAATAAACAGAAACATCATCCAAATTCTG
53001555 ACTTATTAAGTCTAGTTTCTCATAGAAGAAACGGTGTAAGTAATGGAATTGTAAATCATGAGATA
1 ACTTATTAAGTCTAGTTTCTCATAGAAGAAACGGTGTAAGTAATGGAATTGTAAATCATGAGATA
53001620 TAATAAATTTGAATAAAAATCATAAAAAATGAATAAAAATAATTAGAGGATTAAATTTATATGTT
66 TAATAAATTTGAATAAAAATCATAAAAAATGAATAAAAATAATTAGAGGATTAAATTTATATGTT
53001685 TAAAATCCAGAATGAGTCTATTTTCAATAGAAATAAACAGAAACATCATCCAAATTCTGTACAAA
131 TAAAATCCAGAATGAGTCTATTTTCAATAGAAATAAACAGAAACATCATCCAAATTCTGTACAAA
53001750 GAGATAATTAATTTTTAGTGAAGAGGGGTCGAAATAAACAGAAACATCATCCAAATTCTG
196 GAGATAATTAATTTTTAGTGAAGAGGGGTCGAAATAAACAGAAACATCATCCAAATTCTG
53001810 TACAGTGAAA
Statistics
Matches: 255, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 255 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.30
Consensus pattern (255 bp):
ACTTATTAAGTCTAGTTTCTCATAGAAGAAACGGTGTAAGTAATGGAATTGTAAATCATGAGATA
TAATAAATTTGAATAAAAATCATAAAAAATGAATAAAAATAATTAGAGGATTAAATTTATATGTT
TAAAATCCAGAATGAGTCTATTTTCAATAGAAATAAACAGAAACATCATCCAAATTCTGTACAAA
GAGATAATTAATTTTTAGTGAAGAGGGGTCGAAATAAACAGAAACATCATCCAAATTCTG
Found at i:53007689 original size:14 final size:15
Alignment explanation
Indices: 53007670--53007730 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
53007660 AACCCAAATT
53007670 AACCC-ACTAGCCTA
1 AACCCAACTAGCCTA
*
53007684 AACCCAATTAGCCTA
1 AACCCAACTAGCCTA
* *
53007699 AGCCCAAC-ACCCT-
1 AACCCAACTAGCCTA
*
53007712 AGCCCAACTAGCCTA
1 AACCCAACTAGCCTA
53007727 AACC
1 AACC
53007731 AGAAATCAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 8 0.21
14 13 0.34
15 17 0.45
ACGTcount: A:0.36, C:0.43, G:0.08, T:0.13
Consensus pattern (15 bp):
AACCCAACTAGCCTA
Found at i:53008056 original size:11 final size:10
Alignment explanation
Indices: 53008040--53008081 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
53008030 ATTTTATAAG
53008040 AAAAAAATAC
1 AAAAAAATAC
*
53008050 AAAAAAATTC
1 AAAAAAATAC
53008060 AAAAAAA-AC
1 AAAAAAATAC
53008069 AAGAAAGAATAC
1 AA-AAA-AATAC
53008081 A
1 A
53008082 TCGTTTAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 3 0.11
10 19 0.70
11 2 0.07
12 3 0.11
ACGTcount: A:0.76, C:0.10, G:0.05, T:0.10
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:53016025 original size:3 final size:3
Alignment explanation
Indices: 53016017--53016051 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
53016007 ACGCTACCGC
* *
53016017 TGT TGT TGT TAT TTT TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
53016052 CCACCTTCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.69
Consensus pattern (3 bp):
TGT
Found at i:53021720 original size:59 final size:60
Alignment explanation
Indices: 53021605--53021746 Score: 150
Period size: 59 Copynumber: 2.4 Consensus size: 60
53021595 TAGCATTTTT
* *
53021605 TTTTTCC--AATTTGATACCTAAACTTTGTTGGGTCCAATTTGGTATCTAACCTTGACA-C
1 TTTTTCCTTAATTTGATACCTAAACTTTGTTGGGCCCAATTTGGTACCTAA-CTTGACATC
* * * *
53021663 TTTTT-CTTAATTTGATATCTAAACTTTTTTTGGCCCAATTTGGTACCTGAA-TGTGACATT
1 TTTTTCCTTAATTTGATACCTAAACTTTGTTGGGCCCAATTTGGTACCT-AACT-TGACATC
* *
53021723 TTTTTCCTTAATTTGGTACGTAAA
1 TTTTTCCTTAATTTGATACCTAAA
53021747 TTTATTAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
57 1 0.01
58 6 0.09
59 40 0.58
60 7 0.10
61 15 0.22
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (60 bp):
TTTTTCCTTAATTTGATACCTAAACTTTGTTGGGCCCAATTTGGTACCTAACTTGACATC
Found at i:53022194 original size:61 final size:60
Alignment explanation
Indices: 53022105--53022219 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
53022095 AAATCAAAAA
* * *
53022105 AAAAAAGATTAGGTATCAAATTAGGAAAAAAAAGTCAAGTTTAGATACCAAATTAGATCCC
1 AAAAAAGATTAAGTACCAAATTAAG-AAAAAAAGTCAAGTTTAGATACCAAATTAGATCCC
* * * *
53022166 AAAAAGGATTAAGTACCAACTTAAGAAAAAATGTCAAGTTTAGGTACCAAATTA
1 AAAAAAGATTAAGTACCAAATTAAGAAAAAAAGTCAAGTTTAGATACCAAATTA
53022220 AGAAAAGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 27 0.57
61 20 0.43
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.23
Consensus pattern (60 bp):
AAAAAAGATTAAGTACCAAATTAAGAAAAAAAGTCAAGTTTAGATACCAAATTAGATCCC
Found at i:53022213 original size:31 final size:31
Alignment explanation
Indices: 53022178--53022337 Score: 159
Period size: 31 Copynumber: 5.3 Consensus size: 31
53022168 AAAGGATTAA
* *
53022178 GTACCAACTTAAGAAAAAATGTCAAGTTTAG
1 GTACCAAATTAAGAAAAAGTGTCAAGTTTAG
53022209 GTACCAAATTAAG-AAAAGTGTCAAGTTTAG
1 GTACCAAATTAAGAAAAAGTGTCAAGTTTAG
** *
53022239 GTATAAAATTAGGAAAAAGTGTCAAGTTTAG
1 GTACCAAATTAAGAAAAAGTGTCAAGTTTAG
* ** **
53022270 ATACCAAATTGGGCCAAA----CAAAGTTTAG
1 GTACCAAATTAAGAAAAAGTGTC-AAGTTTAG
* *
53022298 GTACCAAATTATGAAAAAGTGTCAAATTTAG
1 GTACCAAATTAAGAAAAAGTGTCAAGTTTAG
*
53022329 GTACTAAAT
1 GTACCAAAT
53022338 GTTATATTAA
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.01
28 21 0.20
30 26 0.25
31 56 0.53
32 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (31 bp):
GTACCAAATTAAGAAAAAGTGTCAAGTTTAG
Found at i:53022317 original size:59 final size:59
Alignment explanation
Indices: 53022108--53022337 Score: 187
Period size: 61 Copynumber: 3.8 Consensus size: 59
53022098 TCAAAAAAAA
* * *
53022108 AAAGATTAGGTATCAAATTAGGAAAAAAAAGTCAAGTTTAGATACCAAATTAGATCCCAAA-
1 AAAGATTAGGTACCAAATTAGG-AAAAAATGTCAAGTTTAGATACCAAATT-GA-GCCAAAC
* * * * * * *
53022169 AAGGATTAAGTACCAACTTAAGAAAAAATGTCAAGTTTAGGTACCAAATTAAG-AAAAGTGTC
1 AAAGATTAGGTACCAAATTAGGAAAAAATGTCAAGTTTAGATACCAAATTGAGCCAAA----C
* ** * *
53022231 -AAGTTTAGGTATAAAATTAGGAAAAAGTGTCAAGTTTAGATACCAAATTGGGCCAAAC
1 AAAGATTAGGTACCAAATTAGGAAAAAATGTCAAGTTTAGATACCAAATTGAGCCAAAC
* * * * * *
53022289 AAAGTTTAGGTACCAAATTATGAAAAAGTGTCAAATTTAGGTACTAAAT
1 AAAGATTAGGTACCAAATTAGGAAAAAATGTCAAGTTTAGATACCAAAT
53022338 GTTATATTAA
Statistics
Matches: 134, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
57 3 0.02
58 1 0.01
59 43 0.32
60 26 0.19
61 58 0.43
62 3 0.02
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (59 bp):
AAAGATTAGGTACCAAATTAGGAAAAAATGTCAAGTTTAGATACCAAATTGAGCCAAAC
Found at i:53022328 original size:120 final size:122
Alignment explanation
Indices: 53022113--53022337 Score: 303
Period size: 120 Copynumber: 1.9 Consensus size: 122
53022103 AAAAAAAAGA
* * *
53022113 TTAGGTATCAAATTAGGAAAAAAAAGTCAAGTTTAGATACCAAATTAGATCCCAAAAAGGATTAA
1 TTAGGTATAAAATTAGGAAAAAAAAGTCAAGTTTAGATACCAAATTAGAGCCCAAAAAAGATTAA
* *
53022178 GTACCAACTTAAGAAAAAATGTCAAGTTTAGGTACCAAATTAAGAAAAGTGTCAAGT
66 GTACCAAATTAAGAAAAAATGTCAAATTTAGGTACCAAATTAAGAAAAGTGTCAAGT
** * *
53022235 TTAGGTATAAAATTAGG-AAAAAGTGTCAAGTTTAGATACCAAATT-G-GGCCAAACAAAGTTTA
1 TTAGGTATAAAATTAGGAAAAAAAAGTCAAGTTTAGATACCAAATTAGAGCCCAAA-AAAGATTA
* * * *
53022297 GGTACCAAATTATGAAAAAGTGTCAAATTTAGGTACTAAAT
65 AGTACCAAATTAAGAAAAAATGTCAAATTTAGGTACCAAAT
53022338 GTTATATTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 5 0.06
120 42 0.47
121 26 0.29
122 16 0.18
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (122 bp):
TTAGGTATAAAATTAGGAAAAAAAAGTCAAGTTTAGATACCAAATTAGAGCCCAAAAAAGATTAA
GTACCAAATTAAGAAAAAATGTCAAATTTAGGTACCAAATTAAGAAAAGTGTCAAGT
Found at i:53031112 original size:74 final size:74
Alignment explanation
Indices: 53031021--53031169 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
53031011 ATAAAAACTG
*
53031021 GACCATAAGTTGAACCACTAGACTTTGTTACATCTGCCAGAGCAGGCTGTGGAATTCTAAGAGCC
1 GACCATAAGTTGAACCACTAGACTTTGTTACATCTGCCAGAGCAGGCTGTGGAATTCAAAGAGCC
53031086 CAGCCATCA
66 CAGCCATCA
53031095 GACCATAAGTTGAACCACTAGACTTTGTTACATCTGCCAGAGCAGGCTGTGGAATTCAAAGAGCC
1 GACCATAAGTTGAACCACTAGACTTTGTTACATCTGCCAGAGCAGGCTGTGGAATTCAAAGAGCC
53031160 CAGCCATCA
66 CAGCCATCA
53031169 G
1 G
53031170 TAATTTCAGC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (74 bp):
GACCATAAGTTGAACCACTAGACTTTGTTACATCTGCCAGAGCAGGCTGTGGAATTCAAAGAGCC
CAGCCATCA
Found at i:53034778 original size:23 final size:22
Alignment explanation
Indices: 53034747--53034798 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
53034737 AAAAAAGTAA
53034747 TTTTTTTTTCACTTTTTCAATT
1 TTTTTTTTTCACTTTTTCAATT
*
53034769 TTTTTCTTTTCACTTTTTTAATT
1 TTTTT-TTTTCACTTTTTCAATT
53034792 TTTTTTT
1 TTTTTTT
53034799 GTCAGACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTTTTCACTTTTTCAATT
Found at i:53037846 original size:40 final size:40
Alignment explanation
Indices: 53037802--53037916 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 40
53037792 ATTTAATTAG
53037802 ATTTTAATGATTTGAGGATTAAATTCAAAATAGTTTATAA
1 ATTTTAATGATTTGAGGATTAAATTCAAAATAGTTTATAA
*
53037842 ATTTT-AT-A-TT-A--ATATAAATT-----TA-TTTAATTAG
1 ATTTTAATGATTTGAGGAT-TAAATTCAAAATAGTTT-A-TAA
53037873 ATTTTAATGATTTGAGGATTAAATTCAAAATAGTTTATAA
1 ATTTTAATGATTTGAGGATTAAATTCAAAATAGTTTATAA
53037913 ATTT
1 ATTT
53037917 AGAAAGTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 30
0.64 0.02 0.33
Matches are distributed among these distances:
29 3 0.05
30 3 0.05
31 7 0.12
32 2 0.03
33 1 0.02
34 4 0.07
35 7 0.12
36 7 0.12
37 4 0.07
38 1 0.02
39 2 0.03
40 11 0.19
41 3 0.05
42 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.47
Consensus pattern (40 bp):
ATTTTAATGATTTGAGGATTAAATTCAAAATAGTTTATAA
Found at i:53037859 original size:17 final size:16
Alignment explanation
Indices: 53037837--53037878 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
53037827 CAAAATAGTT
53037837 TATAAATTTTATATTAA
1 TATAAATTTTAT-TTAA
53037854 TATAAA-TTTATTTAA
1 TATAAATTTTATTTAA
*
53037869 T-TAGATTTTA
1 TATAAATTTTA
53037879 ATGATTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 9 0.39
16 5 0.22
17 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TATAAATTTTATTTAA
Found at i:53037876 original size:14 final size:16
Alignment explanation
Indices: 53037837--53037869 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
53037827 CAAAATAGTT
53037837 TATAAATTTTATATTAA
1 TATAAA-TTTATATTAA
53037854 TATAAATTTAT-TTAA
1 TATAAATTTATATTAA
53037869 T
1 T
53037870 TAGATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAAATTTATATTAA
Found at i:53037880 original size:71 final size:71
Alignment explanation
Indices: 53037771--53037916 Score: 283
Period size: 71 Copynumber: 2.1 Consensus size: 71
53037761 GATTTATTTT
*
53037771 ATTTTATATTAATATTAATTTATTTAATTAGATTTTAATGATTTGAGGATTAAATTCAAAATAGT
1 ATTTTATATTAATATAAATTTATTTAATTAGATTTTAATGATTTGAGGATTAAATTCAAAATAGT
53037836 TTATAA
66 TTATAA
53037842 ATTTTATATTAATATAAATTTATTTAATTAGATTTTAATGATTTGAGGATTAAATTCAAAATAGT
1 ATTTTATATTAATATAAATTTATTTAATTAGATTTTAATGATTTGAGGATTAAATTCAAAATAGT
53037907 TTATAA
66 TTATAA
53037913 ATTT
1 ATTT
53037917 AGAAAGTTAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.49
Consensus pattern (71 bp):
ATTTTATATTAATATAAATTTATTTAATTAGATTTTAATGATTTGAGGATTAAATTCAAAATAGT
TTATAA
Found at i:53038900 original size:99 final size:99
Alignment explanation
Indices: 53038775--53038973 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
53038765 ACTTTAAATA
53038775 TTATTACCTAAACAAAAATATTAACCCATAGTCCCTCCCCTAATTTTTAAATAGAAAGATAGTGT
1 TTATTACCTAAACAAAAATATTAACCCATAGTCCCTCCCCTAATTTTTAAATAGAAAGATAGTGT
53038840 GCTTCAACACACTCGAACCCATATCCTCCTACAC
66 GCTTCAACACACTCGAACCCATATCCTCCTACAC
53038874 TTATTACCTAAACAAAAATATTAACCCATAGTCCCTCCCCTAATTTTTAAATAGAAAGATAGTGT
1 TTATTACCTAAACAAAAATATTAACCCATAGTCCCTCCCCTAATTTTTAAATAGAAAGATAGTGT
53038939 GCTTCAACACACTCGAACCCATATCCTCCTACAC
66 GCTTCAACACACTCGAACCCATATCCTCCTACAC
53038973 T
1 T
53038974 GACAATAATA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.29
Consensus pattern (99 bp):
TTATTACCTAAACAAAAATATTAACCCATAGTCCCTCCCCTAATTTTTAAATAGAAAGATAGTGT
GCTTCAACACACTCGAACCCATATCCTCCTACAC
Found at i:53039580 original size:21 final size:21
Alignment explanation
Indices: 53039529--53039569 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53039519 TTCAAATCTT
* *
53039529 AAACCCTGAATCTTGAATCAC
1 AAACTCTGAATCTCGAATCAC
53039550 AAACTCTGAATCTCGAATCA
1 AAACTCTGAATCTCGAATCA
53039570 TAAATCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (21 bp):
AAACTCTGAATCTCGAATCAC
Found at i:53044211 original size:17 final size:17
Alignment explanation
Indices: 53044198--53044551 Score: 154
Period size: 18 Copynumber: 20.6 Consensus size: 17
53044188 GTTTTTTTTT
*
53044198 AACACGAGAATTTTTGAA
1 AACACGAAAATTTTT-AA
* *
53044216 AACACGAGAATTTGT-A
1 AACACGAAAATTTTTAA
*
53044232 AACACGAAAATTTTAAA
1 AACACGAAAATTTTTAA
53044249 AACACGAAAATTTTTAGA
1 AACACGAAAATTTTTA-A
53044267 AACACGAAAATTTTTAA
1 AACACGAAAATTTTTAA
** *
53044284 AACACGACATTTTTTTGA
1 AACACGA-AAATTTTTAA
53044302 AACACG---A--TTTAA
1 AACACGAAAATTTTTAA
* * *
53044314 AAAAC-AAAA--ATTGA
1 AACACGAAAATTTTTAA
** * *
53044328 AATGCGAGAATATTTTGA
1 AACACGAAAAT-TTTTAA
** *
53044346 AACACGAATTTTTTTTA
1 AACACGAAAATTTTTAA
* *
53044363 AACGCGAGAATTTTTGAA
1 AACACGAAAATTTTT-AA
* * * *
53044381 CACATGAAAA-CTTTGA
1 AACACGAAAATTTTTAA
* *
53044397 AACACCG-GAGTTTTTGAA
1 AACA-CGAAAATTTTT-AA
* * *
53044415 AACACGAGAATTTATGA
1 AACACGAAAATTTTTAA
** *
53044432 AATGCGAAAATTTGTGAA
1 AACACGAAAATTT-TTAA
**
53044450 AACACGTAATTTTTTTAAAAAA
1 AACACG-AAAATTTTT----AA
*
53044472 AACACGAAAATTTTTGA
1 AACACGAAAATTTTTAA
* * *
53044489 AACGCCAGAATTTTTGAA
1 AACACGAAAATTTTT-AA
*
53044507 AACACGAAGATTTTTAA
1 AACACGAAAATTTTTAA
53044524 AACACGAAAATTTTTGAA
1 AACACGAAAATTTTT-AA
53044542 AACACGAAAA
1 AACACGAAAA
53044552 CACAAAATTT
Statistics
Matches: 247, Mismatches: 66, Indels: 46
0.69 0.18 0.13
Matches are distributed among these distances:
12 8 0.03
14 7 0.03
15 3 0.01
16 18 0.07
17 89 0.36
18 102 0.41
19 5 0.02
21 7 0.03
22 8 0.03
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (17 bp):
AACACGAAAATTTTTAA
Found at i:53044211 original size:18 final size:18
Alignment explanation
Indices: 53044171--53044228 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
53044161 CAGTATTTCT
*
53044171 TTTTTTTTAAAACGA-AA
1 TTTTTTTTAACACGAGAA
53044188 GTTTTTTTTTAACACGAGAA
1 --TTTTTTTTAACACGAGAA
***
53044208 TTTTTGAAAACACGAGAA
1 TTTTTTTTAACACGAGAA
53044226 TTT
1 TTT
53044229 GTAAACACGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 18 0.53
19 14 0.41
20 2 0.06
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (18 bp):
TTTTTTTTAACACGAGAA
Found at i:53044277 original size:35 final size:34
Alignment explanation
Indices: 53044198--53044551 Score: 145
Period size: 35 Copynumber: 10.3 Consensus size: 34
53044188 GTTTTTTTTT
* * * *
53044198 AACACGAGAATTTTTGAAAACACGAGAATTTGT-A
1 AACACGA-AAATTTTAAAAACACGAAAATTTTTGA
53044232 AACACGAAAATTTTAAAAACACGAAAATTTTTAGA
1 AACACGAAAATTTTAAAAACACGAAAATTTTT-GA
* **
53044267 AACACGAAAATTTTTAAAACACGACATTTTTTTGA
1 AACACGAAAATTTTAAAAACACGA-AAATTTTTGA
*
53044302 AACACG---A-TTTAAAAA-AC-AAAA--ATTGA
1 AACACGAAAATTTTAAAAACACGAAAATTTTTGA
** * ** *
53044328 AATGCGAGAATATTTT-GAAACACGAATTTTTTTTA
1 AACACGA-AA-ATTTTAAAAACACGAAAATTTTTGA
* * * * * *
53044363 AACGCGAGAATTTTTGAACACATGAAAA-CTTTGA
1 AACACGA-AAATTTTAAAAACACGAAAATTTTTGA
* ** * * *
53044397 AACACCGGAGTTTTTGAAAACACGAGAATTTATGA
1 AACA-CGAAAATTTTAAAAACACGAAAATTTTTGA
** * ** *
53044432 AATGCGAAAATTTGTGAAAACACGTAATTTTTTTAAAAAA
1 AACACGAAAATTT-TAAAAACACG-AAAATTTTT----GA
** * * *
53044472 AACACGAAAATTTTTGAAACGCCAGAATTTTTGAA
1 AACACGAAAATTTTAAAAACACGAAAATTTTTG-A
* *
53044507 AACACGAAGATTTTTAAAACACGAAAATTTTTGAA
1 AACACGAAAATTTTAAAAACACGAAAATTTTTG-A
53044542 AACACGAAAA
1 AACACGAAAA
53044552 CACAAAATTT
Statistics
Matches: 236, Mismatches: 61, Indels: 45
0.69 0.18 0.13
Matches are distributed among these distances:
26 8 0.03
28 1 0.00
29 1 0.00
30 2 0.01
31 11 0.05
32 6 0.03
33 23 0.10
34 40 0.17
35 109 0.46
36 11 0.05
38 6 0.03
39 6 0.03
40 12 0.05
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (34 bp):
AACACGAAAATTTTAAAAACACGAAAATTTTTGA
Found at i:53044432 original size:18 final size:18
Alignment explanation
Indices: 53044407--53044551 Score: 125
Period size: 17 Copynumber: 8.0 Consensus size: 18
53044397 AACACCGGAG
*
53044407 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* **
53044425 TTTATG-AAATGCGAAAA
1 TTTTTGAAAACACGAAAA
* **
53044442 TTTGTGAAAACACGTAATT
1 TTTTTGAAAACACG-AAAA
*
53044461 TTTTTAAAAAAAACACGAAAA
1 TTTTT---GAAAACACGAAAA
* * *
53044482 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
*
53044499 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
53044517 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
53044534 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
53044552 CACAAAATTT
Statistics
Matches: 98, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
17 43 0.44
18 34 0.35
19 6 0.06
21 7 0.07
22 8 0.08
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:53044484 original size:57 final size:56
Alignment explanation
Indices: 53044413--53044525 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 56
53044403 GGAGTTTTTG
* * * **
53044413 AAAACACGAGAATTTATGAAATGCGAAAATTTGTGAAAACACGTAATTTTTTTAAAA
1 AAAACACGAAAATTTATGAAACGCCAAAATTTGTGAAAACACG-AAGATTTTTAAAA
* * *
53044470 AAAACACGAAAATTTTTGAAACGCCAGAATTTTTGAAAACACGAAGATTTTTAAAA
1 AAAACACGAAAATTTATGAAACGCCAAAATTTGTGAAAACACGAAGATTTTTAAAA
53044526 CACGAAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 11 0.23
57 37 0.77
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (56 bp):
AAAACACGAAAATTTATGAAACGCCAAAATTTGTGAAAACACGAAGATTTTTAAAA
Found at i:53044710 original size:17 final size:17
Alignment explanation
Indices: 53044661--53044716 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
53044651 TTGAAAACAC
53044661 GAAAACACGAATTTTTT
1 GAAAACACGAATTTTTT
* *
53044678 G-AAACATGAGAATTTTT
1 GAAAACACGA-ATTTTTT
*
53044695 GAAAACACGATTTTTTT
1 GAAAACACGAATTTTTT
53044712 AGAAA
1 -GAAA
53044717 GAAACACGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.23
17 13 0.42
18 11 0.35
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (17 bp):
GAAAACACGAATTTTTT
Found at i:53044787 original size:17 final size:17
Alignment explanation
Indices: 53044765--53044803 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
53044755 TATTATTATT
53044765 ATTTTGAA-ACACGAGAA
1 ATTTTGAAGACACGA-AA
*
53044782 ATTTTGAAGACATGAAA
1 ATTTTGAAGACACGAAA
53044799 ATTTT
1 ATTTT
53044804 TTAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (17 bp):
ATTTTGAAGACACGAAA
Found at i:53045517 original size:31 final size:31
Alignment explanation
Indices: 53045479--53045540 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
53045469 AAAATATAAT
*
53045479 TTTAG-AAAGTTTTGGGGTCAAAATGTAAAAA
1 TTTAGAAAAG-TTTGGGGTCAAAATGCAAAAA
53045510 TTTAGAAAAGTTTGGGGTCAAAATGCAAAAA
1 TTTAGAAAAGTTTGGGGTCAAAATGCAAAAA
53045541 AATTTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.29
Consensus pattern (31 bp):
TTTAGAAAAGTTTGGGGTCAAAATGCAAAAA
Found at i:53045541 original size:32 final size:33
Alignment explanation
Indices: 53045479--53045550 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 33
53045469 AAAATATAAT
*
53045479 TTTAG-AAAGTTTTGGGGTCAAAATG-TAAAAA
1 TTTAGAAAAGTTTTGGGGTCAAAATGAAAAAAA
53045510 TTTAGAAAAG-TTTGGGGTCAAAATGCAAAAAAA
1 TTTAGAAAAGTTTTGGGGTCAAAATG-AAAAAAA
53045543 TTTA-AAAA
1 TTTAGAAAA
53045551 TTCTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 20 0.54
32 8 0.22
33 9 0.24
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.29
Consensus pattern (33 bp):
TTTAGAAAAGTTTTGGGGTCAAAATGAAAAAAA
Found at i:53045900 original size:74 final size:73
Alignment explanation
Indices: 53045728--53047458 Score: 1586
Period size: 74 Copynumber: 22.7 Consensus size: 73
53045718 CTCGGCGTGC
* * * * * * * *
53045728 GACCCGAGACTCAACTCACCTCTTGGATTATGAGTTGATCTTCGAAAAACAAAAATCGAA-AATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAAT-TAAGAATA
53045792 CCTC-GACATGT
65 CCTCAG-C--GT
* *
53045803 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATGAATTGAAGAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATT-AAGAATA
*
53045868 CCTCGGCGT
65 CCTCAGCGT
*
53045877 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATGAATTGAAGAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATT-AAGAATA
*
53045942 CCTCGGCGT
65 CCTCAGCGT
*
53045951 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATGAATTGAAGAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATT-AAGAATA
*
53046016 CCTCGGCGT
65 CCTCAGCGT
*
53046025 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAATGAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA-TT-AA-G-A
* *
53046090 ATACCTCGGCAT
62 ATACCTCAGCGT
** * * *
53046102 GGTCCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTAAAAAACATAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACATAAA-TT--AA
* * *
53046167 GAAATACATCGGTGT
60 G-AATACCTCAGCGT
* * *
53046182 GACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTTAAAAGAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA-TT--AAG-A
* *
53046247 ATACCTCGGCAT
62 ATACCTCAGCGT
** * * * ** *
53046259 GGTCCAAAGCTCAACTCACCTCT-G-TATATGAGTTGATTTTAAAAAAGACATAAATTAAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACATAAATTAAGAATA
53046322 CCTCAGCGT
65 CCTCAGCGT
* * ** *
53046331 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATAAATTAAGAAT
*
53046395 ATCTCAGCGT
64 ACCTCAGCGT
* * ** *
53046405 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATAAATTAAGAAT
*
53046469 ATCTCAGCGT
64 ACCTCAGCGT
* * ** *
53046479 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATAAATTAAGAAT
*
53046543 ATCTCAGCGT
64 ACCTCAGCGT
* * ** *
53046553 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATAAATTAAGAAT
*
53046617 ATCTCAGCGT
64 ACCTCAGCGT
* * ** *
53046627 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATAAATTAAGAAT
*
53046691 ATCTCAGCGT
64 ACCTCAGCGT
* * ** *
53046701 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATAAATTAAGAAT
*
53046765 ATCTCAGCGT
64 ACCTCAGCGT
* * ** *
53046775 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATAAATTAAGAAT
*
53046839 ATCTCAGCGT
64 ACCTCAGCGT
* * ** *
53046849 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATAAATTAAGAAT
*
53046913 ATCTCAGCGT
64 ACCTCAGCGT
* *
53046923 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGAATTTTTGAAAAAACAGAAATTAAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTG-AAAAACATAAATT---AAG
53046988 AAATACCTCAGCGT
61 -AATACCTCAGCGT
* * *
53047002 GCGACCCGAGGCCCAACTCACTTCTCGCAATATAAGTTGATTTTTTTGAAAAACAGAGAAACATA
1 --GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG------A-A-AAACATA
53047067 AATTGAAG-ATACCTCAGCGT
54 AATT-AAGAATACCTCAGCGT
* * *
53047087 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTGAAAAACAGAGATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACATA-AATT--AAG
53047152 AAAATACCTCAGCGT
61 --AATACCTCAGCGT
* *
53047167 GCGACCCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTGAAAAATAGAAAAACATA
1 --GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT------T-GAAAAACATA
53047232 AATTGAAG-ATACCTCAGCGT
54 AATT-AAGAATACCTCAGCGT
* *
53047252 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAGATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACATA-AATT--AAG
53047317 AAAATACCTCAGCGT
61 --AATACCTCAGCGT
* * * *
53047332 GCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAATAGA-AATTTAAA
1 --GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA-ACATAAATTAAG
53047396 AATACCTC-GACGT
61 AATACCTCAG-CGT
*
53047409 GACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAA
53047459 TAGAAATTGA
Statistics
Matches: 1510, Mismatches: 91, Indels: 112
0.88 0.05 0.07
Matches are distributed among these distances:
72 31 0.02
73 17 0.01
74 785 0.52
75 145 0.10
76 34 0.02
77 116 0.08
78 2 0.00
79 14 0.01
80 88 0.06
81 40 0.03
82 97 0.06
83 86 0.06
85 24 0.02
87 4 0.00
88 4 0.00
89 14 0.01
90 9 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (73 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAGAATAC
CTCAGCGT
Found at i:53046534 original size:222 final size:225
Alignment explanation
Indices: 53045728--53047450 Score: 1748
Period size: 222 Copynumber: 7.5 Consensus size: 225
53045718 CTCGGCGTGC
* * * * * ** * **
53045728 GACCCGAGACTCAACTCACCTCTTGGATTATGAGTTGATCTT-CGAAAA-ACAAAAATCGAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
* **
53045791 ACCTC-GACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-AC
66 ACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGAC
* * *
53045853 ATGAATTGAAGAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
128 ATAAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
** * * * *
53045918 T-TGAAAA-ACATGAATTGAAGAATACCTCGGCGT
192 TAAAAAAAGACATAAATT-AAAAATATCTCAGCGT
** * *
53045951 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAA-ACATGAATTGAAGAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATAAATT-AAAAA
* * *
53046014 TACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
65 TACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAAAAGAC
* * * ** * *
53046079 ATTTAAA-T-GAAATACCTCGGCATGGTCCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATT
128 A--TAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
** * * *
53046142 TTTTTTAAAAA-ACATAAATTTAAAAGAAATACATCGGTGT
189 TTTTAAAAAAAGACATAAA-TTAAAA-ATAT-C-TCAGCGT
* * *
53046182 GACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTTAAA--AG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAAAAGACA--TAAATTAA
* * ** * * *
53046245 AAATACCTCGGCATGGTCCAAAGCTCAACTCACCTCT-G-TATATGAGTTGATTTT-AAAAAAGA
62 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGA
* *
53046307 CATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTT
127 CATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
53046371 TAAAAAAAGACATAAATTAAAAATATCTCAGCGT
192 TAAAAAAAGACATAAATTAAAAATATCTCAGCGT
* *
53046405 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
* * *
53046469 ATCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATA
66 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATA
* * *
53046533 AATTAAAAATATCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAA
131 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAA
53046597 AAAAGACATAAATTAAAAATATCTCAGCGT
196 AAAAGACATAAATTAAAAATATCTCAGCGT
* *
53046627 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
* * *
53046691 ATCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATA
66 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATA
* * *
53046755 AATTAAAAATATCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAA
131 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAA
53046819 AAAAGACATAAATTAAAAATATCTCAGCGT
196 AAAAGACATAAATTAAAAATATCTCAGCGT
* *
53046849 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
* *
53046913 ATCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGAATTTTTGAAAAAACAGA
66 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTT-AAAAAA-AGA
* * * *
53046978 AATTAAA--AAGAAATACCTCAGCGTGCGACCCGAGGCCCAACTCACTTCTCGCAATATAAGTTG
127 CA-TAAATTAA-AAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
53047041 ATTTTTTTGAAAAACAGAGAAACATAAATTGAAGATACCTCAGCGT
188 A---TTTT-AAAAA-A-AG--ACATAAATTAAAAATATCTCAGCGT
* **
53047087 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTGAAAAACAGAGATTTAAA--
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT-AAAAA-A-AGACATAAATT
* *
53047150 AGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTG
60 A-AAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT-
* * *
53047215 AAAAATAGAAAAACATAAATTGAAGATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAA
118 --AAA-A-AAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAA
** *
53047280 TATGAGTTGATTTTTTTGAAAAACAGAGATTTAAA--AGAAAATACCTCAGCGT
179 TATGAGTTGA---TTTT-AAAAA-A-AGACATAAATTA-AAAATATCTCAGCGT
* *** * * *
53047332 GCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAATAGA-AATTTAAA
1 --GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTAAAAAAAGACATAAATTAAA
*
53047396 AATACCTC-GACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
63 AATACCTCAG-CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
53047451 TTGAAAAATA
Statistics
Matches: 1312, Mismatches: 118, Indels: 126
0.84 0.08 0.08
Matches are distributed among these distances:
218 4 0.00
220 42 0.03
221 18 0.01
222 475 0.36
223 91 0.07
224 12 0.01
225 57 0.04
226 25 0.02
227 33 0.03
228 33 0.03
229 65 0.05
230 12 0.01
231 47 0.04
232 15 0.01
233 5 0.00
234 41 0.03
235 3 0.00
236 2 0.00
237 7 0.01
238 45 0.03
239 11 0.01
240 35 0.03
241 3 0.00
242 19 0.01
243 8 0.01
244 17 0.01
245 27 0.02
246 39 0.03
247 41 0.03
248 53 0.04
249 7 0.01
250 17 0.01
251 3 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (225 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATAAATTAAAAAT
ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAGACATA
AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAA
AAAAGACATAAATTAAAAATATCTCAGCGT
Found at i:53047426 original size:75 final size:76
Alignment explanation
Indices: 53047240--53047472 Score: 337
Period size: 75 Copynumber: 3.0 Consensus size: 76
53047230 TAAATTGAAG
*
53047240 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
1 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATA
*
53047305 GAGATTTAAAAGAAA
66 GAAATTT---A-AAA
*
53047320 ATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTG-AAAA
1 ATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA
53047384 TAGAAATTTAAAA
64 TAGAAATTTAAAA
*
53047397 ATACCTC-GACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAAT
1 ATACCTCAG-CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAT
*
53047460 AGAAATTGAAAA
65 AGAAATTTAAAA
53047472 A
1 A
53047473 AAAATTCTTA
Statistics
Matches: 143, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
74 7 0.05
75 53 0.37
76 1 0.01
77 13 0.09
78 1 0.01
80 12 0.08
81 11 0.08
82 45 0.31
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (76 bp):
ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATA
GAAATTTAAAA
Found at i:53048361 original size:22 final size:22
Alignment explanation
Indices: 53048330--53048392 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
53048320 TTCATATTGA
*
53048330 TTTTTC-TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTGTTTTTTTCT
*
53048351 TTTTTCTTTTTTGTTTTTTTGT
1 TTTTTCTTTTTTGTTTTTTTCT
53048373 TTTTT-TTTTGTTGTTTTTTT
1 TTTTTCTTTT-TTGTTTTTTT
53048393 TGTTGTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 10 0.26
22 28 0.74
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (22 bp):
TTTTTCTTTTTTGTTTTTTTCT
Found at i:53048392 original size:31 final size:31
Alignment explanation
Indices: 53048336--53048419 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 31
53048326 TTGATTTTTC
* *
53048336 TTTTTCTTTTTTTCTTT-TTTCTTTTTTGTT-
1 TTTTTGTTTTTTT-TTTGTTTTTTTTTTGTTG
53048366 TTTTTGTTTTTTTTTTGTTGTTTTTTTTGTTG
1 TTTTTGTTTTTTTTTTGTT-TTTTTTTTGTTG
53048398 TTTTTG-TTTTTTTTTGTTTTTT
1 TTTTTGTTTTTTTTTTGTTTTTT
53048420 GTCTACTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
29 3 0.06
30 18 0.37
31 22 0.45
32 6 0.12
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (31 bp):
TTTTTGTTTTTTTTTTGTTTTTTTTTTGTTG
Found at i:53048430 original size:40 final size:40
Alignment explanation
Indices: 53048358--53048433 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
53048348 TCTTTTTTCT
* *
53048358 TTTTTGTTTTTTTGTTTTTTTTTTGTTGTTTTTTTTGTTG
1 TTTTTGTTTTTTTGTTTGTTTTTTGTTCTTTTTTTTGTTG
53048398 TTTTTG-TTTTTT-TTTGTTTTTTGTCTACTTTTTTTT
1 TTTTTGTTTTTTTGTTTGTTTTTTGT-T-CTTTTTTTT
53048434 TCAGGCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 11 0.34
39 7 0.22
40 14 0.44
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (40 bp):
TTTTTGTTTTTTTGTTTGTTTTTTGTTCTTTTTTTTGTTG
Found at i:53048434 original size:1 final size:1
Alignment explanation
Indices: 53048330--53048419 Score: 72
Period size: 1 Copynumber: 90.0 Consensus size: 1
53048320 TTCATATTGA
* * * * * * * * *
53048330 TTTTTCTTTTTCTTTTTTTCTTTTTTCTTTTTTGTTTTTTTGTTTTTTTTTTGTTGTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
53048395 TTGTTTTTGTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
53048420 GTCTACTTTT
Statistics
Matches: 65, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (1 bp):
T
Found at i:53052970 original size:20 final size:20
Alignment explanation
Indices: 53052942--53052980 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
53052932 ACATGGCCCC
*
53052942 ACTTTTCGTCGTGTCCCATG
1 ACTTCTCGTCGTGTCCCATG
53052962 ACTTCTCGTCGTGTCCCAT
1 ACTTCTCGTCGTGTCCCAT
53052981 CAAATGCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.33, G:0.18, T:0.38
Consensus pattern (20 bp):
ACTTCTCGTCGTGTCCCATG
Found at i:53059511 original size:17 final size:17
Alignment explanation
Indices: 53059456--53059964 Score: 197
Period size: 17 Copynumber: 29.6 Consensus size: 17
53059446 GTTTTTTTTT
*
53059456 AACACGAGAATTTTTGAA
1 AACACGAAAATTTTT-AA
* *
53059474 AACACGAGAATTTGT-A
1 AACACGAAAATTTTTAA
*
53059490 AACACGAAAATTTTAAA
1 AACACGAAAATTTTTAA
53059507 AACACGAAAATTTTTAGA
1 AACACGAAAATTTTTA-A
*
53059525 AACACAAAAATTTTT--
1 AACACGAAAATTTTTAA
*
53059540 AACACAAAAATTTTTAA
1 AACACGAAAATTTTTAA
* ** *
53059557 AACAAGACATTTTTTTTGA
1 AACACGA-A-AATTTTTAA
**
53059576 AACACGGGAATTTTTAA
1 AACACGAAAATTTTTAA
* *
53059593 AACAGGGAAA-TTTTAGA
1 AACACGAAAATTTTTA-A
53059610 AACACGAAAATTTTTAA
1 AACACGAAAATTTTTAA
* ** *
53059627 AACAAGACATTTTTTTTTGA
1 AACACGA-A--AATTTTTAA
**
53059647 AACACGGGAATTTTTAA
1 AACACGAAAATTTTTAA
* *
53059664 AACAGGGAAA--TTTAGA
1 AACACGAAAATTTTTA-A
53059680 AACACGAAAATTTTTAA
1 AACACGAAAATTTTTAA
** *
53059697 AACACGACATTTTTTTGA
1 AACACGA-AAATTTTTAA
53059715 AACACG---A--TTTAA
1 AACACGAAAATTTTTAA
* * *
53059727 AAAAC-AAAA--ATTGA
1 AACACGAAAATTTTTAA
** * *
53059741 AATGCGAGAATATTTTGA
1 AACACGAAAAT-TTTTAA
* *
53059759 AACAC-AAATTTTTTTTA
1 AACACGAAA-ATTTTTAA
* *
53059776 AACGCGAGAATTTTTGAA
1 AACACGAAAATTTTT-AA
* * * *
53059794 CACATGAAAA-CTTTGA
1 AACACGAAAATTTTTAA
* *
53059810 AACACCG-GAGTTTTTGAA
1 AACA-CGAAAATTTTT-AA
* * *
53059828 AACACGAGAATTTATGA
1 AACACGAAAATTTTTAA
** *
53059845 AATGCGAAAATTTGTGAA
1 AACACGAAAATTT-TTAA
**
53059863 AACACGTAATTTTTTTAAAAAA
1 AACACG-AAAATTTTT----AA
*
53059885 AACACGAAAATTTTTGA
1 AACACGAAAATTTTTAA
* * *
53059902 AACGCCAGAATTTTTGAA
1 AACACGAAAATTTTT-AA
*
53059920 AACACGAAGATTTTTAA
1 AACACGAAAATTTTTAA
53059937 AACACGAAAATTTTTGAA
1 AACACGAAAATTTTT-AA
53059955 AACACGAAAA
1 AACACGAAAA
53059965 CACAAAATTT
Statistics
Matches: 360, Mismatches: 94, Indels: 74
0.68 0.18 0.14
Matches are distributed among these distances:
12 8 0.02
14 7 0.02
15 22 0.06
16 32 0.09
17 138 0.38
18 111 0.31
19 16 0.04
20 11 0.03
21 7 0.02
22 8 0.02
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (17 bp):
AACACGAAAATTTTTAA
Found at i:53059669 original size:71 final size:69
Alignment explanation
Indices: 53059540--53059720 Score: 319
Period size: 70 Copynumber: 2.6 Consensus size: 69
53059530 AAAAATTTTT
*
53059540 AACACAAAAATTTTTAAAACAAGACATTTTTTTTGAAACACGGGAATTTTTAAAACAGGGAAATT
1 AACACGAAAATTTTTAAAACAAGACATTTTTTTTGAAACACGGGAATTTTTAAAACAGGGAAA-T
53059605 TTAGA
65 TTAGA
53059610 AACACGAAAATTTTTAAAACAAGACATTTTTTTTTGAAACACGGGAATTTTTAAAACAGGGAAAT
1 AACACGAAAATTTTTAAAACAAGACA-TTTTTTTTGAAACACGGGAATTTTTAAAACAGGGAAAT
53059675 TTAGA
65 TTAGA
*
53059680 AACACGAAAATTTTTAAAACACGACA-TTTTTTTGAAACACG
1 AACACGAAAATTTTTAAAACAAGACATTTTTTTTGAAACACG
53059721 ATTTAAAAAA
Statistics
Matches: 108, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
68 15 0.14
70 56 0.52
71 37 0.34
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (69 bp):
AACACGAAAATTTTTAAAACAAGACATTTTTTTTGAAACACGGGAATTTTTAAAACAGGGAAATT
TAGA
Found at i:53059724 original size:16 final size:17
Alignment explanation
Indices: 53059674--53059721 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
53059664 AACAGGGAAA
**
53059674 TTTAGAAACACGAAAATT
1 TTTA-AAACACGAATTTT
53059692 TTTAAAACACGACATTTT
1 TTTAAAACACGA-ATTTT
*
53059710 TTTGAAACACGA
1 TTTAAAACACGA
53059722 TTTAAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (17 bp):
TTTAAAACACGAATTTT
Found at i:53059897 original size:57 final size:56
Alignment explanation
Indices: 53059826--53059938 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 56
53059816 GGAGTTTTTG
* * * **
53059826 AAAACACGAGAATTTATGAAATGCGAAAATTTGTGAAAACACGTAATTTTTTTAAAA
1 AAAACACGAAAATTTATGAAACGCCAAAATTTGTGAAAACACG-AAGATTTTTAAAA
* * *
53059883 AAAACACGAAAATTTTTGAAACGCCAGAATTTTTGAAAACACGAAGATTTTTAAAA
1 AAAACACGAAAATTTATGAAACGCCAAAATTTGTGAAAACACGAAGATTTTTAAAA
53059939 CACGAAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 11 0.23
57 37 0.77
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (56 bp):
AAAACACGAAAATTTATGAAACGCCAAAATTTGTGAAAACACGAAGATTTTTAAAA
Found at i:53059923 original size:35 final size:35
Alignment explanation
Indices: 53059883--53059964 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
53059873 TTTTTTAAAA
* * *
53059883 AAAACACGAAAATTTTTGAAACGCCAGAATTTTTG
1 AAAACACGAAAATTTTTAAAACACCAAAATTTTTG
* *
53059918 AAAACACGAAGATTTTTAAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTAAAACACCAAAATTTTTG
53059953 AAAACACGAAAA
1 AAAACACGAAAA
53059965 CACAAAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.24
Consensus pattern (35 bp):
AAAACACGAAAATTTTTAAAACACCAAAATTTTTG
Found at i:53059994 original size:43 final size:42
Alignment explanation
Indices: 53059947--53060132 Score: 114
Period size: 43 Copynumber: 4.4 Consensus size: 42
53059937 AACACGAAAA
53059947 TTTTTGAAAACACGAAAACACAAAATTTGTCGAACACGGAATT
1 TTTTTGAAAACACGAAAACACAAAATTT-TCGAACACGGAATT
* *
53059990 TTTTTGAAAACACGATAATATCAAAAAATATT----CACGAGAATT
1 TTTTTGAAAACACGA-AA-A-CACAAAATTTTCGAACACG-GAATT
* ****** * * ** **
53060032 TTTTTTATTTTTTTTTG-AAACACGAGATTTTAAAACAC-GAAGA
1 TTTTTGA---AAACACGAAAACACAAAATTTTCGAACACGGAATT
53060075 TTTTTGAAAACACGAAAACACAAAATTTGTCGAACACGGAATT
1 TTTTTGAAAACACGAAAACACAAAATTT-TCGAACACGGAATT
53060118 TTTTTGAAAACACGA
1 TTTTTGAAAACACGA
53060133 TAATATCAAA
Statistics
Matches: 101, Mismatches: 28, Indels: 28
0.64 0.18 0.18
Matches are distributed among these distances:
40 1 0.01
41 22 0.22
42 18 0.18
43 44 0.44
44 2 0.02
45 6 0.06
46 8 0.08
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (42 bp):
TTTTTGAAAACACGAAAACACAAAATTTTCGAACACGGAATT
Found at i:53060086 original size:18 final size:18
Alignment explanation
Indices: 53060043--53060090 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 18
53060033 TTTTTATTTT
53060043 TTTTTG-AAACACG-AGA
1 TTTTTGAAAACACGAAGA
53060059 -TTTT-AAAACACGAAGA
1 TTTTTGAAAACACGAAGA
53060075 TTTTTGAAAACACGAA
1 TTTTTGAAAACACGAA
53060091 AACACAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.39
16 3 0.11
17 4 0.14
18 10 0.36
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
TTTTTGAAAACACGAAGA
Found at i:53060193 original size:18 final size:19
Alignment explanation
Indices: 53060170--53060205 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
53060160 TTTTTTATTT
*
53060170 ATTTTTTTG-AAACACGAG
1 ATTTTTTCGAAAACACGAG
53060188 ATTTTTTCGAAAACACGA
1 ATTTTTTCGAAAACACGA
53060206 AAACACGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (19 bp):
ATTTTTTCGAAAACACGAG
Found at i:53060228 original size:17 final size:18
Alignment explanation
Indices: 53060204--53060255 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
53060194 TCGAAAACAC
53060204 GAAAACACGATTTTTTTT
1 GAAAACACGATTTTTTTT
* *
53060222 GAAACACAGGA--ATTTTT
1 GAAA-ACACGATTTTTTTT
53060239 GAAAACACGATTTTTTT
1 GAAAACACGATTTTTTT
53060256 AAAGAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 8 0.30
19 5 0.19
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (18 bp):
GAAAACACGATTTTTTTT
Found at i:53060237 original size:18 final size:16
Alignment explanation
Indices: 53060204--53060254 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
53060194 TCGAAAACAC
53060204 GAAAACACGATTTTTTTT
1 GAAAACACGA--TTTTTT
* *
53060222 GAAACACAGGAATTTTT
1 GAAA-ACACGATTTTTT
53060239 GAAAACACGATTTTTT
1 GAAAACACGATTTTTT
53060255 TAAAGAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 10 0.36
17 9 0.32
18 4 0.14
19 5 0.18
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (16 bp):
GAAAACACGATTTTTT
Found at i:53060307 original size:29 final size:28
Alignment explanation
Indices: 53060275--53060329 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
53060265 AACACGAATG
* *
53060275 TATTTTTTTCGAAACACGGGAAATTTTAT
1 TATTATTTT-GAAACACGAGAAATTTTAT
* *
53060304 TATTATTTTGGAATACGAGAAATTTT
1 TATTATTTTGAAACACGAGAAATTTT
53060330 GAAGACATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (28 bp):
TATTATTTTGAAACACGAGAAATTTTAT
Found at i:53061570 original size:17 final size:17
Alignment explanation
Indices: 53061545--53061578 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53061535 TATATTTATT
* *
53061545 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
53061562 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
53061579 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:53061576 original size:11 final size:11
Alignment explanation
Indices: 53061562--53061670 Score: 74
Period size: 11 Copynumber: 10.4 Consensus size: 11
53061552 ATTTTTTTAA
53061562 TTTTAAAATAT
1 TTTTAAAATAT
53061573 TTTTAAAATACTT
1 TTTTAAAATA--T
** *
53061586 TTTTTTATTAT
1 TTTTAAAATAT
*
53061597 TTTT----TAA
1 TTTTAAAATAT
53061604 TTTTAAAATAT
1 TTTTAAAATAT
53061615 TTTTAAAATACT
1 TTTTAAAATA-T
53061627 TTTTAAAAT-T
1 TTTTAAAATAT
*
53061637 TTTT----TAA
1 TTTTAAAATAT
53061644 TTTTAAAATAT
1 TTTTAAAATAT
53061655 TTTTAAAATACT
1 TTTTAAAATA-T
53061667 TTTT
1 TTTT
53061671 TTTTAATTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
6 1 0.01
7 10 0.13
10 5 0.06
11 39 0.50
12 15 0.19
13 8 0.10
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:53061641 original size:40 final size:40
Alignment explanation
Indices: 53061544--53061671 Score: 211
Period size: 40 Copynumber: 3.1 Consensus size: 40
53061534 ATATATTTAT
53061544 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
* *
53061584 TTTTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 -TTTTTTAAAT-TTTTTTAATTTTAAAATATTTTTAAAATAC
*
53061626 TTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
53061666 TTTTTT
1 TTTTTT
53061672 TTTAATTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 35 0.44
41 15 0.19
42 30 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:53063912 original size:123 final size:123
Alignment explanation
Indices: 53063694--53063947 Score: 350
Period size: 123 Copynumber: 2.1 Consensus size: 123
53063684 AAATAGTGGG
** * * ***
53063694 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCACCCTCGTGGACGCGATT
*
53063759 TCGCTACAGTGGTCATGTGAGAAATAA-TTTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
* *
53063817 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCACCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCACCCTCGTGGACGCGATT
* * *
53063882 TCGCTACAGTTGGTCATGT-AGGAAATATTTTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAG-TGGTCATGTGA-GAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
53063941 AAATCGC
1 AAATCGC
53063948 GCCCTCGTGG
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
123 66 0.57
124 38 0.33
125 11 0.10
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (123 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCACCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:53066642 original size:16 final size:16
Alignment explanation
Indices: 53066618--53066656 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
53066608 GGGAAGTTCG
*
53066618 ATGCACTTCGTTATCC
1 ATGCGCTTCGTTATCC
53066634 ATGCGCTTCGTTATCC
1 ATGCGCTTCGTTATCC
53066650 ATGCGCT
1 ATGCGCT
53066657 CATGTTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (16 bp):
ATGCGCTTCGTTATCC
Found at i:53067179 original size:23 final size:22
Alignment explanation
Indices: 53067123--53067180 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
53067113 CTAAAACTAC
*
53067123 AATTTAATTAGGGTTTTTAATT
1 AATTAAATTAGGGTTTTTAATT
* **
53067145 AAATAGGGTTAGGGTTTTTAATTT
1 AATTA-AATTAGGGTTTTTAA-TT
53067169 AATTAAATTAGG
1 AATTAAATTAGG
53067181 TTAGGGTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
22 3 0.11
23 18 0.67
24 6 0.22
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (22 bp):
AATTAAATTAGGGTTTTTAATT
Found at i:53067182 original size:28 final size:28
Alignment explanation
Indices: 53067138--53067195 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
53067128 AATTAGGGTT
53067138 TTTAATTAAATAGGGTTAGGGTTTTTAA
1 TTTAATTAAATAGGGTTAGGGTTTTTAA
53067166 TTTAATTAAATTA-GGTTAGGGTTTTTAA
1 TTTAATTAAA-TAGGGTTAGGGTTTTTAA
53067194 TT
1 TT
53067196 AAGTNCAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (28 bp):
TTTAATTAAATAGGGTTAGGGTTTTTAA
Found at i:53069162 original size:16 final size:16
Alignment explanation
Indices: 53069143--53069211 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
53069133 CTATTTTATT
53069143 TTAATTTTTTTATAAC
1 TTAATTTTTTTATAAC
* *
53069159 TTAAATTTTTAATAA-
1 TTAATTTTTTTATAAC
*
53069174 TTAA--TTTTCATAAC
1 TTAATTTTTTTATAAC
*
53069188 TT-ATATTTTTA-ATAC
1 TTAATTTTTTTATA-AC
53069203 TTAATTTTT
1 TTAATTTTT
53069212 AATTTATCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 9 0.21
14 3 0.07
15 13 0.30
16 18 0.42
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTTTTTATAAC
Found at i:53069169 original size:15 final size:14
Alignment explanation
Indices: 53069149--53069212 Score: 69
Period size: 15 Copynumber: 4.4 Consensus size: 14
53069139 TATTTTAATT
53069149 TTTTTATAACTTAAA
1 TTTTTATAACTT-AA
53069164 TTTTTAATAA-TTAA
1 TTTTT-ATAACTTAA
*
53069178 TTTTCATAACTTATA
1 TTTTTATAACTTA-A
53069193 TTTTTA-ATACTTAA
1 TTTTTATA-ACTTAA
53069207 TTTTTA
1 TTTTTA
53069213 ATTTATCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
13 4 0.09
14 17 0.40
15 18 0.42
16 4 0.09
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTTATAACTTAA
Found at i:53069181 original size:29 final size:29
Alignment explanation
Indices: 53069149--53069212 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
53069139 TATTTTAATT
53069149 TTTTTATAACTTAAATTTTTAATAATTAA
1 TTTTTATAACTTAAATTTTTAATAATTAA
* * *
53069178 TTTTCATAACTTATATTTTTAATACTTAA
1 TTTTTATAACTTAAATTTTTAATAATTAA
53069207 TTTTTA
1 TTTTTA
53069213 ATTTATCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTTATAACTTAAATTTTTAATAATTAA
Found at i:53072898 original size:17 final size:18
Alignment explanation
Indices: 53072860--53072901 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
53072850 CTATGCCAAC
53072860 AAATAATTTAAAAATTATAA
1 AAAT-ATTTAAAAA-TATAA
53072880 AAATATTTAAAAA-ATAA
1 AAATATTTAAAAATATAA
53072897 AAATA
1 AAATA
53072902 AATTCAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATATTTAAAAATATAA
Found at i:53076091 original size:30 final size:30
Alignment explanation
Indices: 53076035--53076092 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
53076025 CAACACAAAG
* *
53076035 TAAAATTATGATAACAATAAATAAAATAAA
1 TAAAACTATGATAAAAATAAATAAAATAAA
*
53076065 TAAAACTAT-ATAAAAATATATGAAAATA
1 TAAAACTATGATAAAAATAAAT-AAAATA
53076093 TACGTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (30 bp):
TAAAACTATGATAAAAATAAATAAAATAAA
Found at i:53076249 original size:26 final size:26
Alignment explanation
Indices: 53076188--53076250 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
53076178 AGTTTTTTTT
*
53076188 TTTAAAATATA-AAAATTTGTATATA
1 TTTAAAATATAGAAAATATGTATATA
* *
53076213 -TAAAAATTATAGAATATATGTATATA
1 TTTAAAA-TATAGAAAATATGTATATA
53076239 TTTAAAATATAG
1 TTTAAAATATAG
53076251 GTATGCGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 5 0.16
25 4 0.13
26 17 0.55
27 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.41
Consensus pattern (26 bp):
TTTAAAATATAGAAAATATGTATATA
Found at i:53077259 original size:12 final size:12
Alignment explanation
Indices: 53077242--53077274 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
53077232 CGTTTGTAAG
53077242 GAAAATAAAAAT
1 GAAAATAAAAAT
53077254 GAAAATAAAAAT
1 GAAAATAAAAAT
53077266 -AAAGATAAA
1 GAAA-ATAAA
53077275 TAACGAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.15
12 17 0.85
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (12 bp):
GAAAATAAAAAT
Found at i:53078425 original size:19 final size:19
Alignment explanation
Indices: 53078396--53078449 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
53078386 ATTTTACAAC
* *
53078396 TTTTTAGAAAATGAAAATTA
1 TTTTTA-AAAATCAAAAATA
*
53078416 TTTTTAAAAAACAAAAATA
1 TTTTTAAAAATCAAAAATA
*
53078435 TTTTTCAAAATCAAA
1 TTTTTAAAAATCAAA
53078450 GGAAGGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (19 bp):
TTTTTAAAAATCAAAAATA
Found at i:53079758 original size:10 final size:10
Alignment explanation
Indices: 53079724--53079758 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
53079714 AAATGGCATG
53079724 AAAATAAATA
1 AAAATAAATA
**
53079734 AAACGAAATA
1 AAAATAAATA
53079744 AAAATAAATA
1 AAAATAAATA
53079754 AAAAT
1 AAAAT
53079759 TATACAAGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAAATA
Found at i:53080544 original size:20 final size:21
Alignment explanation
Indices: 53080519--53080563 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
53080509 GTAGTTGAAA
53080519 AAAAAATCAAAACTTTT-TTT
1 AAAAAATCAAAACTTTTCTTT
**
53080539 AAAAAATTTAAACTTTTCTTT
1 AAAAAATCAAAACTTTTCTTT
53080560 AAAA
1 AAAA
53080564 TAACTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATCAAAACTTTTCTTT
Found at i:53080586 original size:152 final size:151
Alignment explanation
Indices: 53080308--53080758 Score: 555
Period size: 151 Copynumber: 3.0 Consensus size: 151
53080298 AAAATTAAAG
* * * * *
53080308 TTTTATTTAGAAAAAATCATTAATTTTCTTAAAAATCAAAATTTTATTTCGAAATAGTT--AAAA
1 TTTT-TTTA-AAAAAAACACTATTTTTCTTAAAAATTAAAATTTTATTTTGAAATAGTTGAAAAA
* * * * *
53080371 AAATCAAAAATTTATTTTAAAATTTTAAACTTTCCTCTAAAATGACT-TAAAAACATATTTTTAT
64 AAATCAAAACTTTATTTTAAAATTTTAAACTTTTCTTTAAAATAACTAAAAAAACATATTTTTAT
53080435 TTTTCAAAATCTAAATTTTCTCC
129 TTTTCAAAATCTAAATTTTCTCC
*
53080458 -TTTTTTAAAAAAAACACTATTTTTCTTAAAAATTAAAATTTTTATTTTGAAGTAGTTGAAAAAA
1 TTTTTTTAAAAAAAACACTATTTTTCTTAAAAATTAAAA-TTTTATTTTGAAATAGTTG-AAAAA
*
53080522 AAATCAAAACTTT-TTTTAAAAAATTTAAACTTTTCTTTAAAATAACTAAAAAAACATATTTTTA
64 AAATCAAAACTTTATTTT-AAAATTTTAAACTTTTCTTTAAAATAACTAAAAAAACATATTTTTA
* *
53080586 TTTTTCAAAATATAAA--CTCTCC
128 TTTTTCAAAATCTAAATTTTCTCC
* * *
53080608 TTTTTGTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAAAT-GATTGAAAA
1 TTTTT-TTAAAAAAAACACTATTTTTCTTAAAAATTAAA-ATTTTATTTTGAAATAG-TTGAAAA
* *
53080672 AAAATCAAAACTTTATTTTAAAATTTTAAAC-TTTCTTTTAAAATAACTAAAAAAA-AGGAATTT
63 AAAATCAAAACTTTATTTTAAAATTTTAAACTTTTC-TTTAAAATAACTAAAAAAACA-TATTTT
53080735 TATTTGTT-AAAATCTAAATTTTCT
126 TATTT-TTCAAAATCTAAATTTTCT
53080759 ATTTTGCAGA
Statistics
Matches: 262, Mismatches: 23, Indels: 29
0.83 0.07 0.09
Matches are distributed among these distances:
147 27 0.10
148 20 0.08
149 3 0.01
150 14 0.05
151 112 0.43
152 83 0.32
153 3 0.01
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (151 bp):
TTTTTTTAAAAAAAACACTATTTTTCTTAAAAATTAAAATTTTATTTTGAAATAGTTGAAAAAAA
ATCAAAACTTTATTTTAAAATTTTAAACTTTTCTTTAAAATAACTAAAAAAACATATTTTTATTT
TTCAAAATCTAAATTTTCTCC
Found at i:53085507 original size:131 final size:120
Alignment explanation
Indices: 53085251--53085598 Score: 334
Period size: 122 Copynumber: 2.8 Consensus size: 120
53085241 TTAAGAATCC
* * *
53085251 TTTTTGCCAAAGGTA-TTAAGTGTTCTAATATATATCTATCACTACAAATAACCATTCAATTAAA
1 TTTTTGCCAAAGGTATTTAAGAGTTCTAATAAATATCTATCACTACAAATAACCATTCAATAAAA
* * * *
53085315 AAAATCAGTTTTTTAATCAGTT--TTTAGTTT-TAATTTATTTATAAAATCTCTAAGTTTTTTTT
66 AAAATCA-CTTTTTAGT--TTTAATTTA-TTTATAATCTATTTATAAAATCTCT-AG-----TTT
* *
53085377 TCCCCTTTTGCCAAAAGTATTTAAGAGTTTTAATAAATATCTATCACTACAAATAACCATTCAAT
1 T----TTTTGCCAAAGGTATTTAAGAGTTCTAATAAATATCTATCACTACAAATAACCATTCAAT
* * *
53085442 GCAAAAAAATCACTTTTTAGTTTTAATTTATTTATAAAATCT-TTTATAAGAT-TCT-TTTT
62 -AAAAAAAATCACTTTTTAGTTTTAATTTATTTAT--AATCTATTTATAAAATCTCTAGTTT
53085501 CCTTTTTGCCAAAGGTATTTAAGAGTTGC-AATAAATATCTATCACTACAAATAACCATTCAATT
1 --TTTTTGCCAAAGGTATTTAAGAGTT-CTAATAAATATCTATCACTACAAATAACCATTCAA-T
*
53085565 AAAAAAAATCACTTTTTAGTTTTAATTTTTTTAT
62 AAAAAAAATCACTTTTTAGTTTTAATTTATTTAT
53085599 GAATAATAAA
Statistics
Matches: 192, Mismatches: 15, Indels: 34
0.80 0.06 0.14
Matches are distributed among these distances:
122 88 0.46
123 1 0.01
124 3 0.02
126 2 0.01
129 2 0.01
130 16 0.08
131 57 0.30
132 19 0.10
133 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (120 bp):
TTTTTGCCAAAGGTATTTAAGAGTTCTAATAAATATCTATCACTACAAATAACCATTCAATAAAA
AAAATCACTTTTTAGTTTTAATTTATTTATAATCTATTTATAAAATCTCTAGTTT
Found at i:53085544 original size:122 final size:120
Alignment explanation
Indices: 53085329--53085598 Score: 407
Period size: 122 Copynumber: 2.2 Consensus size: 120
53085319 TCAGTTTTTT
* * * *
53085329 AATCAGTTTTTAGTTTTAATTTATTTATAAAATCTCTAAGTTTTTTTTTCCCCTTTTGCCAAAAG
1 AATCACTTTTTAGTTTTAATTTATTTATAAAATCTATAAGATTCTTTTTCCCCTTTTGCCAAAAG
** *
53085394 TATTTAAGAGTTTTAATAAATATCTATCACTACAAATAACCATTCAATGCAAAAA
66 TATTTAAGAGTTGCAATAAATATCTATCACTACAAATAACCATTCAATGAAAAAA
*
53085449 AATCACTTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTT-CCTTTTTGCCAA
1 AATCACTTTTTAGTTTTAATTTATTTATAAAATC---TATAAGATTCTTTTTCCCCTTTTGCCAA
* *
53085513 AGGTATTTAAGAGTTGCAATAAATATCTATCACTACAAATAACCATTCAATTAAAAAA
63 AAGTATTTAAGAGTTGCAATAAATATCTATCACTACAAATAACCATTCAATGAAAAAA
*
53085571 AATCACTTTTTAGTTTTAATTTTTTTAT
1 AATCACTTTTTAGTTTTAATTTATTTAT
53085599 GAATAATAAA
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
120 33 0.24
122 91 0.67
123 12 0.09
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (120 bp):
AATCACTTTTTAGTTTTAATTTATTTATAAAATCTATAAGATTCTTTTTCCCCTTTTGCCAAAAG
TATTTAAGAGTTGCAATAAATATCTATCACTACAAATAACCATTCAATGAAAAAA
Found at i:53087627 original size:17 final size:17
Alignment explanation
Indices: 53087605--53087637 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
53087595 TATATTTTTA
53087605 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
53087622 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
53087638 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:53090058 original size:30 final size:29
Alignment explanation
Indices: 53090003--53090071 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
53089993 ACTTCTAAAA
53090003 AAATC-ATTAACCAACATTCAACCGAATT
1 AAATCGATTAACCAACATTCAACCGAATT
*
53090031 AGATCGATTAACCAACCAATT-AACCGAATT
1 AAATCGATTAACCAA-C-ATTCAACCGAATT
53090061 AAATCGATTAA
1 AAATCGATTAA
53090072 TTCAGTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 4 0.11
29 9 0.25
30 20 0.56
31 3 0.08
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (29 bp):
AAATCGATTAACCAACATTCAACCGAATT
Found at i:53094979 original size:105 final size:108
Alignment explanation
Indices: 53094781--53094979 Score: 269
Period size: 105 Copynumber: 1.9 Consensus size: 108
53094771 ATAATAAAGG
* * * * *
53094781 CAATGTTTTGCGTTTGGAGATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATTTTTCTTGT
1 CAATATTTTGCATTTGGAAATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATATTTCTCGT
* *
53094846 TCGACCAAATAGCCAAATATCCTTTTAAAATTTCGAAGTAAGA
66 TCAACCAAATAGCCAAATATCCTCTTAAAATTTCGAAGTAAGA
* *
53094889 CAATATTTTGCATTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTC-A-ATTTCTCGT
1 CAATATTTTGCATTTGGAAATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATATTTCTCGT
* * *
53094951 TTAACCAAATTGCCGAATATCCTCTTAAA
66 TCAACCAAATAGCCAAATATCCTCTTAAA
53094980 TTTTTTAATC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
105 31 0.39
106 1 0.01
107 24 0.30
108 23 0.29
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (108 bp):
CAATATTTTGCATTTGGAAATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATATTTCTCGT
TCAACCAAATAGCCAAATATCCTCTTAAAATTTCGAAGTAAGA
Found at i:53095741 original size:18 final size:18
Alignment explanation
Indices: 53095717--53095760 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
53095707 AAAAATTGTG
53095717 ATAATTATACATTTAAAAT
1 ATAATTATA-ATTTAAAAT
* *
53095736 -TAATTAGAATTTAAATT
1 ATAATTATAATTTAAAAT
53095753 ATAATTAT
1 ATAATTAT
53095761 TGGTTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATAATTATAATTTAAAAT
Found at i:53095980 original size:22 final size:24
Alignment explanation
Indices: 53095930--53095981 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
53095920 TTGTACGTTG
*
53095930 AATATATTAAAAATATTTTAATTAT
1 AATAT-TTAAAAATATTGTAATTAT
53095955 --TATTTAAAAA-ATTGT-ATTAT
1 AATATTTAAAAATATTGTAATTAT
53095975 AATATTT
1 AATATTT
53095982 GAATTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 5 0.21
21 4 0.17
22 12 0.50
23 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATATTTAAAAATATTGTAATTAT
Found at i:53102412 original size:34 final size:34
Alignment explanation
Indices: 53102366--53102435 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
53102356 TTGTTTTCTT
* **
53102366 TTTTTTTTACTATTTTGTTGTTATTTTGTTGTTA
1 TTTTTTTCACTATTTTGTTACTATTTTGTTGTTA
53102400 TTTTTTTCACTATTTTGTTACTATTTTGTTGTTA
1 TTTTTTTCACTATTTTGTTACTATTTTGTTGTTA
53102434 TT
1 TT
53102436 GTTTGGATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (34 bp):
TTTTTTTCACTATTTTGTTACTATTTTGTTGTTA
Found at i:53102413 original size:12 final size:11
Alignment explanation
Indices: 53102367--53102429 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
53102357 TGTTTTCTTT
*
53102367 TTTTTTTACTA
1 TTTTGTTACTA
**
53102378 TTTTGTTGTTA
1 TTTTGTTACTA
**
53102389 TTTTGTTGTTA
1 TTTTGTTACTA
*
53102400 TTTTTTTCACTA
1 TTTTGTT-ACTA
53102412 TTTTGTTACTA
1 TTTTGTTACTA
53102423 TTTTGTT
1 TTTTGTT
53102430 GTTATTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
11 36 0.82
12 8 0.18
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (11 bp):
TTTTGTTACTA
Found at i:53102435 original size:11 final size:11
Alignment explanation
Indices: 53102376--53102435 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
53102366 TTTTTTTTAC
53102376 TATTTTGTTGT
1 TATTTTGTTGT
53102387 TATTTTGTTGT
1 TATTTTGTTGT
* **
53102398 TATTTTTTTCAC
1 TATTTTGTT-GT
**
53102410 TATTTTGTTAC
1 TATTTTGTTGT
53102421 TATTTTGTTGT
1 TATTTTGTTGT
53102432 TATT
1 TATT
53102436 GTTTGGATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
11 34 0.81
12 8 0.19
ACGTcount: A:0.13, C:0.05, G:0.12, T:0.70
Consensus pattern (11 bp):
TATTTTGTTGT
Found at i:53102542 original size:97 final size:97
Alignment explanation
Indices: 53102431--53102624 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 97
53102421 TATTTTGTTG
*
53102431 TTATTGTTTGGATATTGTATAACTCTTGTTTTATTGTTAATTTTGTTATTATTTTAGTGGCATTT
1 TTATTGTTTGGATATTGCATAACTCTTGTTTTATTGTTAATTTTGTTATTATTTTAGTGGCATTT
53102496 GTTTGTTAAGTTGCACTTATCTTAGTGTTATA
66 GTTTGTTAAGTTGCACTTATCTTAGTGTTATA
53102528 TTATTGTTTGGATATTGCATAACTCTTGTTTTATTGTTAATTTTGTTATTATTTTAGTGGCATTT
1 TTATTGTTTGGATATTGCATAACTCTTGTTTTATTGTTAATTTTGTTATTATTTTAGTGGCATTT
53102593 GTTTGTTAAGTTGCACTTATCTTAGTGTTATA
66 GTTTGTTAAGTTGCACTTATCTTAGTGTTATA
53102625 CATATTTTTT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.21, C:0.07, G:0.16, T:0.56
Consensus pattern (97 bp):
TTATTGTTTGGATATTGCATAACTCTTGTTTTATTGTTAATTTTGTTATTATTTTAGTGGCATTT
GTTTGTTAAGTTGCACTTATCTTAGTGTTATA
Found at i:53108693 original size:31 final size:29
Alignment explanation
Indices: 53108657--53108728 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
53108647 AACGGCTCAA
53108657 TGACTAAAATGTTACAACACGTT-AACGTAAG
1 TGACTAAAATGTT--AACA-GTTAAACGTAAG
*
53108688 TGACTAAAATG-TAACATTTCAAACGTAAG
1 TGACTAAAATGTTAACAGTT-AAACGTAAG
53108717 TGACTAAAATGT
1 TGACTAAAATGT
53108729 AACTTGAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 2 0.05
28 4 0.11
29 19 0.51
30 1 0.03
31 11 0.30
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (29 bp):
TGACTAAAATGTTAACAGTTAAACGTAAG
Found at i:53116148 original size:28 final size:29
Alignment explanation
Indices: 53116117--53116181 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
53116107 TCATTTAATC
*
53116117 AATAAATATAAT-TTTTAA-AAATTATAAA
1 AATAAATAT-ATGATTTAATAAATTATAAA
* *
53116145 AATATATATATGATTTAATAAATTTTAAA
1 AATAAATATATGATTTAATAAATTATAAA
53116174 AATAAATA
1 AATAAATA
53116182 CGTAATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 2 0.06
28 13 0.42
29 16 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
AATAAATATATGATTTAATAAATTATAAA
Found at i:53116433 original size:19 final size:19
Alignment explanation
Indices: 53116409--53116448 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
53116399 TCTTGTTGTT
*
53116409 TTTCACTATTTTGTTACTA
1 TTTCACTATTGTGTTACTA
*
53116428 TTTCACTATTGTGTTGCTA
1 TTTCACTATTGTGTTACTA
53116447 TT
1 TT
53116449 ATTTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTCACTATTGTGTTACTA
Found at i:53121230 original size:17 final size:17
Alignment explanation
Indices: 53121208--53121240 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
53121198 AGTGCAGAGC
53121208 TTCATTGAATAATTGAT
1 TTCATTGAATAATTGAT
53121225 TTCATTGAATAATTGA
1 TTCATTGAATAATTGA
53121241 GTGTTGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TTCATTGAATAATTGAT
Found at i:53124103 original size:28 final size:26
Alignment explanation
Indices: 53124047--53124097 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
53124037 ATAAAATTAT
53124047 TAAATATTAAAATAAAATAAAAAAAA
1 TAAATATTAAAATAAAATAAAAAAAA
*
53124073 TAAATATTTTAAA-AAAATAAAAAAA
1 TAAATA-TTAAAATAAAATAAAAAAA
53124098 TAATAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (26 bp):
TAAATATTAAAATAAAATAAAAAAAA
Found at i:53128019 original size:38 final size:38
Alignment explanation
Indices: 53127977--53128070 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
53127967 GTATGAGAAA
* *
53127977 ATGCCTACTATTCTGTATTTACTAATTGCATG-TAAAGC
1 ATGCC-ACTATTCTGTATTTACTAATCGCATGTTAAAAC
* * * *
53128015 ATGCCACTGTTACTG-AATTACTGATCGTATGTTAAAAC
1 ATGCCACTATT-CTGTATTTACTAATCGCATGTTAAAAC
53128053 ATGCCACTATTCTGTATT
1 ATGCCACTATTCTGTATT
53128071 GTACCTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
37 20 0.44
38 25 0.56
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (38 bp):
ATGCCACTATTCTGTATTTACTAATCGCATGTTAAAAC
Found at i:53136787 original size:24 final size:24
Alignment explanation
Indices: 53136760--53136806 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
53136750 TATAAACATA
* *
53136760 CCAATATTCAAATTTAAAAATTAC
1 CCAATAGTCAAATGTAAAAATTAC
*
53136784 CCAATAGTCAAATGTCAAAATTA
1 CCAATAGTCAAATGTAAAAATTA
53136807 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (24 bp):
CCAATAGTCAAATGTAAAAATTAC
Found at i:53143558 original size:13 final size:12
Alignment explanation
Indices: 53143540--53143573 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
53143530 TGGGGTTCAT
53143540 GGTTTATGGTTTG
1 GGTTTA-GGTTTG
53143553 GGTTTAGGTTTTG
1 GGTTTAGG-TTTG
53143566 GGTTTAGG
1 GGTTTAGG
53143574 GTTCAAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.09, C:0.00, G:0.41, T:0.50
Consensus pattern (12 bp):
GGTTTAGGTTTG
Found at i:53149450 original size:41 final size:41
Alignment explanation
Indices: 53149405--53149486 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
53149395 CAAAGGAATG
*
53149405 TTCGTTGACCCAATATTATTAGGTTTATTTTTAACCCAAAA
1 TTCGTTGACCCAATAATATTAGGTTTATTTTTAACCCAAAA
53149446 TTCGTTGACCCAATAATATTAGGTTTATTTTTAACCCAAAA
1 TTCGTTGACCCAATAATATTAGGTTTATTTTTAACCCAAAA
53149487 GCACAAACAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (41 bp):
TTCGTTGACCCAATAATATTAGGTTTATTTTTAACCCAAAA
Found at i:53153470 original size:24 final size:24
Alignment explanation
Indices: 53153450--53153496 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
53153440 GACACCTTGC
53153450 ACCCAATTTAGAAACATACCTCTAG
1 ACCCAATTTAGAAACATACCT-TAG
53153475 ACCCAATTTAGAAACATACCTT
1 ACCCAATTTAGAAACATACCTT
53153497 TATTTATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.26
Consensus pattern (24 bp):
ACCCAATTTAGAAACATACCTTAG
Found at i:53155804 original size:17 final size:18
Alignment explanation
Indices: 53155769--53155805 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
53155759 CTCAATTGTG
53155769 TCTTCATTCCATGTGTATA
1 TCTTCATTCCA-GTGTATA
53155788 TCTTCATTCCA-TGTATA
1 TCTTCATTCCAGTGTATA
53155805 T
1 T
53155806 GAGATGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.49
Consensus pattern (18 bp):
TCTTCATTCCAGTGTATA
Found at i:53158926 original size:57 final size:57
Alignment explanation
Indices: 53158838--53158953 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
53158828 TTTCTTAAAG
*
53158838 TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAATGGCACAATCTA
1 TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAAGGGCACAATCTA
53158895 TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAAGGGCACAATCTA
1 TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAAGGGCACAATCTA
53158952 TT
1 TT
53158954 TATTTATTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (57 bp):
TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAAGGGCACAATCTA
Found at i:53168751 original size:25 final size:26
Alignment explanation
Indices: 53168687--53168757 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
53168677 CTGACATATT
*
53168687 TGGCTGCTCACACAAGCTTCATATCA
1 TGGCTACTCACACAAGCTTCATATCA
* * *
53168713 TGGTTACT-ATACAAGCTTTAT-TCGA
1 TGGCTACTCACACAAGCTTCATATC-A
53168738 T-GCTACTCACACAAGCTTCA
1 TGGCTACTCACACAAGCTTCA
53168758 AAGAATCCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 7 0.19
25 23 0.64
26 6 0.17
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (26 bp):
TGGCTACTCACACAAGCTTCATATCA
Found at i:53168853 original size:72 final size:72
Alignment explanation
Indices: 53168732--53168936 Score: 266
Period size: 72 Copynumber: 2.8 Consensus size: 72
53168722 TACAAGCTTT
* * * *
53168732 ATTCGATGCTACTCACACAAGCTTCAAAGAATCCACAACACGTGTTGGATCTCAAGCCATCGATA
1 ATTCGATGCTACTCACACAAGCTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATCGATA
**
53168797 AAGGATA
66 AAAAATA
* *
53168804 ATTTGATGCTACTCACACAAGTTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATCGATA
1 ATTCGATGCTACTCACACAAGCTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATCGATA
*
53168869 AAAAATG
66 AAAAATA
* ** * ** *
53168876 ATTCAATGCTGTTCATACAAGCTTTAGAGAATCGGTAACACATGTTGGAACTCAAGCCATC
1 ATTCGATGCTACTCACACAAGCTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATC
53168937 AATCATTAAA
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 115 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (72 bp):
ATTCGATGCTACTCACACAAGCTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATCGATA
AAAAATA
Found at i:53169995 original size:15 final size:15
Alignment explanation
Indices: 53169972--53170008 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
53169962 GTTTAATAAC
*
53169972 TAATTAATTATAATT
1 TAATTAATTAAAATT
*
53169987 TATTTAATTAAAATT
1 TAATTAATTAAAATT
53170002 TAATTAA
1 TAATTAA
53170009 CATAATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTAATTAAAATT
Found at i:53184563 original size:21 final size:19
Alignment explanation
Indices: 53184521--53184585 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
53184511 ATATATAATC
*
53184521 TTTATACTTTTTATACTTT
1 TTTATACTTTTTATAATTT
*
53184540 TTTATAGTTTTCTAATAATTT
1 TTTATACTTTT-T-ATAATTT
53184561 TTTATA-TTTTT-TGAATTT
1 TTTATACTTTTTAT-AATTT
53184579 CTTTATA
1 -TTTATA
53184586 TTTAAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 1 0.03
18 5 0.12
19 17 0.43
20 5 0.12
21 12 0.30
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTATACTTTTTATAATTT
Found at i:53184588 original size:10 final size:9
Alignment explanation
Indices: 53184521--53184588 Score: 57
Period size: 10 Copynumber: 7.0 Consensus size: 9
53184511 ATATATAATC
*
53184521 TTTATACTT
1 TTTATATTT
53184530 TTTATACTTT
1 TTTATA-TTT
53184540 TTTATAGTTT
1 TTTATA-TTT
*
53184550 TCTAATAATTT
1 T-TTAT-ATTT
53184561 TTTATATTT
1 TTTATATTT
53184570 TTTGA-ATTT
1 TTT-ATATTT
53184579 CTTTATATTT
1 -TTTATATTT
53184589 AAAAAATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 18 0.37
10 23 0.47
11 7 0.14
12 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTATATTT
Found at i:53185183 original size:13 final size:13
Alignment explanation
Indices: 53185165--53185189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53185155 TTTGGGGTCC
53185165 AACTTGGCACTTG
1 AACTTGGCACTTG
53185178 AACTTGGCACTT
1 AACTTGGCACTT
53185190 TTTCTTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
AACTTGGCACTTG
Found at i:53185193 original size:61 final size:61
Alignment explanation
Indices: 53185102--53185218 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
53185092 TTTTTTTTGC
* *
53185102 CCAATTTGGCACTTGAACTTGACAAATTTTCCTAATTTAGCACCTAAACTTTTTTTGGGGT
1 CCAACTTGGCACTTGAACTTGACAAATTTTCCTAATGTAGCACCTAAACTTTTTTTGGGGT
* ** * * * *
53185163 CCAACTTGGCACTTGAACTTGGCACTTTTTCTTAATGTAGTATCTAAGCTTTTTTT
1 CCAACTTGGCACTTGAACTTGACAAATTTTCCTAATGTAGCACCTAAACTTTTTTT
53185219 AATATATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (61 bp):
CCAACTTGGCACTTGAACTTGACAAATTTTCCTAATGTAGCACCTAAACTTTTTTTGGGGT
Found at i:53185762 original size:15 final size:17
Alignment explanation
Indices: 53185742--53185773 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
53185732 TAAATTACTT
53185742 TTTGAA-ATAT-TTTTA
1 TTTGAACATATATTTTA
53185757 TTTGAACATATATTTTA
1 TTTGAACATATATTTTA
53185774 AAAATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTGAACATATATTTTA
Found at i:53191528 original size:25 final size:25
Alignment explanation
Indices: 53191499--53191548 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
53191489 CAATTGTATA
**
53191499 GAAA-TAATATAAATAGTAAATAAAC
1 GAAATTAATA-AAATAAAAAATAAAC
53191524 GAAATTAATAAAATAAAAAATAAAC
1 GAAATTAATAAAATAAAAAATAAAC
53191549 AATGACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.22
Consensus pattern (25 bp):
GAAATTAATAAAATAAAAAATAAAC
Found at i:53192863 original size:44 final size:43
Alignment explanation
Indices: 53192809--53192916 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
53192799 CACTCTACTA
* * * *
53192809 CAACTGTAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTG
1 CAACTTTAGGGAGATAGGATTTCTT-ACTCAGTCTACCCCACTG
* * *
53192853 CAATTTTAGGG-GATAAGACTTTCTTACTCAGTCTACTCCACTG
1 CAACTTTAGGGAGATAGGA-TTTCTTACTCAGTCTACCCCACTG
*
53192896 CAACTTCAGGGAGATAGGATT
1 CAACTTTAGGGAGATAGGATT
53192917 ATTGGCTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 32 0.62
44 20 0.38
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
CAACTTTAGGGAGATAGGATTTCTTACTCAGTCTACCCCACTG
Found at i:53193072 original size:50 final size:50
Alignment explanation
Indices: 53193015--53193175 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 50
53193005 TCGTCATCGT
53193015 AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
1 AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
* * * ** * * ** * * ** * *
53193065 AGTTTCAATCTTTTTAATTGCAATGTTGGGGAAGCGAGATTCGCTGTCGT
1 AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
* * * *
53193115 AGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATTCGCCGTTGC
1 AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
*
53193165 GGCTTCAATAT
1 AGCTTCAATAT
53193176 TTTTAATTAC
Statistics
Matches: 77, Mismatches: 34, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
Found at i:53193105 original size:100 final size:98
Alignment explanation
Indices: 53192974--53193254 Score: 364
Period size: 100 Copynumber: 2.8 Consensus size: 98
53192964 CATCTTCAGC
* * *
53192974 CTTTTAAATTGCAATGTTGGGGGAACAAGATTCGTCATCGTAGCTTCAATATGTTCCACTACACC
1 CTTTTTAATTGCAATGTT-GGGGAACAAGATTCG-CGTCGTAGCTTCAATCTGTTCCACTACACC
* * *
53193039 GCTAGGGAAGTAAGATTCGCTGTTGCAGTTTCAAT
64 GCCAGGGAAGTAAGATTCGCCGTTGCAGCTTCAAT
*
53193074 CTTTTTAATTGCAATGTTGGGGAAGCGAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACACC
1 CTTTTTAATTGCAATGTTGGGGAA-CAAGATTCGC-GTCGTAGCTTCAATCTGTTCCACTACACC
* *
53193139 GCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAAT
64 GCCAGGGAAGTAAGATTCGCCGTTGCAGCTTCAAT
* * * * *
53193174 ATTTTTAATTACAATGTTGGGGAAACAAGATTTGCCGTCGTAGCTTAAATCTGTTCCATTACACC
1 CTTTTTAATTGCAATGTTGGGG-AACAAGATTCG-CGTCGTAGCTTCAATCTGTTCCACTACACC
* *
53193239 GCCAGGGGAGCAAGAT
64 GCCAGGGAAGTAAGAT
53193255 CTACCGTCAT
Statistics
Matches: 159, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
99 7 0.04
100 149 0.94
101 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (98 bp):
CTTTTTAATTGCAATGTTGGGGAACAAGATTCGCGTCGTAGCTTCAATCTGTTCCACTACACCGC
CAGGGAAGTAAGATTCGCCGTTGCAGCTTCAAT
Found at i:53193570 original size:169 final size:169
Alignment explanation
Indices: 53193271--53193882 Score: 909
Period size: 169 Copynumber: 3.6 Consensus size: 169
53193261 TCATGGTTTC
* * * * * *
53193271 AATCTGCTCCACTGTAATACCAAAGAGATAGGATTCGCTGCCCACAGCATTAATCCGCTTCGCTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
* * * *
53193336 TAGCTACTTCAAGTCTTAACGCTAGGGAGATAAGATTCGCTGCCCTCAGTTTTAATCTGCTCCGC
66 CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
* *
53193401 TGCAATGCTAGGGAAACAAGGTTCGCTACCTTTAGTTTT
131 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* * *
53193440 AATCTGTTCCACTATAATTCCAAAGAGATAGGATTCGCTGCCCATAGCTTTAACCCGCTCCACTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
** * * * *
53193505 CAGCTATTTTGAGTCTTAACACCAGGGAGATAAGATTCGCTACCCTCAACTTTAATCTACTCCGC
66 CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
53193570 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
131 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
*
53193609 AATCTGTTTCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
* * * * *
53193674 CAGCTAATCCAAGTCTTAACGCTAGGGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCAC
66 CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
* * *
53193739 TACAACGCTAGGGAAACAAGATTCACTACCTTTAGCTTT
131 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* * *
53193778 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTTGCTGTCCACAGCTTTAATCCGTTCCACTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
* *
53193843 CAGCTATTTCAAGTATTAATGCCAGGGAGATAAGATTCGC
66 CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGC
53193883 CATCTTCAGC
Statistics
Matches: 395, Mismatches: 48, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
169 395 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (169 bp):
AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
Found at i:53193747 original size:51 final size:51
Alignment explanation
Indices: 53193691--53193791 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
53193681 TCCAAGTCTT
* * ** *
53193691 AACGCTAGGGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCACTAC
1 AACGCTAGGGAAACAAGATTCACTACCCTCAGCTTTAATCTGCTCCACTAC
* * *
53193742 AACGCTAGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTA
1 AACGCTAGGGAAACAAGATTCACTACCCTCAGCTTTAATCTGCTCCACTA
53193792 TAATGCCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (51 bp):
AACGCTAGGGAAACAAGATTCACTACCCTCAGCTTTAATCTGCTCCACTAC
Found at i:53194380 original size:87 final size:87
Alignment explanation
Indices: 53194018--53194795 Score: 780
Period size: 87 Copynumber: 9.0 Consensus size: 87
53194008 GATCTGCCAT
* * * *** * *
53194018 CTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAGTTCCTCGGTCTGCTCCGCTGCT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA-ATCTTCAACCTACTCCACTGCT
* *
53194083 GCTCATGGAGATAAGACCT---GA
65 GCTCAGGGAGATAAG-GCTGGGGA
* * * ** * * * * *
53194104 -TGCGATCTACTCTACTACACCTTTAGAGATATAAGATCTTTTATTTTCAACCTACTCCACTGCT
1 CTTCGATCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCT
* * *
53194168 GCTCAGGGAGACAAGGCTAGGGT
65 GCTCAGGGAGATAAGGCTGGGGA
* * * * * *** ** * * *
53194191 CTTTGATCTGCTTCACTGTCAG-TACAAAAAGGCAAGATCTGTTATCTTTAACCTGCT-CAGCTG
1 CTTCGATCTGCTCCACT-ACTGCT-TAGGGAGATAAGATCTGTAATCTTCAACCTACTCCA-CTG
** * ** * * *
53194254 CCACTGAGGGAGGCAAGGCTAGTGT
63 CTGCTCAGGGAGATAAGGCTGGGGA
* * * *
53194279 CTTCGATCTACTCCACTACTGCGTAGGGAGATGAGATCTGTAATCTTCAACCTACTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
* *
53194344 CTCAAGGAGATAAGGATGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* *
53194366 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
*
53194431 CTCAGGGAGAT-AGGCTGGGGT
66 CTCAGGGAGATAAGGCTGGGGA
* * *
53194452 TTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
* * * *
53194517 CTCAGGGAGACAATGTTGGGGT
66 CTCAGGGAGATAAGGCTGGGGA
* *
53194539 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
* *
53194604 CTCAGGGAAATAAGGCTGGGGT
66 CTCAGGGAGATAAGGCTGGGGA
* * * * *
53194626 CTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTACACTACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
*
53194691 CTCAGGGAGATAAGGCTAGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* * * *
53194713 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTACGG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
53194778 CTCAGGGAGAT-AGGCTGG
66 CTCAGGGAGATAAGGCTGG
53194796 AGTTTCATCG
Statistics
Matches: 566, Mismatches: 115, Indels: 22
0.81 0.16 0.03
Matches are distributed among these distances:
84 2 0.00
85 42 0.07
86 100 0.18
87 347 0.61
88 73 0.13
89 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAGGCTGGGGA
Found at i:53194491 original size:173 final size:173
Alignment explanation
Indices: 53194280--53194800 Score: 799
Period size: 173 Copynumber: 3.0 Consensus size: 173
53194270 GGCTAGTGTC
* * *
53194280 TTCGATCTACTCCACTACTGCGTAGGGAGATGAGATCTGTAATCTTCAACCTACTCCACTGTTGC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGC
* *
53194345 TCAAGGAGATAAGGATGGGGACTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
66 TCAGGGAGATAAGGATGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
*
53194410 TTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGCTGGGGTT
131 TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGCTGGGGTT
* * *
53194453 TTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTGC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGC
* * * *
53194518 TCAGGGAGACAATGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
66 TCAGGGAGATAAGGATGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * * *
53194583 CTTCAACCTACTCCACTACTTCTCAGGGAAATAAGGCTGGGGTC
131 TTTCAACCTACTCCACTACTGCTCAGGGAGAT-AGGCTGGGGTT
* * * *
53194627 TTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTACACTACTGCTGC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGC
* *
53194692 TCAGGGAGATAAGGCTAGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
66 TCAGGGAGATAAGGATGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * *
53194757 TTTTAACCTACTCCACTACGGCTCAGGGAGATAGGCTGGAGTT
131 TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGCTGGGGTT
53194800 T
1 T
53194801 CATCGGTTTG
Statistics
Matches: 311, Mismatches: 36, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 156 0.50
174 155 0.50
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (173 bp):
TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGC
TCAGGGAGATAAGGATGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGCTGGGGTT
Found at i:53196065 original size:13 final size:13
Alignment explanation
Indices: 53196047--53196072 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53196037 TTAGCCTCTC
53196047 CATTTTCATTTTT
1 CATTTTCATTTTT
53196060 CATTTTCATTTTT
1 CATTTTCATTTTT
53196073 TTCATCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTCATTTTT
Found at i:53206592 original size:26 final size:25
Alignment explanation
Indices: 53206546--53206608 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 25
53206536 AAATTATACA
* *
53206546 AAAAGATAATTAGATGAATAATATCAT
1 AAAA-ATAATTAAATGAATAA-AACAT
53206573 AAAAATAATTAAAT-ACATAAAACAT
1 AAAAATAATTAAATGA-ATAAAACAT
*
53206598 -TAAATAATTAA
1 AAAAATAATTAA
53206609 CTGAGCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 10 0.31
25 5 0.16
26 13 0.41
27 4 0.12
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (25 bp):
AAAAATAATTAAATGAATAAAACAT
Found at i:53208479 original size:37 final size:37
Alignment explanation
Indices: 53208425--53208499 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
53208415 AAGTTATTAA
*
53208425 ATTTTAATAAAAATATAAGAAATATTTATCTATTATT
1 ATTTTAATAAAAATATAACAAATATTTATCTATTATT
* * *
53208462 ATTTTAATAAAAGTATAACAAATATTTATTTTTTATT
1 ATTTTAATAAAAATATAACAAATATTTATCTATTATT
53208499 A
1 A
53208500 AAAAATAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (37 bp):
ATTTTAATAAAAATATAACAAATATTTATCTATTATT
Found at i:53208610 original size:49 final size:48
Alignment explanation
Indices: 53208519--53208631 Score: 115
Period size: 49 Copynumber: 2.3 Consensus size: 48
53208509 AAAAGATTAC
* * * *
53208519 AAAAATTGTAAAATTTTATAAAATTCTAAAAAAAATTATAAAATATAG-
1 AAAAATTATAAAATTTTATAAAAGTCTAAAAAAAATGATAAAAAAT-GT
*
53208567 AAAAATATATAAAATTTTAT-AAAGTCGT-AAGAAAATGATTAAAAAATGT
1 AAAAAT-TATAAAATTTTATAAAAGTC-TAAAAAAAATGA-TAAAAAATGT
53208616 AAAGAATTATAAAATT
1 AAA-AATTATAAAATT
53208632 CGTAAAAGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
48 20 0.36
49 32 0.58
50 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (48 bp):
AAAAATTATAAAATTTTATAAAAGTCTAAAAAAAATGATAAAAAATGT
Found at i:53208842 original size:18 final size:18
Alignment explanation
Indices: 53208796--53208843 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
53208786 TTTCTGATGC
53208796 ATTTTATAATTTTTTTATAAG
1 ATTTTAT-A-TTTTTTAT-AG
53208817 ATTTTATATTTTTTAT-G
1 ATTTTATATTTTTTATAG
53208834 ATTTATATAT
1 ATTT-TATAT
53208844 ATTTCTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 8 0.31
20 1 0.04
21 7 0.27
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (18 bp):
ATTTTATATTTTTTATAG
Found at i:53208871 original size:28 final size:27
Alignment explanation
Indices: 53208797--53208877 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 27
53208787 TTCTGATGCA
*
53208797 TTTTATAATTTTTTTATAAGATTTTATATT
1 TTTTATAA-TTTTTTAT-ATATTTTATA-T
* *
53208827 TTTTATGA-TTTATATATATTTCTA-AT
1 TTTTATAATTTTTTATATATTT-TATAT
53208853 TTTTAATAATTTTTTATAT-TTTTAT
1 TTTT-ATAATTTTTTATATATTTTAT
53208878 TAAAGTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
26 7 0.17
27 12 0.29
28 16 0.38
30 7 0.17
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTATAATTTTTTATATATTTTATAT
Done.