Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 306 of 410
Found at i:94715877 original size:19 final size:19
Alignment explanation
Indices: 94715853--94715892 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94715843 TTTCCTTAGG
94715853 TTTTAAATTCTTTTAGAAT
1 TTTTAAATTCTTTTAGAAT
* * *
94715872 TTTTAAGTTTTTTTAGTAT
1 TTTTAAATTCTTTTAGAAT
94715891 TT
1 TT
94715893 AAGTCTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTTAAATTCTTTTAGAAT
Found at i:94716583 original size:2 final size:2
Alignment explanation
Indices: 94716578--94716625 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
94716568 ACACACACAC
94716578 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94716620 AT AT AT
1 AT AT AT
94716626 TCATTAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94717131 original size:27 final size:28
Alignment explanation
Indices: 94717101--94717159 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
94717091 CTGAACATTT
94717101 AAAAAATAAAAATTTT-T-A-TTTTTTAA
1 AAAAAAT-AAAATTTTGTAAGTTTTTTAA
*
94717127 AAAAAATTAAATTTTGTAAGTTTTTTAA
1 AAAAAATAAAATTTTGTAAGTTTTTTAA
94717155 AAAAA
1 AAAAA
94717160 CTGGTGCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 7 0.24
26 8 0.28
27 1 0.03
28 13 0.45
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
AAAAAATAAAATTTTGTAAGTTTTTTAA
Found at i:94719134 original size:2 final size:2
Alignment explanation
Indices: 94719127--94719167 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
94719117 GCATTTGAAT
94719127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94719168 GTATGTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94719172 original size:4 final size:4
Alignment explanation
Indices: 94719165--94719192 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
94719155 TATATATATA
94719165 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
94719193 CTTGATTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:94720627 original size:16 final size:16
Alignment explanation
Indices: 94720605--94720644 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
94720595 GAAAATGATA
94720605 AAAAGGTTTTCAATTG
1 AAAAGGTTTTCAATTG
*
94720621 GAAAGGTTTTCAATTG
1 AAAAGGTTTTCAATTG
94720637 AAAAGGTT
1 AAAAGGTT
94720645 ATTGAAGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (16 bp):
AAAAGGTTTTCAATTG
Found at i:94721264 original size:43 final size:43
Alignment explanation
Indices: 94721209--94721308 Score: 173
Period size: 43 Copynumber: 2.3 Consensus size: 43
94721199 GATTGAATGG
*
94721209 CATTTAGCTAGGTGAATATATTGTTTTTGATGAATCTAAATAT
1 CATTTAGTTAGGTGAATATATTGTTTTTGATGAATCTAAATAT
* *
94721252 CATTTAGTTAGGTGAATATATTGTTTTTGGTGAATCTAAATGT
1 CATTTAGTTAGGTGAATATATTGTTTTTGATGAATCTAAATAT
94721295 CATTTAGTTAGGTG
1 CATTTAGTTAGGTG
94721309 TCGGATAAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (43 bp):
CATTTAGTTAGGTGAATATATTGTTTTTGATGAATCTAAATAT
Found at i:94721268 original size:25 final size:25
Alignment explanation
Indices: 94721239--94721308 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 25
94721229 TTGTTTTTGA
94721239 TGAATCTAAATATCATTTAGTTAGG
1 TGAATCTAAATATCATTTAGTTAGG
**
94721264 TGAA--T--ATATTGTTT--TT-GG
1 TGAATCTAAATATCATTTAGTTAGG
*
94721282 TGAATCTAAATGTCATTTAGTTAGG
1 TGAATCTAAATATCATTTAGTTAGG
94721307 TG
1 TG
94721309 TCGGATAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 14
0.63 0.10 0.27
Matches are distributed among these distances:
18 6 0.18
19 2 0.06
20 1 0.03
21 7 0.21
22 6 0.18
23 1 0.03
24 2 0.06
25 8 0.24
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (25 bp):
TGAATCTAAATATCATTTAGTTAGG
Found at i:94721324 original size:43 final size:43
Alignment explanation
Indices: 94721209--94721325 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
94721199 GATTGAATGG
* * * * *
94721209 CATTTAGCTAGGTGAATATATTGTTTTTGATGAATCTAAATAT
1 CATTTAGTTAGGTGAAGATATAGTGTTTGGTGAATCTAAATAT
* * * *
94721252 CATTTAGTTAGGTGAATATATTGTTTTTGGTGAATCTAAATGT
1 CATTTAGTTAGGTGAAGATATAGTGTTTGGTGAATCTAAATAT
**
94721295 CATTTAGTTAGGTGTCGGATA-AGTGTTTGGT
1 CATTTAGTTAGGTG-AAGATATAGTGTTTGGT
94721326 TTTGATTCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
43 62 0.95
44 3 0.05
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.44
Consensus pattern (43 bp):
CATTTAGTTAGGTGAAGATATAGTGTTTGGTGAATCTAAATAT
Found at i:94727109 original size:92 final size:92
Alignment explanation
Indices: 94726952--94727136 Score: 309
Period size: 92 Copynumber: 2.0 Consensus size: 92
94726942 TTTTTTGTAC
**
94726952 AGTGCTATGTCACTTCCAAGCATTTTACACACAACTTTAACCAATTATTTTTATAGGTTGTCAAA
1 AGTGCTACATCACTTCCAAGCATTTTACACACAACTTTAACCAATTATTTTTATAGGTTGTCAAA
94727017 GAATGAAGGTTGATGGAATTGGATTAG
66 GAATGAAGGTTGATGGAATTGGATTAG
* *
94727044 AGTGCTACATCACTTCCAAGCCTTTTACACACAA-TTTCAACCACTTATTTTTATAGGTTGTCAA
1 AGTGCTACATCACTTCCAAGCATTTTACACACAACTTT-AACCAATTATTTTTATAGGTTGTCAA
*
94727108 AGAATGAAGGTTGTTGGAATTGGATTAG
65 AGAATGAAGGTTGATGGAATTGGATTAG
94727136 A
1 A
94727137 TTAGTAGGTC
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 3 0.03
92 84 0.97
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (92 bp):
AGTGCTACATCACTTCCAAGCATTTTACACACAACTTTAACCAATTATTTTTATAGGTTGTCAAA
GAATGAAGGTTGATGGAATTGGATTAG
Found at i:94729340 original size:31 final size:31
Alignment explanation
Indices: 94729277--94729366 Score: 139
Period size: 31 Copynumber: 3.0 Consensus size: 31
94729267 AAGCATAAAC
** *
94729277 ATATTGAGTCATTTATGCAAAAA-G-TAAAA
1 ATATTGAGTCATTTATTAAAAAATGAAAAAA
94729306 ATATTGAGTCATTTATTAAAAAATGAAAAAA
1 ATATTGAGTCATTTATTAAAAAATGAAAAAA
94729337 ATATTGAGTCATTTATTAAAAAATGAAAAA
1 ATATTGAGTCATTTATTAAAAAATGAAAAA
94729367 GGAAGTACGA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 21 0.38
30 1 0.02
31 34 0.61
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.32
Consensus pattern (31 bp):
ATATTGAGTCATTTATTAAAAAATGAAAAAA
Found at i:94732235 original size:3 final size:3
Alignment explanation
Indices: 94732227--94732255 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
94732217 GATTGGCTAA
94732227 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
94732256 AGCTTCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:94741423 original size:2 final size:2
Alignment explanation
Indices: 94741416--94741449 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
94741406 GAAAAGGGAA
94741416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94741450 CATCACTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94748795 original size:47 final size:47
Alignment explanation
Indices: 94748737--94749221 Score: 792
Period size: 47 Copynumber: 10.3 Consensus size: 47
94748727 GTATGAGATA
*
94748737 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
94748784 TATTTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
94748831 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
94748878 TATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
94748925 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
94748972 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
94749019 TATATAAGTGACAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
94749066 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
94749113 CATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG
* * * *
94749160 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
94749207 TATAAATGTGATAAG
1 TATATATGTGATAAG
94749222 TCCCGAAGGG
Statistics
Matches: 408, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 2 0.00
47 405 0.99
48 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:94749398 original size:37 final size:37
Alignment explanation
Indices: 94749339--94749421 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
94749329 CCGAGCTCTA
* *
94749339 AAGACCCGATGACTACGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCAGGT
* *
94749376 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCAGGT
*
94749413 AAGCCCCGA
1 AAGACCCGA
94749422 ACTAAAGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCAGGT
Found at i:94752101 original size:2 final size:2
Alignment explanation
Indices: 94752094--94752137 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
94752084 ACAAATGAAA
* *
94752094 AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94752136 AT
1 AT
94752138 GTATTCATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:94753499 original size:30 final size:30
Alignment explanation
Indices: 94753458--94753516 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
94753448 GGCACATGGG
*
94753458 TGTGAAGGGCATCTCAGCGAGTTGCACGGC
1 TGTGAAGGGCATCTCAGCGAGTTACACGGC
* *
94753488 TGTGTAGGGCATCTCAGTGAGTTACACGG
1 TGTGAAGGGCATCTCAGCGAGTTACACGG
94753517 GTGAGGATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (30 bp):
TGTGAAGGGCATCTCAGCGAGTTACACGGC
Found at i:94766239 original size:49 final size:50
Alignment explanation
Indices: 94766178--94766305 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
94766168 CAAGTTGATG
*
94766178 CCATGTCCCAGACATGGTCTTACACTGACTATCA-AAAT-TGAGGCCGATA
1 CCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCCG-GGCCGATA
* * * * *
94766227 CCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCGTGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTGA-CTATCACAAATCCGGGCCGATA
*
94766277 CCATGTCCCAGACATGGTCTTCCACTGAC
1 CCATGTCCCAGACATGGTCTTACACTGAC
94766306 ACCTCTATAC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
48 1 0.01
49 31 0.46
50 34 0.50
51 2 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCCGGGCCGATA
Found at i:94766303 original size:99 final size:96
Alignment explanation
Indices: 94766124--94766305 Score: 251
Period size: 96 Copynumber: 1.9 Consensus size: 96
94766114 AGGGTATAAT
* * * *
94766124 GCCGATGCCATGTCCTAGACATGGTCTTATACTGGCTCATCCATCAAGTTGATGCCATGTCCCAG
1 GCCGATACCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTTGATGCCATGTCCCAG
94766189 ACATGGTCTTACACTGACTATCAAAATTGAG
66 ACATGGTCTTACACTGACTATCAAAATTGAG
*
94766220 GCCGATACCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCCGTGCTGATGCCATGT
1 GCCGATACCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCA--AGT--TGATGCCATGT
*
94766283 CCCAGACATGGTCTTCCACTGAC
61 CCCAGACATGGTCTTACACTGAC
94766306 ACCTCTATAC
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
95 3 0.04
96 37 0.49
97 2 0.03
99 33 0.44
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
GCCGATACCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTTGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCAAAATTGAG
Found at i:94775909 original size:21 final size:20
Alignment explanation
Indices: 94775881--94775919 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
94775871 AGGTGTATTT
*
94775881 TGAAGTTTTTTGATAGATTA
1 TGAAGTTTGTTGATAGATTA
94775901 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTGTTGATAGAT
94775920 ATACAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (20 bp):
TGAAGTTTGTTGATAGATTA
Found at i:94775931 original size:21 final size:21
Alignment explanation
Indices: 94775883--94775933 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
94775873 GTGTATTTTG
*
94775883 AAGTTTT-TTGATAGATTATG
1 AAGTTTTGTTGATAGATTATC
94775903 AA-TGTTTGTTGATAGA-TATAC
1 AAGT-TTTGTTGATAGATTAT-C
94775924 AAGTTTTGTT
1 AAGTTTTGTT
94775934 AAGTGATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 16 0.62
22 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (21 bp):
AAGTTTTGTTGATAGATTATC
Found at i:94782447 original size:2 final size:2
Alignment explanation
Indices: 94782405--94782430 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94782395 CTGATTTGCG
94782405 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
94782431 GAAATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94789796 original size:39 final size:39
Alignment explanation
Indices: 94789742--94789852 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
94789732 TGTTCGGGTA
94789742 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
94789781 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* * *
94789820 ATATCCGGGTTAAGTCCTGAAGGCATTTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
94789853 GGCTACCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
39 52 0.76
40 16 0.24
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:94792002 original size:35 final size:35
Alignment explanation
Indices: 94791960--94792030 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
94791950 ATAAAATTTA
94791960 ACATTTAAAATTATCAATATATATTATTTAATAAC
1 ACATTTAAAATTATCAATATATATTATTTAATAAC
94791995 ACATTTAAAATTATCAATATATATTATTTAATAAC
1 ACATTTAAAATTATCAATATATATTATTTAATAAC
94792030 A
1 A
94792031 TACTCTTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (35 bp):
ACATTTAAAATTATCAATATATATTATTTAATAAC
Found at i:94793263 original size:30 final size:29
Alignment explanation
Indices: 94793227--94793285 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
94793217 CATGGCTAGG
*
94793227 CACACGGACGTGTGACTAGGCTGTGTGATC
1 CACACGGACGTGTGAC-AGGCTATGTGATC
* *
94793257 CACACGGGCGTGTGGCAGGCTATGTGATC
1 CACACGGACGTGTGACAGGCTATGTGATC
94793286 ACCCTTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.19, C:0.24, G:0.36, T:0.22
Consensus pattern (29 bp):
CACACGGACGTGTGACAGGCTATGTGATC
Found at i:94796362 original size:45 final size:44
Alignment explanation
Indices: 94796313--94796454 Score: 121
Period size: 47 Copynumber: 3.1 Consensus size: 44
94796303 CAACTTTTAT
94796313 CTGCAAACCTGTTATGCATTCACAATCTACTGGCAGCGTATTAAC
1 CTGCAAACCTGTTATG-ATTCACAATCTACTGGCAGCGTATTAAC
* * * *
94796358 CTGCAAACACTGGTGGTAT-ATCCACAACTTCTACTGGCATC-T-TTTAT
1 CTGCAAAC-CT-GT--TATGATTCACAA--TCTACTGGCAGCGTATTAAC
* *
94796405 TTGCAAACCTGTTGTGTATTCACAA-CTACTGGCAGCGTATTAAC
1 CTGCAAACCTGTTATG-ATTCACAATCTACTGGCAGCGTATTAAC
*
94796449 TTGCAA
1 CTGCAA
94796455 CACTTGTGGT
Statistics
Matches: 77, Mismatches: 10, Indels: 21
0.71 0.09 0.19
Matches are distributed among these distances:
42 10 0.13
43 3 0.04
44 9 0.12
45 17 0.22
46 4 0.05
47 19 0.25
48 1 0.01
49 14 0.18
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (44 bp):
CTGCAAACCTGTTATGATTCACAATCTACTGGCAGCGTATTAAC
Found at i:94796474 original size:45 final size:46
Alignment explanation
Indices: 94796333--94796474 Score: 132
Period size: 45 Copynumber: 3.1 Consensus size: 46
94796323 GTTATGCATT
* *
94796333 CACAATCTACTGGCAGCGTATTAACCTGCAAACACTGGTGGTATATC
1 CACAATCTACTGGCAGCGTATTAACTTGC-AACACTTGTGGTATATC
* * * * * * *
94796380 CACAACTTCTACTGGCATC-T-TTTATTTGCAA-ACCTGTTGTGTATT
1 CACAA--TCTACTGGCAGCGTATTAACTTGCAACACTTGTGGTATATC
94796425 CACAA-CTACTGGCAGCGTATTAACTTGCAACACTTGTGGT-TCATC
1 CACAATCTACTGGCAGCGTATTAACTTGCAACACTTGTGGTAT-ATC
94796470 CACAA
1 CACAA
94796475 ACTGGATTGT
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
42 10 0.14
43 1 0.01
44 10 0.14
45 28 0.38
46 2 0.03
47 11 0.15
48 1 0.01
49 11 0.15
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (46 bp):
CACAATCTACTGGCAGCGTATTAACTTGCAACACTTGTGGTATATC
Found at i:94807954 original size:49 final size:49
Alignment explanation
Indices: 94807882--94807978 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
94807872 CATCTAAAAA
*
94807882 TGATAGGAAAATCCTCCCTCATAGTTTCTTAGATGGACAAATATTTTCG
1 TGATAGGAAAATCCTCCCTCATAGTTTCTTAGATAGACAAATATTTTCG
94807931 TGATAGGAAAATCCTCCCTCATAGTTTCTTAGATAGACAAATATTTTC
1 TGATAGGAAAATCCTCCCTCATAGTTTCTTAGATAGACAAATATTTTC
94807979 ACTAAAATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (49 bp):
TGATAGGAAAATCCTCCCTCATAGTTTCTTAGATAGACAAATATTTTCG
Found at i:94808638 original size:31 final size:31
Alignment explanation
Indices: 94808595--94808653 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
94808585 ATCATGCTTG
94808595 TTGAGTTCTGAAGGAAATTAAAACATGTTTC
1 TTGAGTTCTGAAGGAAATTAAAACATGTTTC
* *
94808626 TTGAGTTTTGAAGGAAATTAAAATATGT
1 TTGAGTTCTGAAGGAAATTAAAACATGT
94808654 AACTACTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.37
Consensus pattern (31 bp):
TTGAGTTCTGAAGGAAATTAAAACATGTTTC
Found at i:94809138 original size:15 final size:16
Alignment explanation
Indices: 94809118--94809152 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
94809108 ATATTAAATA
94809118 TTTTAT-AAGTATTAT
1 TTTTATCAAGTATTAT
*
94809133 TTTTATCAATTATTAT
1 TTTTATCAAGTATTAT
94809149 TTTT
1 TTTT
94809153 CAAAAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTATCAAGTATTAT
Found at i:94814314 original size:45 final size:44
Alignment explanation
Indices: 94814248--94814351 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 44
94814238 GAATATATAT
* * *
94814248 ATTACATAGTTTGTGCCAAGTTTGTTCCAACACATTTCATTTAAA
1 ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTT-AA
* *
94814293 ATTACAAAGTTTGTTCTAAGTTTGTTCCAATACATCTCATTTAA
1 ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAA
*
94814337 ATTTCAAAGTTTGTT
1 ATTACAAAGTTTGTT
94814352 ATTTTTGCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 16 0.30
45 37 0.70
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (44 bp):
ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAA
Found at i:94814370 original size:14 final size:14
Alignment explanation
Indices: 94814351--94814381 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
94814341 CAAAGTTTGT
*
94814351 TATTTTTGCATTTA
1 TATTTTTGCATGTA
94814365 TATTTTTGCATGTA
1 TATTTTTGCATGTA
94814379 TAT
1 TAT
94814382 AAATTGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (14 bp):
TATTTTTGCATGTA
Found at i:94817267 original size:36 final size:34
Alignment explanation
Indices: 94817171--94817278 Score: 107
Period size: 36 Copynumber: 3.2 Consensus size: 34
94817161 TTTAACCCTT
* * *
94817171 TTTTTAAACCCTAAACAAATCCCTCTAATA-CT-
1 TTTTTAAACCCTAATCAAAACCCTTTAATACCTC
* *
94817203 TTTTT-AATCCTAAAT-AAAACCCCATTAATACCTC
1 TTTTTAAACCCT-AATCAAAA-CCCTTTAATACCTC
94817237 ATTTTTCAAACCCTAATCAAAACCCTTTAATACCTC
1 -TTTTT-AAACCCTAATCAAAACCCTTTAATACCTC
94817273 TTTTTA
1 TTTTTA
94817279 TTCAAACACT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
31 8 0.13
32 15 0.25
33 2 0.03
34 1 0.02
35 10 0.16
36 16 0.26
37 9 0.15
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.37
Consensus pattern (34 bp):
TTTTTAAACCCTAATCAAAACCCTTTAATACCTC
Found at i:94817398 original size:21 final size:22
Alignment explanation
Indices: 94817366--94817422 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
94817356 TTTCCTTCCC
*
94817366 CTTTCTTTCTCTTCTATCTTCT-
1 CTTTC-TTCTCTTCTATATTCTG
94817388 CTTTCTTCTCTTCTATATTCTG
1 CTTTCTTCTCTTCTATATTCTG
*
94817410 CTATTATTCTCTT
1 CT-TTCTTCTCTT
94817423 TTTCTTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 15 0.48
22 7 0.23
23 9 0.29
ACGTcount: A:0.09, C:0.28, G:0.02, T:0.61
Consensus pattern (22 bp):
CTTTCTTCTCTTCTATATTCTG
Found at i:94818720 original size:26 final size:27
Alignment explanation
Indices: 94818691--94818743 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
94818681 TTTAAAAGTT
*
94818691 AAGGTTCAAAGTGAT-AAATAAATAAA
1 AAGGGTCAAAGTGATAAAATAAATAAA
* *
94818717 AAGGGTCAATGTGATAAAATAAGTAAA
1 AAGGGTCAAAGTGATAAAATAAATAAA
94818744 CATTTAGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.55, C:0.04, G:0.19, T:0.23
Consensus pattern (27 bp):
AAGGGTCAAAGTGATAAAATAAATAAA
Found at i:94820071 original size:16 final size:18
Alignment explanation
Indices: 94820045--94820082 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
94820035 TTTTAAATGG
94820045 TTTTTTATTAATTTT-AA
1 TTTTTTATTAATTTTGAA
94820062 TTTTTT-TTAATTTTGAA
1 TTTTTTATTAATTTTGAA
94820079 TTTT
1 TTTT
94820083 ACTTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTTATTAATTTTGAA
Found at i:94820088 original size:17 final size:15
Alignment explanation
Indices: 94820047--94820094 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
94820037 TTAAATGGTT
94820047 TTTTATTAATTTTAA
1 TTTTATTAATTTTAA
*
94820062 TTTTTTTTAATTTTGAA
1 -TTTTATTAATTTT-AA
94820079 TTTTACTTAATATTTA
1 TTTTA-TTAAT-TTTA
94820095 TATAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 16 0.59
17 8 0.30
18 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTATTAATTTTAA
Found at i:94820127 original size:11 final size:12
Alignment explanation
Indices: 94820112--94820148 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
94820102 TTAATAATAC
94820112 TTTAAAAATTTA
1 TTTAAAAATTTA
*
94820124 -TTAAAAATATA
1 TTTAAAAATTTA
94820135 TTTAAAAA-TTA
1 TTTAAAAATTTA
94820146 TTT
1 TTT
94820149 TTTATCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 15 0.68
12 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTAAAAATTTA
Found at i:94820331 original size:26 final size:25
Alignment explanation
Indices: 94820302--94820350 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
94820292 TTAAATGGTT
94820302 TTTA-TTAATTTTAATTTTTTTTTAAA
1 TTTATTTAATTTT--TTTTTTTTTAAA
*
94820328 TTTATTTCATTTTTTTTTTTTTA
1 TTTATTTAATTTTTTTTTTTTTA
94820351 GTTTTGCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 4 0.19
27 7 0.33
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTATTTAATTTTTTTTTTTTTAAA
Found at i:94840620 original size:53 final size:53
Alignment explanation
Indices: 94840479--94840629 Score: 221
Period size: 53 Copynumber: 2.8 Consensus size: 53
94840469 ACAAGTGTGC
* **
94840479 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
94840532 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* * *
94840585 CCGTATAAGACCATATCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT-A-ATGTGA
94840630 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 82 0.92
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:94842425 original size:33 final size:32
Alignment explanation
Indices: 94842387--94842466 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
94842377 AAAAATTATC
94842387 TTGAAAAATTAATTTGGAAAATCTAA-GTGAT-TT
1 TTGAAAAATTAATTT--AAAAT-TAATGTGATATT
* *
94842420 TTGAAAAATTAAATTAAAATTAATTTGATATT
1 TTGAAAAATTAATTTAAAATTAATGTGATATT
*
94842452 TTTAAAAATTAATTT
1 TTGAAAAATTAATTT
94842467 TCAAGTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 3 0.07
31 9 0.22
32 15 0.37
33 14 0.34
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (32 bp):
TTGAAAAATTAATTTAAAATTAATGTGATATT
Found at i:94843788 original size:42 final size:40
Alignment explanation
Indices: 94843742--94843856 Score: 122
Period size: 42 Copynumber: 2.8 Consensus size: 40
94843732 TGAGTTTACA
* * *
94843742 TGTAAGACCATATCTGGGATATGGCATCGTTATGAGATTTTG
1 TGTAAGACCATAT-TGGGATATGGCATCGATATGAGA-ATCG
* * *
94843784 TGTAAGACCATGTTTGGGACATGGCATAGATATGAGAATCG
1 TGTAAGACCAT-ATTGGGATATGGCATCGATATGAGAATCG
*
94843825 TGTAAGACCATAGTTGGGCTATTGGCATCGAT
1 TGTAAGACCATA-TTGGGATA-TGGCATCGAT
94843857 GTAAGGTCCC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 19 0.32
42 40 0.67
43 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (40 bp):
TGTAAGACCATATTGGGATATGGCATCGATATGAGAATCG
Found at i:94847154 original size:38 final size:38
Alignment explanation
Indices: 94847089--94847180 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 38
94847079 ACCAGTTTGG
*
94847089 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTGA
1 CACCCAGTGCCTCATCGCATAGTTCGAAGCAAAGTTGA
* * * *
94847127 CACCCAGTGCCTTATCAGCCTAG-TCGAAGTAAAG-TGG
1 CACCCAGTGCCTCATC-GCATAGTTCGAAGCAAAGTTGA
* *
94847164 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
94847181 AATCTATCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
36 1 0.02
37 15 0.33
38 25 0.56
39 4 0.09
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGCATAGTTCGAAGCAAAGTTGA
Found at i:94848268 original size:7 final size:7
Alignment explanation
Indices: 94848247--94848281 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
94848237 TTTCCCCTAT
94848247 TTCTTTC
1 TTCTTTC
94848254 TT-TTTC
1 TTCTTTC
94848260 TTCTTTC
1 TTCTTTC
94848267 TTTCTTTC
1 -TTCTTTC
94848275 TTCTTTC
1 TTCTTTC
94848282 CCTACTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTCTTTC
Found at i:94848268 original size:17 final size:18
Alignment explanation
Indices: 94848246--94848279 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
94848236 ATTTCCCCTA
94848246 TTTCTTTCTTT-TTCTTC
1 TTTCTTTCTTTCTTCTTC
94848263 TTTCTTTCTTTCTTCTT
1 TTTCTTTCTTTCTTCTT
94848280 TCCCTACTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTTCTTCTTC
Found at i:94848582 original size:29 final size:29
Alignment explanation
Indices: 94848549--94848605 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
94848539 ATTATTTAAC
* *
94848549 TAATAACTATCTTTTTAATTTAATAAAAA
1 TAATAAATATCTATTTAATTTAATAAAAA
*
94848578 TAATAAATATCTATTTACTTTAATAAAA
1 TAATAAATATCTATTTAATTTAATAAAA
94848606 GTAAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (29 bp):
TAATAAATATCTATTTAATTTAATAAAAA
Found at i:94853139 original size:40 final size:40
Alignment explanation
Indices: 94853061--94853242 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
94853051 AACCCAAGTA
* ** *
94853061 CCTTCGGGATTTAG-CCGGATATAG-CAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAAG
* * *
94853100 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAAG
** *
94853140 CCTTCGGGACTTAGCCCAAATTTAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
* *
94853180 CCTTC-GGATCTTAGTCCGAATATAGTCACTAGCACAAAAG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAAG
*
94853220 TCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
94853243 CATTCGAATA
Statistics
Matches: 124, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 16 0.13
40 104 0.84
41 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
Found at i:94861253 original size:40 final size:40
Alignment explanation
Indices: 94861167--94861343 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 40
94861157 AACCCAAGTA
* * *
94861167 CCTTCAGGATTTAG-CCGGATATAG-CAAC-CGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
94861205 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
** * *
94861245 CCTTCGGGACTTAGCCCAAATTTAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
94861285 CCTTC-GGACTTAG-CCGAATATAGTCACTAGCACAAAT-
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
94861322 -CTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
94861344 CATTCGAATA
Statistics
Matches: 121, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
36 4 0.03
37 8 0.07
38 40 0.33
39 22 0.18
40 46 0.38
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:94863303 original size:78 final size:79
Alignment explanation
Indices: 94863201--94863368 Score: 212
Period size: 78 Copynumber: 2.1 Consensus size: 79
94863191 GATAATCCTA
* *
94863201 GCGGACTTCCCTTTACTTCAATAATACACGACAGACTTCTAAAACAGATAG-TATGGGCATCCCA
1 GCGGACTTCCCTTTACTTCAATAATACACGACAGACTTCTAAAACAAATAGCTATGGACATCCCA
94863265 CAAGATAGTCCATG
66 CAAGATAGTCCATG
* * * ** * **
94863279 GTGGACTTCCCTTTACTTCGATAATACATGGTAGACTTCTAGAACAAATAGTCCCTATGGATGTC
1 GCGGACTTCCCTTTACTTCAATAATACACGACAGACTTCTAAAACAAATAG---CTATGGACATC
94863344 CCACAAGATAGTCCATG
63 CCACAAGATAGTCCATG
94863361 GCGGACTT
1 GCGGACTT
94863369 TCCAGATATG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
78 44 0.59
82 31 0.41
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (79 bp):
GCGGACTTCCCTTTACTTCAATAATACACGACAGACTTCTAAAACAAATAGCTATGGACATCCCA
CAAGATAGTCCATG
Found at i:94865298 original size:32 final size:30
Alignment explanation
Indices: 94865261--94865325 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 30
94865251 ATAAAAATGG
*
94865261 TGAAAATGGAGAAATGAGAAATCATTCGAAAA
1 TGAAAATAGAGAAATG-GAAA-CATTCGAAAA
* *
94865293 TGAAAATAGAGAAATGGAAACATTTGGAAA
1 TGAAAATAGAGAAATGGAAACATTCGAAAA
94865323 TGA
1 TGA
94865326 TGATGGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 11 0.37
31 4 0.13
32 15 0.50
ACGTcount: A:0.52, C:0.05, G:0.23, T:0.20
Consensus pattern (30 bp):
TGAAAATAGAGAAATGGAAACATTCGAAAA
Found at i:94865362 original size:56 final size:57
Alignment explanation
Indices: 94865288--94865405 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 57
94865278 GAAATCATTC
*
94865288 GAAAATGAAAATAGAGAAATGGAAA-CATTTGGAAATG-ATGATGGTTTTCTCCAAAAT
1 GAAAATGAAAATAGAGAAAT-GAAATCATTTAGAAATGAATG-TGGTTTTCTCCAAAAT
*
94865345 GAAAATG-AAATGGAGAAATGAAATCATTTAGAAATGAATGTGGTTTTCTCCAAAAT
1 GAAAATGAAAATAGAGAAATGAAATCATTTAGAAATGAATGTGGTTTTCTCCAAAAT
*
94865401 AAAAA
1 GAAAA
94865406 ATTAAAATGA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
55 4 0.07
56 42 0.75
57 10 0.18
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (57 bp):
GAAAATGAAAATAGAGAAATGAAATCATTTAGAAATGAATGTGGTTTTCTCCAAAAT
Found at i:94872609 original size:18 final size:18
Alignment explanation
Indices: 94872586--94872631 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
94872576 TAAATAGTTT
*
94872586 GAGTTATTTGAATTAATC
1 GAGTTATTCGAATTAATC
94872604 GAGTTATTCGAATTAATC
1 GAGTTATTCGAATTAATC
94872622 GAGTTATTCG
1 GAGTTATTCG
94872632 GATCAACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (18 bp):
GAGTTATTCGAATTAATC
Found at i:94874560 original size:484 final size:484
Alignment explanation
Indices: 94873650--94874619 Score: 1706
Period size: 484 Copynumber: 2.0 Consensus size: 484
94873640 AGCAGAAAGC
* *
94873650 TATTAGCTTCCCCTATGACACCAATGTCAACTTTGAATGTTCTAGTGGGATACTATTGGCGATTT
1 TATTAGCTTCCCCTATGACACCAACGTCAACTTTGAATGTTCTAGTAGGATACTATTGGCGATTT
*
94873715 GTTAAAAGATTCTCGATGATAGCTATCCCATTGACTAAGTTACTACAGAAGAATATCAATTTTGA
66 GTTAAAAGATTCTCAATGATAGCTATCCCATTGACTAAGTTACTACAGAAGAATATCAATTTTGA
*
94873780 ATGGTCCAAGAAATGTTAGAAATGTTTGGAGAAGTTGAAGACAATGTTAACTAAGGCACCAATAC
131 ATGGTCCAAGAAATGTTAGAAATGTTTGGAGAAGTTGAAAACAATGTTAACTAAGGCACCAATAC
*
94873845 TAACACTGTAACACCTCATACCCAACCCGATTGTCAAGTCCGAACTACAGAATGCCACATTCGTT
196 TAACACTGTAACACCTCATACCCAACCCGATTGTCAAGTCCGAACTACAAAATGCCACATTCGTT
* *
94873910 GCTGGACCAATTATGATTAATCACATGCAAATTTCAATCTTAAATGCCTAAATACTAACATTGCG
261 GCCGGACCAATTATGATTAATCACATGCAAATTTCAATCTTAAATGCCTAAATACTAACATTACG
* *
94873975 TGCATAAAATACGAAAACTAACCATTTTAGGGTCAAATATGAGCTTAAGAAAGCTTAATACCATC
326 TGCATAAAACACGAAAACTAACCATTTTAGGGTCAAATATGAGCTTAAGAAAGCTCAATACCATC
* * *
94874040 CATAGATTGAACTAGGACCAAACTAAAAAGCTTTTAAAATATTTCAAGTGAGTGTTGTGACTTCC
391 CATAGACTGAACTAGGACCAAACTAAAAAACTTTTAAAATATTTCAAGTGAGTGTTGCGACTTCC
*
94874105 AGAGCTTGGTGTCACGCCATTGAAGATAG
456 AGAGCTTGGTGTCACGCCATTGAAGACAG
94874134 TATTAGCTTCCCCTATGACACCAACGTCAACTTTGAATGTTCTAGTAGGATACTATTGGCGATTT
1 TATTAGCTTCCCCTATGACACCAACGTCAACTTTGAATGTTCTAGTAGGATACTATTGGCGATTT
*
94874199 GTTAAAAGATTCTCAATGATAGCTATCCCATTGACTAAGTTACTATAGAAGAATATCAATTTTGA
66 GTTAAAAGATTCTCAATGATAGCTATCCCATTGACTAAGTTACTACAGAAGAATATCAATTTTGA
* * *
94874264 ATGGTCCAAGAAATGTTGGAAATGTTTTGAGAAGTTGAAAACAATGTTAACTAAGGCACCGATAC
131 ATGGTCCAAGAAATGTTAGAAATGTTTGGAGAAGTTGAAAACAATGTTAACTAAGGCACCAATAC
* * *
94874329 TAACATTGTAACACCTCATACCCAACTCGATTGTCAGGTCCGAACTACAAAATGCCACATTCGTT
196 TAACACTGTAACACCTCATACCCAACCCGATTGTCAAGTCCGAACTACAAAATGCCACATTCGTT
* * *
94874394 GCCGGAGCAATTATGATTAATCACATGCAAGTTTCAATCTTAAATGCCTAAATACTAGCATTACG
261 GCCGGACCAATTATGATTAATCACATGCAAATTTCAATCTTAAATGCCTAAATACTAACATTACG
94874459 TGCATAAAACACGAAAACTAACCATTTTAGGGTCAAATATGAGCTTAAGAAAGCTCAATACCATC
326 TGCATAAAACACGAAAACTAACCATTTTAGGGTCAAATATGAGCTTAAGAAAGCTCAATACCATC
* *
94874524 CATAGGCTGAACTAGGACCAAACTAAAAAACTTTTAAAATATTTCAAGTGGGTGTTGCGACTTCC
391 CATAGACTGAACTAGGACCAAACTAAAAAACTTTTAAAATATTTCAAGTGAGTGTTGCGACTTCC
*
94874589 AGAGCTTGGTGTCACGTCATTGAAGACAG
456 AGAGCTTGGTGTCACGCCATTGAAGACAG
94874618 TA
1 TA
94874620 GCCAAGCTTC
Statistics
Matches: 460, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
484 460 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (484 bp):
TATTAGCTTCCCCTATGACACCAACGTCAACTTTGAATGTTCTAGTAGGATACTATTGGCGATTT
GTTAAAAGATTCTCAATGATAGCTATCCCATTGACTAAGTTACTACAGAAGAATATCAATTTTGA
ATGGTCCAAGAAATGTTAGAAATGTTTGGAGAAGTTGAAAACAATGTTAACTAAGGCACCAATAC
TAACACTGTAACACCTCATACCCAACCCGATTGTCAAGTCCGAACTACAAAATGCCACATTCGTT
GCCGGACCAATTATGATTAATCACATGCAAATTTCAATCTTAAATGCCTAAATACTAACATTACG
TGCATAAAACACGAAAACTAACCATTTTAGGGTCAAATATGAGCTTAAGAAAGCTCAATACCATC
CATAGACTGAACTAGGACCAAACTAAAAAACTTTTAAAATATTTCAAGTGAGTGTTGCGACTTCC
AGAGCTTGGTGTCACGCCATTGAAGACAG
Found at i:94877977 original size:24 final size:23
Alignment explanation
Indices: 94877897--94877979 Score: 100
Period size: 22 Copynumber: 3.7 Consensus size: 23
94877887 GACTCACTAT
94877897 AGCTC-ATAAGAGCTTCCCG-TTC
1 AGCTCAAT-AGAGCTTCCCGTTTC
*
94877919 AGCTCAATAGAGCTTCTC-TTTC
1 AGCTCAATAGAGCTTCCCGTTTC
94877941 AGCTCAATAGAGCTTCCCGTTTC
1 AGCTCAATAGAGCTTCCCGTTTC
* *
94877964 TAGCTTAATTGAGCTT
1 -AGCTCAATAGAGCTT
94877980 ACAGTTATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
22 34 0.64
23 6 0.11
24 13 0.25
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.34
Consensus pattern (23 bp):
AGCTCAATAGAGCTTCCCGTTTC
Found at i:94883360 original size:28 final size:28
Alignment explanation
Indices: 94883329--94883395 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
94883319 ATATATATGA
94883329 CACTTAGTGTGCAAAATATTGAGAATGG
1 CACTTAGTGTGCAAAATATTGAGAATGG
* * *
94883357 CACTTGGTGTGCAAGATATTGAGTATGG
1 CACTTAGTGTGCAAAATATTGAGAATGG
94883385 CACTTAGTGTG
1 CACTTAGTGTG
94883396 TGAGACATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCAAAATATTGAGAATGG
Found at i:94883966 original size:31 final size:29
Alignment explanation
Indices: 94883931--94883992 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 29
94883921 TAAAATCCTT
94883931 AATGAGTCTATTTTCAAAAGAAAACAAACAA
1 AATGAGTCTATTTTCAAAA-AAAA-AAACAA
* *
94883962 AATGATTCTATTTTCAAAATAAAAAACAA
1 AATGAGTCTATTTTCAAAAAAAAAAACAA
94883991 AA
1 AA
94883993 ACATCATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.28
30 3 0.10
31 18 0.62
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.26
Consensus pattern (29 bp):
AATGAGTCTATTTTCAAAAAAAAAAACAA
Found at i:94888796 original size:22 final size:22
Alignment explanation
Indices: 94888763--94888824 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
94888753 GACCCACCAT
*
94888763 AGCTC-ATAAGAGCTTCTCGTTC
1 AGCTCAAT-AGAGCTTCCCGTTC
94888785 AGCTCAATAGAGCTTCCCGTTC
1 AGCTCAATAGAGCTTCCCGTTC
*
94888807 AGCTTAATAGAGCTTCCC
1 AGCTCAATAGAGCTTCCC
94888825 ATTTCTAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (22 bp):
AGCTCAATAGAGCTTCCCGTTC
Found at i:94888843 original size:24 final size:22
Alignment explanation
Indices: 94888771--94888845 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
94888761 ATAGCTCATA
* *
94888771 AGAGCTTCTCGTTCAGCTCAAT
1 AGAGCTTCCCGTTCAGCTTAAT
94888793 AGAGCTTCCCGTTCAGCTTAAT
1 AGAGCTTCCCGTTCAGCTTAAT
*
94888815 AGAGCTTCCCATTTCTAGCTTAAT
1 AGAGCTTCCC-GTTC-AGCTTAAT
*
94888839 TGAGCTT
1 AGAGCTT
94888846 ACAGTTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
22 30 0.64
23 3 0.06
24 14 0.30
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (22 bp):
AGAGCTTCCCGTTCAGCTTAAT
Found at i:94894895 original size:14 final size:15
Alignment explanation
Indices: 94894878--94894906 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94894868 ATTAAAACAA
94894878 ATTAATTT-CTAAAT
1 ATTAATTTGCTAAAT
94894892 ATTAATTTGCTAAAT
1 ATTAATTTGCTAAAT
94894907 TAATCACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTAATTTGCTAAAT
Found at i:94899076 original size:42 final size:42
Alignment explanation
Indices: 94899017--94899101 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
94899007 CTTTATAACT
94899017 AAATAAAACTCTCCTTTTAAAACCAAAAAGAAAAGGAGAGAA
1 AAATAAAACTCTCCTTTTAAAACCAAAAAGAAAAGGAGAGAA
94899059 AAATAAAACTCTCCTTTTAAAACCAAAAAGAAAAGGAGAGAA
1 AAATAAAACTCTCCTTTTAAAACCAAAAAGAAAAGGAGAGAA
94899101 A
1 A
94899102 GTGAATAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (42 bp):
AAATAAAACTCTCCTTTTAAAACCAAAAAGAAAAGGAGAGAA
Found at i:94900807 original size:37 final size:37
Alignment explanation
Indices: 94900757--94900827 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
94900747 TCGAAGACTC
*
94900757 TCTCTTACATTAATCAGTGGTCGAGAATTTAATCATT
1 TCTCTTACATTAATCAGTGGTCCAGAATTTAATCATT
* *
94900794 TCTCTTATATTAATTAGTGGTCCAGAATTTAATC
1 TCTCTTACATTAATCAGTGGTCCAGAATTTAATC
94900828 TTTATTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (37 bp):
TCTCTTACATTAATCAGTGGTCCAGAATTTAATCATT
Found at i:94905068 original size:21 final size:22
Alignment explanation
Indices: 94905019--94905068 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
94905009 TAAAAATATT
*
94905019 TATAACATTATTTTTATGAATA
1 TATAATATTATTTTTATGAATA
94905041 -AGT-ATATTATTTTTAT-AATA
1 TA-TAATATTATTTTTATGAATA
94905061 TATAATAT
1 TATAATAT
94905069 ATACACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 5 0.21
21 18 0.75
22 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (22 bp):
TATAATATTATTTTTATGAATA
Found at i:94905542 original size:12 final size:12
Alignment explanation
Indices: 94905525--94905549 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94905515 AATTACAAGC
94905525 AATTACACTCAA
1 AATTACACTCAA
94905537 AATTACACTCAA
1 AATTACACTCAA
94905549 A
1 A
94905550 TCTAATTACT
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
AATTACACTCAA
Found at i:94905725 original size:8 final size:8
Alignment explanation
Indices: 94905712--94905754 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
94905702 TAAAAATTAT
94905712 AATTAAAA
1 AATTAAAA
94905720 AATTAAAA
1 AATTAAAA
*
94905728 AGTTCAAAA
1 AATT-AAAA
* *
94905737 AATCATAA
1 AATTAAAA
94905745 AATTAAAA
1 AATTAAAA
94905753 AA
1 AA
94905755 AATTACAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (8 bp):
AATTAAAA
Found at i:94905755 original size:17 final size:15
Alignment explanation
Indices: 94905712--94905754 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
94905702 TAAAAATTAT
*
94905712 AATTAAAAAATTAAA
1 AATTAAAAAATCAAA
94905727 AAGTTCAAAAAATCATAA
1 AA-TT-AAAAAATCA-AA
94905745 AATTAAAAAA
1 AATTAAAAAA
94905755 AATTACAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 2 0.08
16 8 0.33
17 10 0.42
18 4 0.17
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (15 bp):
AATTAAAAAATCAAA
Found at i:94905821 original size:40 final size:34
Alignment explanation
Indices: 94905733--94905822 Score: 83
Period size: 40 Copynumber: 2.4 Consensus size: 34
94905723 TAAAAAGTTC
94905733 AAAAAATCATAAAATTAAAAAAAATTACAATTCCA
1 AAAAAATC-TAAAATTAAAAAAAATTACAATTCCA
* *
94905768 AAAATTAT-AAAAATGTAAAACAAAATTACAAATTTTTCCA
1 AAAA-AATCTAAAAT-TAAAA-AAAATTAC-AA---TTCCA
94905808 AAAAAATCTAAAATT
1 AAAAAATCTAAAATT
94905823 TTAGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
34 5 0.12
35 9 0.21
36 10 0.23
37 2 0.05
39 3 0.07
40 14 0.33
ACGTcount: A:0.62, C:0.10, G:0.01, T:0.27
Consensus pattern (34 bp):
AAAAAATCTAAAATTAAAAAAAATTACAATTCCA
Found at i:94911780 original size:83 final size:83
Alignment explanation
Indices: 94911640--94911886 Score: 458
Period size: 83 Copynumber: 3.0 Consensus size: 83
94911630 ATACTTTGAG
*
94911640 TGCAAGTAAGAAATAAAATCTAAGACAATCTACCCAAAATATGGTTGTTAACATTAGCACTATGT
1 TGCAAGTAAGAAATAAAATCTAAGAAAATCTACCCAAAATATGGTTGTTAACATTAGCACTATGT
94911705 CATGATGTCGTCTAGGAA
66 CATGATGTCGTCTAGGAA
*
94911723 TGCAAGTAAGAAATAAAATCTAAGAAAATCTACCCAAAATATGGTTGTTAACGTTAGCACTATGT
1 TGCAAGTAAGAAATAAAATCTAAGAAAATCTACCCAAAATATGGTTGTTAACATTAGCACTATGT
*
94911788 CATGATGTCGTCTAAGAA
66 CATGATGTCGTCTAGGAA
*
94911806 TGCAAGTAAGAAATAAAATCTAAGAATATCTACCCAAAATATGGTTGTTAACATTAGCACTATGT
1 TGCAAGTAAGAAATAAAATCTAAGAAAATCTACCCAAAATATGGTTGTTAACATTAGCACTATGT
94911871 CATGATGTCGTCTAGG
66 CATGATGTCGTCTAGG
94911887 TTATGTTGAA
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 158 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (83 bp):
TGCAAGTAAGAAATAAAATCTAAGAAAATCTACCCAAAATATGGTTGTTAACATTAGCACTATGT
CATGATGTCGTCTAGGAA
Found at i:94915165 original size:2 final size:2
Alignment explanation
Indices: 94915158--94915205 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
94915148 ATTTTTCCTA
94915158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94915200 AT AT AT
1 AT AT AT
94915206 GAACCTGATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94927179 original size:2 final size:2
Alignment explanation
Indices: 94927172--94927196 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94927162 ACCTCCACAA
94927172 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
94927197 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94928710 original size:19 final size:19
Alignment explanation
Indices: 94928686--94928723 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
94928676 AGAATTTGAG
94928686 ATAAAAGATCAAATGAGAA
1 ATAAAAGATCAAATGAGAA
94928705 ATAAAAGATCAAATGAGAA
1 ATAAAAGATCAAATGAGAA
94928724 CCCATATACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.16, T:0.16
Consensus pattern (19 bp):
ATAAAAGATCAAATGAGAA
Found at i:94932420 original size:16 final size:16
Alignment explanation
Indices: 94932395--94932425 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94932385 TTATTGCTTA
*
94932395 TGTTGTTATACATGGT
1 TGTTGGTATACATGGT
94932411 TGTTGGTATACATGG
1 TGTTGGTATACATGG
94932426 CTAACTAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (16 bp):
TGTTGGTATACATGGT
Found at i:94934005 original size:28 final size:28
Alignment explanation
Indices: 94933891--94934007 Score: 71
Period size: 28 Copynumber: 4.2 Consensus size: 28
94933881 AGACACACTT
* *
94933891 AAAAAACAGTCACTACATGCATATTATT
1 AAAAAATAGTCACTACATGCATATTATA
* * * *
94933919 AAAAAATACTTATTGCATGCATA-T-TA
1 AAAAAATAGTCACTACATGCATATTATA
** * ***
94933945 AAAAAATAGTCAGAC-ACACACACACCCCT-
1 AAAAAATAGTC--ACTACATGCATA-TTATA
94933974 AAAAAATAGTCACTACATGCATATTATA
1 AAAAAATAGTCACTACATGCATATTATA
94934002 AAAAAA
1 AAAAAA
94934008 GAAAACTCAC
Statistics
Matches: 62, Mismatches: 20, Indels: 14
0.65 0.21 0.15
Matches are distributed among these distances:
26 10 0.16
27 9 0.15
28 31 0.50
29 11 0.18
30 1 0.02
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (28 bp):
AAAAAATAGTCACTACATGCATATTATA
Found at i:94937010 original size:44 final size:45
Alignment explanation
Indices: 94936920--94937029 Score: 141
Period size: 44 Copynumber: 2.4 Consensus size: 45
94936910 GACAGAACGA
*
94936920 AATGAGCCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGACATTGGAGACAGG
* * *
94936966 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGG
* **
94937010 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
94937030 GTCAAAGACA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 34 0.61
46 22 0.39
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGG
Found at i:94942121 original size:26 final size:26
Alignment explanation
Indices: 94942092--94942151 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
94942082 TCCCTTTGAA
* * *
94942092 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
94942118 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
94942146 CCATTC
1 TCATTC
94942152 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:94942137 original size:28 final size:28
Alignment explanation
Indices: 94942106--94942177 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
94942096 TCGATATTTT
*
94942106 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
94942134 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
94942162 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
94942178 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:94944065 original size:12 final size:12
Alignment explanation
Indices: 94944048--94944077 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
94944038 TACGAAAAAA
94944048 GAGAAAATAAAT
1 GAGAAAATAAAT
94944060 GAGAAAATAAAT
1 GAGAAAATAAAT
94944072 GA-AAAA
1 GAGAAAA
94944078 GTGAAACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (12 bp):
GAGAAAATAAAT
Found at i:94945805 original size:17 final size:19
Alignment explanation
Indices: 94945766--94945806 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
94945756 ACCGATAACG
* *
94945766 TATAAAAATTTTGGAAACT
1 TATAAAAATTTTGCAAACA
94945785 TATAAAAA-TTT-CAAACA
1 TATAAAAATTTTGCAAACA
94945802 TATAA
1 TATAA
94945807 GGGTCACACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 3 0.15
19 8 0.40
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (19 bp):
TATAAAAATTTTGCAAACA
Found at i:94946980 original size:135 final size:135
Alignment explanation
Indices: 94946733--94947007 Score: 532
Period size: 135 Copynumber: 2.0 Consensus size: 135
94946723 ACAAGTAACA
*
94946733 CAAAGTAAGCTTCATAGCTTAGTAAGTTCGTAAGTGAATAACTCAATTCATCAAATAAATATAAT
1 CAAATTAAGCTTCATAGCTTAGTAAGTTCGTAAGTGAATAACTCAATTCATCAAATAAATATAAT
94946798 TCAACCATTTACACATTACCAAATCAAAATCACATTAACCACAAACCTTTCTCATGTCTCAAAAC
66 TCAACCATTTACACATTACCAAATCAAAATCACATTAACCACAAACCTTTCTCATGTCTCAAAAC
94946863 ATGAT
131 ATGAT
*
94946868 CAAATTAAGCTTCATAGCTTTGTAAGTTCGTAAGTGAATAACTCAATTCATCAAATAAATATAAT
1 CAAATTAAGCTTCATAGCTTAGTAAGTTCGTAAGTGAATAACTCAATTCATCAAATAAATATAAT
94946933 TCAACCATTTACACATTACCAAATCAAAATCACATTAACCACAAACCTTTCTCATGTCTCAAAAC
66 TCAACCATTTACACATTACCAAATCAAAATCACATTAACCACAAACCTTTCTCATGTCTCAAAAC
94946998 ATGAT
131 ATGAT
94947003 CAAAT
1 CAAAT
94947008 ACCATCTCAT
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 138 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (135 bp):
CAAATTAAGCTTCATAGCTTAGTAAGTTCGTAAGTGAATAACTCAATTCATCAAATAAATATAAT
TCAACCATTTACACATTACCAAATCAAAATCACATTAACCACAAACCTTTCTCATGTCTCAAAAC
ATGAT
Found at i:94953521 original size:48 final size:48
Alignment explanation
Indices: 94953319--94953542 Score: 179
Period size: 48 Copynumber: 4.7 Consensus size: 48
94953309 TAGGGTGTCA
* * * * * * *
94953319 ATGCCATATCCCGGATATAGTCTTAGATGGGACCACTTATCGATGCCA
1 ATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATGCCG
* *
94953367 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAT--AT--CG
1 ATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATGCCG
* * * ** * *
94953411 AAGCCAATAGCCGAG-CTATGGTCTTACATGATATTCCCATATCGATGCCC
1 ATGCC-ATATCCCAGAC-ATGGTCTTACATGGGA-TCACATATCGATGCCG
* **
94953461 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGTTG
1 ATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATGCCG
* * * *
94953509 ATGTCATATCCCAGATATGGTCTTATACGGGATC
1 ATGCCATATCCCAGACATGGTCTTACATGGGATC
94953543 TCATCAACCC
Statistics
Matches: 135, Mismatches: 33, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
44 6 0.04
45 20 0.15
46 8 0.06
48 75 0.56
49 20 0.15
50 6 0.04
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (48 bp):
ATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATGCCG
Found at i:94955726 original size:46 final size:46
Alignment explanation
Indices: 94955659--94955833 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
94955649 TGTAACCCGC
94955659 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
94955705 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** * *
94955755 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
94955798 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
94955834 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 63 0.58
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:94955779 original size:93 final size:93
Alignment explanation
Indices: 94955667--94955837 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
94955657 GCCCATAAGT
** *
94955667 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94955732 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
94955760 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
94955825 CGAGTTCGGATGC
66 CGAGCTCGGATGC
94955838 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:94960707 original size:47 final size:48
Alignment explanation
Indices: 94960652--94960781 Score: 190
Period size: 47 Copynumber: 2.7 Consensus size: 48
94960642 CTCAATCGAT
* * *
94960652 AAGTACCTATACCATGGCTCGTAGCCAAATTAAGGTAACTTATC-CTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* * *
94960699 GAGTACCTATACCATGGCCCGTAACCAAATCAAGGTAACTCCTCTCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
*
94960747 AAATACCTATACCATGGCCCGTAGCCAAATCAAGG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGG
94960782 CATCATTCGC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 38 0.52
48 35 0.48
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:94961373 original size:29 final size:26
Alignment explanation
Indices: 94961326--94961384 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
94961316 AATTTCATTT
94961326 ATTTCACATTTAAACCCCTCAATTTGCAC
1 ATTTCACATTTAAACCCCT--ATTTG-AC
*
94961355 ATTTCACAATTT-AATCCCTATTTGAC
1 ATTTCAC-ATTTAAACCCCTATTTGAC
94961381 ATTT
1 ATTT
94961385 TTGTCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 6 0.21
27 5 0.18
29 13 0.46
30 4 0.14
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (26 bp):
ATTTCACATTTAAACCCCTATTTGAC
Found at i:94967859 original size:15 final size:16
Alignment explanation
Indices: 94967835--94967867 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
94967825 GTACCGCTTG
94967835 TTTTTCCTTTTTT-TT
1 TTTTTCCTTTTTTCTT
*
94967850 TTTTTTCTTTTTTCTT
1 TTTTTCCTTTTTTCTT
94967866 TT
1 TT
94967868 CGACGTACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTCCTTTTTTCTT
Found at i:94968470 original size:78 final size:78
Alignment explanation
Indices: 94968361--94968506 Score: 220
Period size: 78 Copynumber: 1.9 Consensus size: 78
94968351 AAAGTTTATT
* ** *
94968361 TATTTAAATTGCAAAAAAAAACCCATAAAATTGATAAATAAAATGGAAAAAAAATCATTACATAA
1 TATTTAAATTACAAAAAAAAACAAATAAAATTGATAAATAAAATGCAAAAAAAATCATTACATAA
94968426 ATACAAAGTTGAC
66 ATACAAAGTTGAC
* * * *
94968439 TATTTAAATTACAAAAAAAAACAAATTAAATTGATAAATAAAATTCCAAAAAATTCATTACATAA
1 TATTTAAATTACAAAAAAAAACAAATAAAATTGATAAATAAAATGCAAAAAAAATCATTACATAA
94968504 ATA
66 ATA
94968507 TGAAATTATT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (78 bp):
TATTTAAATTACAAAAAAAAACAAATAAAATTGATAAATAAAATGCAAAAAAAATCATTACATAA
ATACAAAGTTGAC
Found at i:94968742 original size:33 final size:32
Alignment explanation
Indices: 94968700--94968826 Score: 130
Period size: 33 Copynumber: 3.9 Consensus size: 32
94968690 AACTTGAACC
94968700 GGGAGGAGTGGAGTACGGCAGTGGATACGGGCT
1 GGGAGGAGTGGAGTACGGCAGTGGATAC-GGCT
* * *
94968733 GGGAGGAGTGGAGTACAGCGGTGGATACGGAT
1 GGGAGGAGTGGAGTACGGCAGTGGATACGGCT
* **
94968765 CGAGAGGAGTGGAGTACGGTGGTGGATACGGCT
1 -GGGAGGAGTGGAGTACGGCAGTGGATACGGCT
* * * *
94968798 GGAAGAAGCGGAGTACTG-AGGTGGATACG
1 GGGAGGAGTGGAGTACGGCA-GTGGATACG
94968827 AGCTAGGGTG
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
32 25 0.32
33 54 0.68
ACGTcount: A:0.24, C:0.11, G:0.49, T:0.16
Consensus pattern (32 bp):
GGGAGGAGTGGAGTACGGCAGTGGATACGGCT
Found at i:94977290 original size:19 final size:20
Alignment explanation
Indices: 94977268--94977321 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
94977258 AAATTTATTT
94977268 AAAATAT-AAAAAAATCATA
1 AAAATATCAAAAAAATCATA
* *
94977287 AAAA-ATCAAAAAATTCCTA
1 AAAATATCAAAAAAATCATA
*
94977306 AAAATTTCCAAAAAAA
1 AAAATAT-CAAAAAAA
94977322 AATCATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 18 0.64
20 1 0.04
21 7 0.25
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAATATCAAAAAAATCATA
Found at i:94978141 original size:18 final size:20
Alignment explanation
Indices: 94978097--94978145 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
94978087 TAAGACTTGT
94978097 ATAAAAATATGAAGATTTGA
1 ATAAAAATATGAAGATTTGA
* *
94978117 ATTAAAATAT-ATG-TTTGA
1 ATAAAAATATGAAGATTTGA
94978135 ATAAAAA-ATGA
1 ATAAAAATATGA
94978146 GACCCGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 12 0.48
19 2 0.08
20 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (20 bp):
ATAAAAATATGAAGATTTGA
Found at i:94979780 original size:15 final size:15
Alignment explanation
Indices: 94979762--94979792 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
94979752 TTTTTAATTT
94979762 TTTTATTTAAAAATA
1 TTTTATTTAAAAATA
*
94979777 TTTTTTTTAAAAATA
1 TTTTATTTAAAAATA
94979792 T
1 T
94979793 ACTGAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTATTTAAAAATA
Found at i:94980387 original size:23 final size:23
Alignment explanation
Indices: 94980355--94980401 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
94980345 GGACAAAATT
* *
94980355 TTGGGGTATATTA-GTCAGCAAAA
1 TTGGGATATA-TAGGTCACCAAAA
94980378 TTGGGATATATAGGTCACCAAAA
1 TTGGGATATATAGGTCACCAAAA
94980401 T
1 T
94980402 GATCAACTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (23 bp):
TTGGGATATATAGGTCACCAAAA
Found at i:94981157 original size:20 final size:20
Alignment explanation
Indices: 94981132--94981175 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
94981122 TATTTAAATT
*
94981132 AATTTTCTTCTAAATTTTAA
1 AATTTTATTCTAAATTTTAA
* *
94981152 AATTTTATTTTATATTTTAA
1 AATTTTATTCTAAATTTTAA
94981172 AATT
1 AATT
94981176 ATTTTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTATTCTAAATTTTAA
Found at i:94981946 original size:18 final size:18
Alignment explanation
Indices: 94981920--94981954 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94981910 TCCACGTTTA
94981920 GCGAACTCTCACGTTTGG
1 GCGAACTCTCACGTTTGG
* *
94981938 GCGAGCTCTCCCGTTTG
1 GCGAACTCTCACGTTTG
94981955 AAAATACGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.31, G:0.29, T:0.29
Consensus pattern (18 bp):
GCGAACTCTCACGTTTGG
Found at i:94983530 original size:49 final size:49
Alignment explanation
Indices: 94983429--94983570 Score: 153
Period size: 49 Copynumber: 2.9 Consensus size: 49
94983419 AAGCTAGCTT
* * * * * *
94983429 GTGTTGTCCACATGGTCTACCTACATGGTCTACACGATTTCACATAGTC
1 GTGTAGTCCACATGGTCTACCCACACGGTCTGCACGATTTCACACAGCC
*
94983478 GTGTAGTCCACATAGG-CTACCCACACGGTCTGCACGACTTT-AGACAGCC
1 GTGTAGTCCACAT-GGTCTACCCACACGGTCTGCACGA-TTTCACACAGCC
* * * *
94983527 GTGTGGTCCACACGGTTTACCCACACGGTCTGCATGATTTCACA
1 GTGTAGTCCACATGGTCTACCCACACGGTCTGCACGATTTCACA
94983571 TGGTTGTGTG
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
48 5 0.06
49 67 0.87
50 5 0.06
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
GTGTAGTCCACATGGTCTACCCACACGGTCTGCACGATTTCACACAGCC
Found at i:94986007 original size:48 final size:48
Alignment explanation
Indices: 94985932--94986116 Score: 168
Period size: 48 Copynumber: 3.9 Consensus size: 48
94985922 CACATAGTAG
* * * *
94985932 GATGCCAATGCCCTATCCTAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
94985980 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCATGCACATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA--CATATC
* * * * *
94986030 GAAGCCTAT---A-G-CCCAG-CTATGGTCTTACATGATG-TCTCATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATG-GGATCACATATC
* * *
94986073 GATACCAATGCCATGTCCTAGATATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
94986117 CATACCCTAA
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
43 10 0.09
44 1 0.01
45 20 0.19
46 3 0.03
47 3 0.03
48 59 0.55
50 12 0.11
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:94989531 original size:31 final size:31
Alignment explanation
Indices: 94989489--94989551 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
94989479 CCAAGAATAT
94989489 TTTTATAAATATTTACAAAGTGTTATTAAGG
1 TTTTATAAATATTTACAAAGTGTTATTAAGG
* *
94989520 TTTTATTAATATTTACGAAGTGTTATTAAGG
1 TTTTATAAATATTTACAAAGTGTTATTAAGG
94989551 T
1 T
94989552 GGTATTAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTTATAAATATTTACAAAGTGTTATTAAGG
Found at i:94989558 original size:31 final size:31
Alignment explanation
Indices: 94989496--94989559 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
94989486 TATTTTTATA
**
94989496 AATATTTACAAAGTGTTATTAAGGTTTTATT
1 AATATTTACAAAGTGTTATTAAGGTGGTATT
*
94989527 AATATTTACGAAGTGTTATTAAGGTGGTATT
1 AATATTTACAAAGTGTTATTAAGGTGGTATT
94989558 AA
1 AA
94989560 AGTTTCATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (31 bp):
AATATTTACAAAGTGTTATTAAGGTGGTATT
Found at i:95001724 original size:28 final size:29
Alignment explanation
Indices: 95001692--95001763 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
95001682 TACCTGTATC
* *
95001692 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
95001720 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
95001749 TGGCCCGTTAGGCCC
1 TGGCCCATTAGGCCC
95001764 GGTCACATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 14 0.36
29 25 0.64
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:95001749 original size:29 final size:28
Alignment explanation
Indices: 95001692--95001777 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
95001682 TACCTGTATC
* * *
95001692 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
95001720 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
* **
95001749 TGGCCCGTTAGGCCCGGTCACATTTATA
1 TGGCCCATTAGGCCCAATCACATTTATA
95001777 T
1 T
95001778 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:95009422 original size:28 final size:29
Alignment explanation
Indices: 95009379--95009448 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
95009369 TACCTGTATC
* *
95009379 TGACCCATTAAGCCC-AATCATATTCATA
1 TGACCCATTAGGCCCAAATCACATTCATA
* *
95009407 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGACCCATTAGGCCCAAATCACATTCATA
*
95009436 TGACCCGTTAGGC
1 TGACCCATTAGGC
95009449 TCTGTCACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 13 0.37
29 22 0.63
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
TGACCCATTAGGCCCAAATCACATTCATA
Found at i:95009436 original size:29 final size:28
Alignment explanation
Indices: 95009379--95009464 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
95009369 TACCTGTATC
* *
95009379 TGACCCATTAAGCCCAATCATATTCATA
1 TGACCCATTAGGCCCAATCACATTCATA
* *
95009407 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGACCCATTAGGCCC-AATCACATTCATA
* * **
95009436 TGACCCGTTAGGCTCTGTCACATTCATA
1 TGACCCATTAGGCCCAATCACATTCATA
95009464 T
1 T
95009465 TCTTGCTCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 24 0.51
29 23 0.49
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (28 bp):
TGACCCATTAGGCCCAATCACATTCATA
Found at i:95009703 original size:8 final size:8
Alignment explanation
Indices: 95009690--95009720 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
95009680 ACTTTTTGGC
95009690 ATTTCGGT
1 ATTTCGGT
95009698 ATTTCGGT
1 ATTTCGGT
*
95009706 ATTTCGGC
1 ATTTCGGT
95009714 ATTTCGG
1 ATTTCGG
95009721 CTTTTACCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.13, C:0.16, G:0.26, T:0.45
Consensus pattern (8 bp):
ATTTCGGT
Found at i:95009721 original size:8 final size:8
Alignment explanation
Indices: 95009687--95009721 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
95009677 TCAACTTTTT
95009687 GGCATTTC
1 GGCATTTC
*
95009695 GGTATTTC
1 GGCATTTC
*
95009703 GGTATTTC
1 GGCATTTC
95009711 GGCATTTC
1 GGCATTTC
95009719 GGC
1 GGC
95009722 TTTTACCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.11, C:0.20, G:0.29, T:0.40
Consensus pattern (8 bp):
GGCATTTC
Found at i:95012209 original size:191 final size:191
Alignment explanation
Indices: 95011880--95012254 Score: 669
Period size: 191 Copynumber: 2.0 Consensus size: 191
95011870 TTGGCAAAAC
*
95011880 CAAATCCAACGAGTAAGTTCGTAAATATTATTATTTAATATTTACTAGCTAAAAATGGTTTTAAA
1 CAAATCCAACGAGTAAGTTCGTAAATATTATTATTTAATATTTACGAGCTAAAAATGGTTTTAAA
*
95011945 ATGGTTTTTTATATAGTGATTTTTGTTAAATAAGCGATTTATTAAGTTCAAGTGGTATGACCCTA
66 ATGGTTTTTGATATAGTGATTTTTGTTAAATAAGCGATTTATTAAGTTCAAGTGGTATGACCCTA
* *
95012010 AGGTTAAGTGGTTTTAAAAAATAATGTATCGGGACCTCGTTTCTATAAATCGAGGTACCAA
131 ACGTTAAGTGGTTTTAAAAAATAAGGTATCGGGACCTCGTTTCTATAAATCGAGGTACCAA
* * *
95012071 CAAATCCAACGAGTAAGTTCGTAAATATTATTATTTATTATTTACGAGTTAAACATGGTTTTAAA
1 CAAATCCAACGAGTAAGTTCGTAAATATTATTATTTAATATTTACGAGCTAAAAATGGTTTTAAA
*
95012136 ATGGTTTTTGATATAGTGATTTTTGTTAAATAAGCGATTTATTACGTTCAAGTGGTATGACCCTA
66 ATGGTTTTTGATATAGTGATTTTTGTTAAATAAGCGATTTATTAAGTTCAAGTGGTATGACCCTA
*
95012201 ACGTTAAGTGGTTTTAAAAAATGAGGTATCGGGACCTCGTTTCTATAAATCGAG
131 ACGTTAAGTGGTTTTAAAAAATAAGGTATCGGGACCTCGTTTCTATAAATCGAG
95012255 TCAAAAATAT
Statistics
Matches: 175, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
191 175 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (191 bp):
CAAATCCAACGAGTAAGTTCGTAAATATTATTATTTAATATTTACGAGCTAAAAATGGTTTTAAA
ATGGTTTTTGATATAGTGATTTTTGTTAAATAAGCGATTTATTAAGTTCAAGTGGTATGACCCTA
ACGTTAAGTGGTTTTAAAAAATAAGGTATCGGGACCTCGTTTCTATAAATCGAGGTACCAA
Found at i:95018292 original size:58 final size:57
Alignment explanation
Indices: 95018144--95018292 Score: 158
Period size: 57 Copynumber: 2.6 Consensus size: 57
95018134 ATCATATAAT
* * * *
95018144 AGGATTACCAGTCCAGGCTAAATCTTTTCTGTAACATATGCTCAGAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCAGAAGAGATCAATC
* * * * *
95018201 AGGATTACCAATTCAGGCTAAATCCTAAT-TGTAACATATGCT-TGAGAGTGATTATATC
1 AGGATTACCAGTCCAGGCTAAATCCT-ATCTGTAACATATGCTCAGA-AGAGATCA-ATC
* *
95018259 AGGATTACCCGTCCGGGCTAAATCCTATCTGTAA
1 AGGATTACCAGTCCAGGCTAAATCCTATCTGTAA
95018293 TGAGGTCAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
56 2 0.03
57 43 0.57
58 30 0.40
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCAGAAGAGATCAATC
Found at i:95021221 original size:18 final size:18
Alignment explanation
Indices: 95021200--95021238 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
95021190 AATTCTGTAA
95021200 TTAGTATAAATTTGATAT
1 TTAGTATAAATTTGATAT
* *
95021218 TTAGTTTAAATTTGATTT
1 TTAGTATAAATTTGATAT
95021236 TTA
1 TTA
95021239 AATTTTGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
TTAGTATAAATTTGATAT
Found at i:95028461 original size:19 final size:18
Alignment explanation
Indices: 95028427--95028466 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
95028417 GTATTTTATT
95028427 TTTATATTTTTCTTTTAA
1 TTTATATTTTTCTTTTAA
95028445 TTTA-ATTTTTACATTTTAA
1 TTTATATTTTT-C-TTTTAA
95028464 TTT
1 TTT
95028467 TTCTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATATTTTTCTTTTAA
Found at i:95028467 original size:25 final size:25
Alignment explanation
Indices: 95028419--95028467 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
95028409 AACCATTTGT
* * **
95028419 ATTTTATTTTTATATTTTTCTTTTA
1 ATTTAATTTTTACATTTTAATTTTA
95028444 ATTTAATTTTTACATTTTAATTTT
1 ATTTAATTTTTACATTTTAATTTT
95028468 TCTTTTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
ATTTAATTTTTACATTTTAATTTTA
Found at i:95034142 original size:3 final size:3
Alignment explanation
Indices: 95034134--95034230 Score: 65
Period size: 3 Copynumber: 32.0 Consensus size: 3
95034124 TCTTTTTCTT
* * *
95034134 TTA TTA TTA ATA TTA TT- TTAA TTA TTAA TTA TTG TTA TTA -AA TCTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TT-A TTA TTA TTA TTA TTA T-TA
* * * * *
95034180 TTA TTA TTA TTT TTA TTA TTA CTA -TA TTTC TTA TTT TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
95034225 TTA TTA
1 TTA TTA
95034231 CTTTATTGTT
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
2 5 0.07
3 59 0.82
4 8 0.11
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:95034214 original size:30 final size:32
Alignment explanation
Indices: 95034180--95034246 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 32
95034170 ATTAAATCTA
* *
95034180 TTATTATTATTTTTATTATTACTATA-T-TTC
1 TTATTATTATTATCATTATTACTATATTGTTC
* *
95034210 TTATTTTTATTATCATTATTACTTTATTGTTC
1 TTATTATTATTATCATTATTACTATATTGTTC
95034242 TTATT
1 TTATT
95034247 TTTAGTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 22 0.71
31 1 0.03
32 8 0.26
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.67
Consensus pattern (32 bp):
TTATTATTATTATCATTATTACTATATTGTTC
Found at i:95034311 original size:3 final size:3
Alignment explanation
Indices: 95034303--95034384 Score: 51
Period size: 3 Copynumber: 26.3 Consensus size: 3
95034293 CATTTTTTAG
*
95034303 TTA TTA TTA TTA TTA TTA TT- TTCA TTTA TTA CTAA TT- TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA -TTA TTA TTA -TTA TTA
* * * * *
95034350 TTA CTTA GTC TTA TTA CTA TTA TGA TTA TGA TTA T
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
95034385 GAGTCATATT
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
2 4 0.07
3 45 0.75
4 9 0.15
5 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:95034333 original size:16 final size:15
Alignment explanation
Indices: 95034303--95034352 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
95034293 CATTTTTTAG
95034303 TTATTATTA-TTATTA
1 TTATT-TTATTTATTA
95034318 TTATTTTCATTTATTA
1 TTATTTT-ATTTATTA
*
95034334 CTAATTTTATTTATTA
1 -TTATTTTATTTATTA
95034350 TTA
1 TTA
95034353 CTTAGTCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 2 0.07
15 8 0.27
16 14 0.47
17 6 0.20
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTTATTTATTA
Found at i:95042588 original size:29 final size:29
Alignment explanation
Indices: 95042554--95042684 Score: 129
Period size: 29 Copynumber: 4.5 Consensus size: 29
95042544 AAACGATCTT
* *
95042554 GCACACTTAGTGCCATGCGATTTAAGCTC
1 GCACACTTAGTGCCATACAATTTAAGCTC
* * * *
95042583 GCACACATAGTGCCATATAATTTAAGTTT
1 GCACACTTAGTGCCATACAATTTAAGCTC
* * *
95042612 GCTCACTTAGTGCCATATAATTTAAGTTC
1 GCACACTTAGTGCCATACAATTTAAGCTC
** * *
95042641 GCACACTTAGTGCCAT-CCCTTCCAAGCCC
1 GCACACTTAGTGCCATACAATT-TAAGCTC
95042670 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
95042685 ATCTTGTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 83 0.98
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATACAATTTAAGCTC
Found at i:95050658 original size:29 final size:29
Alignment explanation
Indices: 95050622--95050755 Score: 144
Period size: 29 Copynumber: 4.6 Consensus size: 29
95050612 AATAAACGAT
* *
95050622 CTCGCACACTTAGTGCCATGCGATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
* *
95050651 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
* * *
95050680 TTTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
* ** *
95050709 TTCGCACACTTAGTGCCAT-CCCTTCCAAG
1 CTCGCACACTTAGTGCCATACAATT-TAAG
*
95050738 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
95050756 ATCTTGTCAC
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 88 0.98
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATACAATTTAAG
Found at i:95054103 original size:12 final size:12
Alignment explanation
Indices: 95054086--95054110 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95054076 TTAGTAAAAC
95054086 ATGTAATAATAA
1 ATGTAATAATAA
95054098 ATGTAATAATAA
1 ATGTAATAATAA
95054110 A
1 A
95054111 ACATAAAAAA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGTAATAATAA
Found at i:95058382 original size:12 final size:12
Alignment explanation
Indices: 95058365--95058390 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95058355 TTAGTAAAAC
95058365 ATGTAATAATAA
1 ATGTAATAATAA
95058377 ATGTAATAATAA
1 ATGTAATAATAA
95058389 AT
1 AT
95058391 CATAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
ATGTAATAATAA
Found at i:95069452 original size:43 final size:43
Alignment explanation
Indices: 95069328--95069436 Score: 200
Period size: 43 Copynumber: 2.5 Consensus size: 43
95069318 GCTGGTATTA
95069328 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
95069371 TATTCGGGCCTTAGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
95069414 TATTTGGGCCTTCGTGCCTAGCA
1 TATTCGGGCCTTCGTGCCTAGCA
95069437 TGCGTAATGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:95069843 original size:45 final size:45
Alignment explanation
Indices: 95069770--95069895 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 45
95069760 TTGATTTGAT
* * * * *
95069770 TATTCGGCCTTT-GAGCTTAGCAGACTATAATGTCGGT-AAGAT-A
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGCCGGTGAA-ATGA
95069813 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGCCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGCCGGTGAAATGA
* * *
95069859 TA-TCGGGC-CTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGCCGGTGA
95069896 TTTGAGAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 10 0.14
43 16 0.23
44 17 0.24
45 25 0.35
46 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGCCGGTGAAATGA
Found at i:95071067 original size:48 final size:48
Alignment explanation
Indices: 95070973--95071076 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
95070963 CTAAGCATAA
* * *
95070973 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
**
95071021 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
*
95071069 ATAAGACC
1 GTAAGACC
95071077 ATAGTTGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.17
48 40 0.83
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:95077409 original size:19 final size:18
Alignment explanation
Indices: 95077387--95077448 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
95077377 TCGAGTCAAC
95077387 TCGAATTTCTTTTCAAATT
1 TCGAATTTCTTTTCAAA-T
**
95077406 TCGAATTTCGAGTTCAAA-
1 TCGAATTTC-TTTTCAAAT
*
95077424 TCGAATTTAGTTTTCAAAT
1 TCGAATTT-CTTTTCAAAT
95077443 TCGAAT
1 TCGAAT
95077449 AACTCGAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 14 0.40
19 15 0.43
20 6 0.17
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (18 bp):
TCGAATTTCTTTTCAAAT
Found at i:95077412 original size:38 final size:38
Alignment explanation
Indices: 95077368--95077448 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
95077358 TTCGAATTAA
*
95077368 TCGAATTATTCGAG-TCAACTCGAATTT-CTTTTCAAATT
1 TCGAATT-TTCGAGTTCAAATCGAATTTACTTTTCAAA-T
*
95077406 TCGAA-TTTCGAGTTCAAATCGAATTTAGTTTTCAAAT
1 TCGAATTTTCGAGTTCAAATCGAATTTACTTTTCAAAT
95077443 TCGAAT
1 TCGAAT
95077449 AACTCGAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 6 0.16
37 19 0.50
38 13 0.34
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (38 bp):
TCGAATTTTCGAGTTCAAATCGAATTTACTTTTCAAAT
Done.