Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 260 of 352
Found at i:85712250 original size:15 final size:15
Alignment explanation
Indices: 85712230--85712259 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85712220 AAGTAGCAAG
85712230 ATTAAATAATATTTA
1 ATTAAATAATATTTA
85712245 ATTAAATAATATTTA
1 ATTAAATAATATTTA
85712260 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:85712510 original size:71 final size:72
Alignment explanation
Indices: 85712390--85712550 Score: 297
Period size: 72 Copynumber: 2.2 Consensus size: 72
85712380 TACATATTAC
85712390 TATAAAAAAAGAATCGT-AATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAAT
1 TATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAAT
85712454 ATAATAA
66 ATAATAA
**
85712461 TATAAAAAAAGAATCGTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAAT
1 TATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAAT
85712526 ATAATAA
66 ATAATAA
85712533 TATAAAAAAAGAATCGTA
1 TATAAAAAAAGAATCGTA
85712551 GTTTAATTTT
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
71 17 0.20
72 70 0.80
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (72 bp):
TATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAAT
ATAATAA
Found at i:85713213 original size:275 final size:275
Alignment explanation
Indices: 85712477--85713579 Score: 2154
Period size: 275 Copynumber: 4.0 Consensus size: 275
85712467 AAAAGAATCG
85712477 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
85712542 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
*
85712607 GAACTATTTTCAAGTCTTTTTAAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
85712672 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
85712737 AATCTTTAAAATATT
261 AATCTTTAAAATATT
85712752 TAAATATTAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
85712816 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
85712881 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
85712946 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
85713011 AATCTTTAAAATATT
261 AATCTTTAAAATATT
85713026 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
85713091 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
85713156 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
85713221 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
85713286 AATCTTTAAAATATT
261 AATCTTTAAAATATT
*
85713301 AAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
*
85713366 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAACTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
*
85713431 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGACGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
*
85713496 AGAATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
85713561 AATCTTTAAAATATT
261 AATCTTTAAAATATT
85713576 TAAA
1 TAAA
85713580 ATAAGGTTGG
Statistics
Matches: 821, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
274 273 0.33
275 548 0.67
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (275 bp):
TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
AATCTTTAAAATATT
Found at i:85713296 original size:549 final size:550
Alignment explanation
Indices: 85712477--85713579 Score: 2154
Period size: 549 Copynumber: 2.0 Consensus size: 550
85712467 AAAAGAATCG
85712477 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
85712542 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
85712607 GAACTATTTTCAAGTCTTTTTAAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTAAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
85712672 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
*
85712737 AATCTTTAAAATATTTAAATATTAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATA
261 AATCTTTAAAATATTAAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATA
85712801 TAATAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAG
326 TAATAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAG
* *
85712866 TAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCG
391 TAAATGAACTCGATAGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGACG
*
85712931 TTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCC
456 TTGTTACACCTAGGGAGAATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCC
85712996 AGCCTATATACTTTGAATCTTTAAAATATT
521 AGCCTATATACTTTGAATCTTTAAAATATT
85713026 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
85713091 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
*
85713156 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTAAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
85713221 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
85713286 AATCTTTAAAATATTAAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATA
261 AATCTTTAAAATATTAAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATA
85713351 TAATAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAG
326 TAATAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAG
85713416 TAAATGAACTCGATAGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGACG
391 TAAATGAACTCGATAGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGACG
85713481 TTGTTACACCTAGGGAGAATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCC
456 TTGTTACACCTAGGGAGAATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCC
85713546 AGCCTATATACTTTGAATCTTTAAAATATT
521 AGCCTATATACTTTGAATCTTTAAAATATT
85713576 TAAA
1 TAAA
85713580 ATAAGGTTGG
Statistics
Matches: 548, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
549 302 0.55
550 246 0.45
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (550 bp):
TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
GAACTATTTTCAAGTCTTTTTAAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
AATCTTTAAAATATTAAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATA
TAATAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAG
TAAATGAACTCGATAGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGACG
TTGTTACACCTAGGGAGAATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCC
AGCCTATATACTTTGAATCTTTAAAATATT
Found at i:85713860 original size:15 final size:15
Alignment explanation
Indices: 85713840--85713868 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85713830 AGAATTTTGA
85713840 AATAAAACGTACCTT
1 AATAAAACGTACCTT
85713855 AATAAAACGTACCT
1 AATAAAACGTACCT
85713869 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:85714377 original size:183 final size:183
Alignment explanation
Indices: 85714069--85714437 Score: 693
Period size: 183 Copynumber: 2.0 Consensus size: 183
85714059 CCTAGAACAG
85714069 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
85714134 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* *
85714199 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
85714252 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
85714317 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* *
85714382 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
85714435 ATG
1 ATG
85714438 GAACTATATC
Statistics
Matches: 181, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 181 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:85717380 original size:15 final size:15
Alignment explanation
Indices: 85717360--85717407 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
85717350 GGTAAAAATT
85717360 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
85717375 TT-GGGG-G-A-AA-
1 TTGGGGGAGAAGAAG
*
85717385 TTTGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
85717400 TTGGGGGA
1 TTGGGGGA
85717408 AATCGGGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
10 2 0.07
11 6 0.22
12 2 0.07
13 2 0.07
14 6 0.22
15 9 0.33
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:85717394 original size:25 final size:25
Alignment explanation
Indices: 85717363--85717410 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
85717353 AAAAATTTTG
85717363 GGGGAGAAGAAGTTGGGGGAAATTT
1 GGGGAGAAGAAGTTGGGGGAAATTT
85717388 GGGGAGAAGAAGTTGGGGGAAAT
1 GGGGAGAAGAAGTTGGGGGAAAT
85717411 CGGGGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (25 bp):
GGGGAGAAGAAGTTGGGGGAAATTT
Found at i:85717405 original size:14 final size:14
Alignment explanation
Indices: 85717363--85717405 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
85717353 AAAAATTTTG
85717363 GGGGAGAAGAAGTT
1 GGGGAGAAGAAGTT
*
85717377 GGGG-G-A-AATTT
1 GGGGAGAAGAAGTT
85717388 GGGGAGAAGAAGTT
1 GGGGAGAAGAAGTT
85717402 GGGG
1 GGGG
85717406 GAAATCGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 2 0.08
14 12 0.50
ACGTcount: A:0.30, C:0.00, G:0.53, T:0.16
Consensus pattern (14 bp):
GGGGAGAAGAAGTT
Found at i:85717720 original size:28 final size:28
Alignment explanation
Indices: 85717688--85717745 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
85717678 AATCAAAACT
*
85717688 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
85717716 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
85717744 CT
1 CT
85717746 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:85717746 original size:21 final size:21
Alignment explanation
Indices: 85717722--85717766 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
85717712 ATCCCTATAA
* *
85717722 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
85717743 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
85717764 CCT
1 CCT
85717767 AACCATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:85717775 original size:19 final size:21
Alignment explanation
Indices: 85717722--85717776 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
85717712 ATCCCTATAA
* * *
85717722 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCATAAACTATATC
*
85717743 CCTTAAACCCTAAACTATATC
1 CCTTAAACCATAAACTATATC
85717764 CC-T-AACCATAAAC
1 CCTTAAACCATAAAC
85717777 CACAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 9 0.29
20 1 0.03
21 21 0.68
ACGTcount: A:0.38, C:0.33, G:0.02, T:0.27
Consensus pattern (21 bp):
CCTTAAACCATAAACTATATC
Found at i:85717997 original size:21 final size:21
Alignment explanation
Indices: 85717973--85718033 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
85717963 ACAAAATAAA
**
85717973 AACCCCTAAGTATTAACCCAT
1 AACCCCTAACCATTAACCCAT
* *
85717994 AACCCCTAACCCTTAACCCCT
1 AACCCCTAACCATTAACCCAT
85718015 AACCCCTAACCCA-TAACCC
1 AACCCCTAA-CCATTAACCC
85718034 TTAAATCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.34, C:0.46, G:0.02, T:0.18
Consensus pattern (21 bp):
AACCCCTAACCATTAACCCAT
Found at i:85717998 original size:7 final size:7
Alignment explanation
Indices: 85717986--85718033 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
85717976 CCCTAAGTAT
*
85717986 TAACCCA
1 TAACCCC
85717993 TAACCCC
1 TAACCCC
*
85718000 TAACCCT
1 TAACCCC
85718007 TAACCCC
1 TAACCCC
85718014 TAACCCC
1 TAACCCC
*
85718021 TAACCCA
1 TAACCCC
85718028 TAACCC
1 TAACCC
85718034 TTAAATCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:85718196 original size:41 final size:41
Alignment explanation
Indices: 85718139--85718358 Score: 307
Period size: 41 Copynumber: 5.4 Consensus size: 41
85718129 AACCCTAAAC
85718139 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * **
85718180 TTTTTAGCGGCGTTTTACCAAAAGCGCCCCTAATACTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * *
85718221 TTTTTAGCGGTGCTTTACCAAAAGCGCCGCTAATGCTCTGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
85718262 TTTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * * *
85718303 TTTTTAGCGACATTTTACCAAAAGCGCCGCTATTGCTC-TG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* *
85718343 CTTTTAGCGGTGTTTT
1 TTTTTAGCGGCGTTTT
85718359 TGGTAAAACG
Statistics
Matches: 157, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 13 0.08
41 144 0.92
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:85718371 original size:40 final size:40
Alignment explanation
Indices: 85718322--85718421 Score: 191
Period size: 40 Copynumber: 2.5 Consensus size: 40
85718312 ACATTTTACC
85718322 AAAAGCGCCGCTATTGCTCTGCTTTTAGCGGTGTTTTTGGT
1 AAAA-CGCCGCTATTGCTCTGCTTTTAGCGGTGTTTTTGGT
85718363 AAAACGCCGCTATTGCTCTGCTTTTAGCGGTGTTTTTGGT
1 AAAACGCCGCTATTGCTCTGCTTTTAGCGGTGTTTTTGGT
85718403 AAAACGCCGCTATTGCTCT
1 AAAACGCCGCTATTGCTCT
85718422 ATGTTTTACA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 55 0.93
41 4 0.07
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (40 bp):
AAAACGCCGCTATTGCTCTGCTTTTAGCGGTGTTTTTGGT
Found at i:85718763 original size:22 final size:22
Alignment explanation
Indices: 85718730--85718772 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
85718720 TATATTGTTC
85718730 AATTCTAATTTGAATTCTTGGT
1 AATTCTAATTTGAATTCTTGGT
*
85718752 AATT-TAAGTTTGATTTCTTGG
1 AATTCTAA-TTTGAATTCTTGG
85718773 ACATAACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (22 bp):
AATTCTAATTTGAATTCTTGGT
Found at i:85721015 original size:16 final size:16
Alignment explanation
Indices: 85720994--85721029 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
85720984 TTTGGTTCGC
85720994 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85721010 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85721026 TGTA
1 TGTA
85721030 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:85721413 original size:14 final size:15
Alignment explanation
Indices: 85721364--85721415 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
85721354 ATAAAATATA
85721364 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
85721379 TATTAAATATATTAT
1 AATTAAATATATTAT
85721394 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
85721407 AATTTAATA
1 AATTAAATA
85721416 AGGATATGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:85724442 original size:48 final size:52
Alignment explanation
Indices: 85724372--85724470 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
85724362 AATAATTATT
85724372 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
85724420 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
85724471 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:85724452 original size:17 final size:17
Alignment explanation
Indices: 85724427--85724460 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85724417 ATAATTTTAA
*
85724427 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
85724444 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
85724461 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:85724477 original size:17 final size:16
Alignment explanation
Indices: 85724432--85724479 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
85724422 TTTAAATTTT
85724432 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
85724449 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
85724463 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
85724480 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:85724534 original size:54 final size:54
Alignment explanation
Indices: 85724476--85724654 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
85724466 ATAATCATAT
85724476 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
85724530 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
85724593 TA
54 -A
*
85724595 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
85724650 ATTAT
1 ATTAT
85724655 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:85724537 original size:61 final size:61
Alignment explanation
Indices: 85724472--85724659 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
85724462 AGTTATAATC
85724472 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
85724533 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
85724592 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
85724653 ATATATT
1 ATATATT
85724660 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:85724551 original size:18 final size:17
Alignment explanation
Indices: 85724520--85724554 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85724510 ATTATTAAGA
85724520 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
85724537 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
85724555 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:85724593 original size:120 final size:120
Alignment explanation
Indices: 85724469--85724691 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
85724459 ATTAGTTATA
85724469 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
85724534 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
85724589 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
85724654 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
85724692 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:85724668 original size:18 final size:17
Alignment explanation
Indices: 85724640--85724674 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85724630 ATTATTAAGA
*
85724640 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
85724657 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
85724675 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:85724686 original size:54 final size:54
Alignment explanation
Indices: 85724503--85724688 Score: 142
Period size: 54 Copynumber: 3.2 Consensus size: 54
85724493 TTCATATAAG
* *
85724503 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
* * * *
85724557 AATAATAATTATGT--TATTTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATAT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAATT-ATAT
**
85724620 AAG
53 -TT
* *
85724623 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
85724677 AATAATAATTAT
1 AATAATAATTAT
85724689 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 4 0.04
54 24 0.24
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 12 0.12
65 5 0.05
66 13 0.13
67 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:85724795 original size:144 final size:147
Alignment explanation
Indices: 85724628--85724899 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
85724618 ATAAGAATAT
*
85724628 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
85724693 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
85724755 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
85724772 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
85724837 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
85724900 CAATAATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 91 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:85724812 original size:18 final size:17
Alignment explanation
Indices: 85724784--85724818 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85724774 ATTATTAAGA
*
85724784 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
85724801 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
85724819 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:85725029 original size:44 final size:45
Alignment explanation
Indices: 85724980--85725074 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
85724970 TTACACCTCT
* *
85724980 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
85725024 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
85725069 ATTACA
1 ATTACA
85725075 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:85725074 original size:16 final size:16
Alignment explanation
Indices: 85725053--85725085 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
85725043 TTGATTTGCT
*
85725053 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
85725069 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
85725085 A
1 A
85725086 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:85725095 original size:21 final size:21
Alignment explanation
Indices: 85725066--85725108 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
85725056 ACACCTCTAT
*
85725066 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
85725087 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
85725108 T
1 T
85725109 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:85727510 original size:8 final size:8
Alignment explanation
Indices: 85727497--85727531 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
85727487 TAAAGATTCT
85727497 AAAAAAGA
1 AAAAAAGA
85727505 AAAAAAGA
1 AAAAAAGA
*
85727513 AACAAAG-
1 AAAAAAGA
85727520 AAAAAAGA
1 AAAAAAGA
85727528 AAAA
1 AAAA
85727532 GTAGAATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:85727525 original size:15 final size:16
Alignment explanation
Indices: 85727500--85727529 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85727490 AGATTCTAAA
85727500 AAAGAAAAAAAGAAAC
1 AAAGAAAAAAAGAAAC
85727516 AAAG-AAAAAAGAAA
1 AAAGAAAAAAAGAAA
85727530 AAGTAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAGAAAC
Found at i:85728271 original size:9 final size:9
Alignment explanation
Indices: 85728257--85728282 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
85728247 CCAAACATGC
85728257 AAAGGGGTA
1 AAAGGGGTA
85728266 AAAGGGGTA
1 AAAGGGGTA
85728275 AAAGGGGT
1 AAAGGGGT
85728283 TTGTGAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.46, T:0.12
Consensus pattern (9 bp):
AAAGGGGTA
Found at i:85729730 original size:29 final size:29
Alignment explanation
Indices: 85729698--85729782 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
85729688 ATGTTTAATA
*
85729698 TGGTACTTCTACTTTGAAAATGTCCAACG
1 TGGTACTTCTAATTTGAAAATGTCCAACG
* * *
85729727 TGGTACTTGTAATTTGGAAATGTCCAATG
1 TGGTACTTCTAATTTGAAAATGTCCAACG
*
85729756 TAGTAC-TCGTAATTT-AGAAATGTCCAA
1 TGGTACTTC-TAATTTGA-AAATGTCCAA
85729783 TGTGATAACT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 1 0.02
29 46 0.98
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (29 bp):
TGGTACTTCTAATTTGAAAATGTCCAACG
Found at i:85729783 original size:29 final size:29
Alignment explanation
Indices: 85729715--85729785 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
85729705 TCTACTTTGA
* * * *
85729715 AAATGTCCAACGTGGTACTTGTAATTTGG
1 AAATGTCCAATGTAGTACTCGTAATTTAG
85729744 AAATGTCCAATGTAGTACTCGTAATTTAG
1 AAATGTCCAATGTAGTACTCGTAATTTAG
85729773 AAATGTCCAATGT
1 AAATGTCCAATGT
85729786 GATAACTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (29 bp):
AAATGTCCAATGTAGTACTCGTAATTTAG
Found at i:85730125 original size:19 final size:19
Alignment explanation
Indices: 85730071--85730125 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
85730061 AAAATAGATT
85730071 TTTTTATATATTTTAA-TAA
1 TTTTTATAT-TTTTAATTAA
* * **
85730090 TTTTAAAATTTAAAATTAA
1 TTTTTATATTTTTAATTAA
85730109 TTTTTATATTTTTAATT
1 TTTTTATATTTTTAATT
85730126 TTAAATATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATATTTTTAATTAA
Found at i:85751234 original size:20 final size:22
Alignment explanation
Indices: 85751185--85751260 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 22
85751175 AAAGTAGTAT
*
85751185 AGTCTTGAGACTTACTAGTCTA
1 AGTCTCGAGACTTACTAGTCTA
* *
85751207 AGTATCGAGACTTAC-CGT-TA
1 AGTCTCGAGACTTACTAGTCTA
* *
85751227 AGTCTCGAGCCTTGTCT-GTCT-
1 AGTCTCGAGACTT-ACTAGTCTA
*
85751248 AGTCTCAAGACTT
1 AGTCTCGAGACTT
85751261 CAAGACTTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
20 13 0.30
21 16 0.37
22 14 0.33
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (22 bp):
AGTCTCGAGACTTACTAGTCTA
Found at i:85760896 original size:29 final size:29
Alignment explanation
Indices: 85760854--85760914 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
85760844 TCATGAATAC
85760854 TTAGAATATAAATGACATGCCATTAGGGA
1 TTAGAATATAAATGACATGCCATTAGGGA
*
85760883 TTAGAATATAAATGACATGTCATTAGGGA
1 TTAGAATATAAATGACATGCCATTAGGGA
85760912 TTA
1 TTA
85760915 ACAGTTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (29 bp):
TTAGAATATAAATGACATGCCATTAGGGA
Found at i:85764343 original size:30 final size:30
Alignment explanation
Indices: 85764309--85764368 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
85764299 ACTTAACATG
*
85764309 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
85764339 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
85764369 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:85764917 original size:10 final size:10
Alignment explanation
Indices: 85764902--85764928 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
85764892 AATCACCCTA
85764902 GGCCCATATT
1 GGCCCATATT
85764912 GGCCCATATT
1 GGCCCATATT
85764922 GGCCCAT
1 GGCCCAT
85764929 TAGGCCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (10 bp):
GGCCCATATT
Found at i:85770587 original size:12 final size:12
Alignment explanation
Indices: 85770570--85770594 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85770560 TTGCTTATAG
85770570 TTTTTTATTTTA
1 TTTTTTATTTTA
85770582 TTTTTTATTTTA
1 TTTTTTATTTTA
85770594 T
1 T
85770595 ATACTTTAGG
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:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:85772595 original size:144 final size:143
Alignment explanation
Indices: 85772411--85772704 Score: 552
Period size: 144 Copynumber: 2.0 Consensus size: 143
85772401 TGTCTTAGTA
*
85772411 ATATTGAAGACGATACAACATGGCATATAAAAAATAAATATAACATATGACATGAAAAAATGACT
1 ATATTGAACACGATACAACATGGCATATAAAAAATAAATATAACATATGACATGAAAAAATGACT
85772476 CGAATATATGGACTGTCAGATCTAATGCTGCATTCATGTGGAACTCACTAACATATGCTTCTTTA
66 CGAATATATGGACTGTCAGATCTAATGCTGCATTCATGTGGAACTCACTAACATATGCTTCTTTA
*
85772541 CTCTTGAGCGGGT
131 CTCTTGAGCAGGT
85772554 ATATTGAACACGATACAAACATGGCATATAAAAAATAAATATAACATATGACATGAAAAAATGAC
1 ATATTGAACACGATAC-AACATGGCATATAAAAAATAAATATAACATATGACATGAAAAAATGAC
85772619 TCGAATATATGGACTGTCAGATCTAATGCTGCATTCATGTGGAACTCACTAACATATGCTTCTTT
65 TCGAATATATGGACTGTCAGATCTAATGCTGCATTCATGTGGAACTCACTAACATATGCTTCTTT
85772684 ACTCTTGAGCAGGT
130 ACTCTTGAGCAGGT
85772698 ATCATTG
1 AT-ATTG
85772705 GCCTTCAATC
Statistics
Matches: 147, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
143 15 0.10
144 128 0.87
145 4 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (143 bp):
ATATTGAACACGATACAACATGGCATATAAAAAATAAATATAACATATGACATGAAAAAATGACT
CGAATATATGGACTGTCAGATCTAATGCTGCATTCATGTGGAACTCACTAACATATGCTTCTTTA
CTCTTGAGCAGGT
Found at i:85775029 original size:17 final size:17
Alignment explanation
Indices: 85774977--85775029 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
85774967 TATAGAAACA
* *
85774977 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
* *
85774994 CAGTCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
85775013 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
85775030 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:85775029 original size:22 final size:22
Alignment explanation
Indices: 85775001--85775059 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
85774991 ATGCAGTCTT
*
85775001 AGATATGATATGTAATCTTAGA
1 AGATATGATTTGTAATCTTAGA
*
85775023 AGATATGATTTTGTAATTTTAGA
1 AGATATGA-TTTGTAATCTTAGA
85775046 AGATATGATTTGTA
1 AGATATGATTTGTA
85775060 GATATCCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 14 0.41
23 20 0.59
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (22 bp):
AGATATGATTTGTAATCTTAGA
Found at i:85783565 original size:43 final size:41
Alignment explanation
Indices: 85783517--85783670 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 41
85783507 GTGTGATTCG
85783517 TGTAAGACCATGTCTGGGACATTGGCATCAAAGTGA-GAAAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCAAA-T-ATG-AAACA
* * *
85783560 TGTAAGACTATGTCTGGGACATTGGCATCATATATGATACA
1 TGTAAGACCATGTCTGGGACATTGGCATCAAATATGAAACA
* * * * * * *
85783601 TGTAAGACCCTGTCTGAGACAGTGGCATTGATATGTGATAGCA
1 TGTAAGACCATGTCTGGGACATTGGCA-TCAAATATGA-AACA
* *
85783644 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
85783671 TGTACAAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 29 0.31
42 15 0.16
43 49 0.53
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCAAATATGAAACA
Found at i:85787336 original size:77 final size:77
Alignment explanation
Indices: 85787201--85787499 Score: 458
Period size: 77 Copynumber: 3.9 Consensus size: 77
85787191 AATTCAAATC
** *
85787201 TTATCATTCTTTAAAATTTAAATTGAATTAAAATTCCATCATCTTTTTAACTTCTTATCCTAATT
1 TTATCATTCTTTAAAATTTAAATAAAATTAAAATTCCATCATCTTTTTATCTTCTTATCCTAATT
85787266 TGAAATCATATA
66 TGAAATCATATA
* * *
85787278 TTATCCTTCTTTAAAATTTAAATAAAATTAAAATTTCATCATCTTTTTATCTTATTATCCTAATT
1 TTATCATTCTTTAAAATTTAAATAAAATTAAAATTCCATCATCTTTTTATCTTCTTATCCTAATT
*
85787343 TAAAATCATATA
66 TGAAATCATATA
*
85787355 TTATCATTCTTTAAAATTTAAATAGAAA-TAAAATTTCATCATCTTTTTATCTTCTTATCCTAAT
1 TTATCATTCTTTAAAATTTAAATA-AAATTAAAATTCCATCATCTTTTTATCTTCTTATCCTAAT
* *
85787419 TTGAAATCACATC
65 TTGAAATCATATA
* * *
85787432 TTATCCTTCTTTAAAATTTAAATAGAATTAAAATTCCAT-ATCTTTTTACCTTCTTATCCTAATT
1 TTATCATTCTTTAAAATTTAAATAAAATTAAAATTCCATCATCTTTTTATCTTCTTATCCTAATT
85787496 TGAA
66 TGAA
85787500 TTTCAAATTA
Statistics
Matches: 204, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
76 30 0.15
77 171 0.84
78 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (77 bp):
TTATCATTCTTTAAAATTTAAATAAAATTAAAATTCCATCATCTTTTTATCTTCTTATCCTAATT
TGAAATCATATA
Found at i:85787639 original size:15 final size:15
Alignment explanation
Indices: 85787619--85787652 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
85787609 TCACATCCCA
*
85787619 AAAATTGGGTTAGCG
1 AAAATTGGATTAGCG
*
85787634 AAAATTGGATTAGTG
1 AAAATTGGATTAGCG
85787649 AAAA
1 AAAA
85787653 ATGAGAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (15 bp):
AAAATTGGATTAGCG
Found at i:85797637 original size:20 final size:23
Alignment explanation
Indices: 85797614--85797660 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
85797604 GAAACGAAAC
85797614 AAAAGGA-AAAG-AAAGAAGGA-
1 AAAAGGAGAAAGAAAAGAAGGAG
85797634 AAAA-GAGAAAGAAAAGAAGGAG
1 AAAAGGAGAAAGAAAAGAAGGAG
85797656 AAAAG
1 AAAAG
85797661 TTAGGCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.09
20 8 0.35
21 9 0.39
22 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (23 bp):
AAAAGGAGAAAGAAAAGAAGGAG
Found at i:85801570 original size:7 final size:6
Alignment explanation
Indices: 85801543--85801567 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
85801533 AACATAAATT
85801543 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
85801568 ATATAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:85802022 original size:13 final size:13
Alignment explanation
Indices: 85802004--85802029 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85801994 ATTTTTTATA
85802004 ATATTTTAAATGT
1 ATATTTTAAATGT
85802017 ATATTTTAAATGT
1 ATATTTTAAATGT
85802030 TTTATAATAT
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATGT
Found at i:85810606 original size:93 final size:93
Alignment explanation
Indices: 85810496--85810667 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
85810486 CGCCCCTAAG
* *
85810496 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
85810561 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* ** *
85810589 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGGCTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
85810654 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
85810668 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:85810664 original size:46 final size:46
Alignment explanation
Indices: 85810496--85810664 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
85810486 CGCCCCTAAG
* * *
85810496 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * **
85810542 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACATTTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA-TAAA
**
85810589 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
*
85810635 TGAACTCGGGCTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
85810665 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 61 0.59
47 34 0.33
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:85814136 original size:44 final size:44
Alignment explanation
Indices: 85814043--85814129 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
85814033 TGCCATTTTT
* ** *
85814043 GGCTTGCACCCTCTCGAGCTTGCATTTAGACCGTCTGCCTCTTA
1 GGCTTGCACCCACTCGAGCTTGCATTTAGACCGTCCACCACTTA
*
85814087 GGCTTGCACCCACTC-AGGCTTGCATTTAGACTGTCCACCACTT
1 GGCTTGCACCCACTCGA-GCTTGCATTTAGACCGTCCACCACTT
85814130 CAGCTTGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.03
44 36 0.97
ACGTcount: A:0.16, C:0.34, G:0.20, T:0.30
Consensus pattern (44 bp):
GGCTTGCACCCACTCGAGCTTGCATTTAGACCGTCCACCACTTA
Found at i:85817449 original size:11 final size:12
Alignment explanation
Indices: 85817422--85817449 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
85817412 TTAATTCAAC
85817422 AAAAAATTATTT
1 AAAAAATTATTT
85817434 AAAAAATTATTT
1 AAAAAATTATTT
85817446 AAAA
1 AAAA
85817450 TTCATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAAAATTATTT
Found at i:85820398 original size:13 final size:13
Alignment explanation
Indices: 85820380--85820443 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
85820370 AGTTTGGCAA
85820380 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
85820393 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
85820406 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
85820419 TGCTTTTTAGAAG
1 TGCTTTTGAAAAG
85820432 TGCTTTTGAAAA
1 TGCTTTTGAAAA
85820444 TTTTGGTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:85821563 original size:22 final size:22
Alignment explanation
Indices: 85821519--85821564 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
85821509 TATTTTTATT
85821519 TAAATTTAATTATTAAAATATA
1 TAAATTTAATTATTAAAATATA
85821541 TAAATATTAA-TA-TAAAATAATA
1 TAAAT-TTAATTATTAAAAT-ATA
85821563 TA
1 TA
85821565 TTTTAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 12 0.55
23 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATTTAATTATTAAAATATA
Found at i:85826006 original size:19 final size:19
Alignment explanation
Indices: 85825966--85826026 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
85825956 AAAAATTAGA
* *
85825966 AAAAATTATAAAATTCGT-T
1 AAAAATTGTAAAATT-TTAT
85825985 AAAAATTGTAAAATTTTAT
1 AAAAATTGTAAAATTTTAT
* **
85826004 AAAAATCGTAAAAAATTAT
1 AAAAATTGTAAAATTTTAT
85826023 AAAA
1 AAAA
85826027 TATAGAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 1 0.03
19 35 0.97
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATTGTAAAATTTTAT
Found at i:85826027 original size:29 final size:29
Alignment explanation
Indices: 85825956--85826029 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
85825946 ATAAAATATT
* * * *
85825956 AAAAATTAGAAAAAATTATAAAATTCGTT
1 AAAAATTATAAAATATTATAAAAATCGTA
* *
85825985 AAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAATTATAAAATATTATAAAAATCGTA
85826014 AAAAATTATAAAATAT
1 AAAAATTATAAAATAT
85826030 AGAAATATAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAAATTATAAAATATTATAAAAATCGTA
Found at i:85826161 original size:24 final size:24
Alignment explanation
Indices: 85826134--85826182 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
85826124 CTAAAAAAAG
85826134 TATTTTA-TAATTTTTCTATAATTT
1 TATTTTATTAATTTTT-TATAATTT
* *
85826158 TATTTTATTTATTTTTTATTATTT
1 TATTTTATTAATTTTTTATAATTT
85826182 T
1 T
85826183 TCGCCACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (24 bp):
TATTTTATTAATTTTTTATAATTT
Found at i:85826330 original size:11 final size:11
Alignment explanation
Indices: 85826316--85826345 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
85826306 TTTTTTTATG
85826316 ATTTTTATAAA
1 ATTTTTATAAA
85826327 A-TTTTATAAA
1 ATTTTTATAAA
85826337 ATTTTTATA
1 ATTTTTATA
85826346 TTTTTTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTTATAAA
Found at i:85829550 original size:27 final size:27
Alignment explanation
Indices: 85829491--85829550 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
85829481 TGTCTAAGAA
* *
85829491 TAATTTTTTTCTATTTTAAATAAAATT
1 TAATATTTTTATATTTTAAATAAAATT
* *
85829518 TAAATATTTTTATATTTTTATTAAAATT
1 T-AATATTTTTATATTTTAAATAAAATT
85829546 TAATA
1 TAATA
85829551 AATTTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TAATATTTTTATATTTTAAATAAAATT
Found at i:85829902 original size:87 final size:85
Alignment explanation
Indices: 85829693--85830003 Score: 351
Period size: 86 Copynumber: 3.6 Consensus size: 85
85829683 GGTTAAAGAG
* * ** *
85829693 CCTTTTTGATGCATTTT-ACAGTTCAAATACCTAATTGAGTGTAAAAAAAAAAGGGGCTTAATTT
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAAGTAGGGACTTAA-TT
** *
85829757 TTCTTTTTTTTAA-TTTGA-GG
65 TT-TTTTTTGAAAGTTTGATGA
* * * *
85829777 GCTTTTTAAATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGTAGGGACTTAATT
1 CCTTTTT-GATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAAGTAGGGACTTAATT
85829842 GTTTTTTCTTGAAAGTTTGATGA
65 -TTTTTT-TTGAAAGTTTGATGA
* * *
85829865 TCTTTTTGATGCATTTTGAAAGTTCCAATACCTAATTGAATGCAAAAAAAAGGTAGGGACTTAAT
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGC-AAAAAAA-GTAGGGACTTAAT
85829930 TTCTTTTTTTGAAAAAGTTTGATGA
64 TT-TTTTTTTG--AAAGTTTGATGA
* *
85829955 CCTTTTTGATACATTTTGAAAGTTCAAATACC-AATTGAGTGTAAAAAAA
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAA
85830004 AAGTATTTAA
Statistics
Matches: 193, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
84 6 0.03
85 15 0.08
86 43 0.22
87 36 0.19
88 25 0.13
89 27 0.14
90 41 0.21
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (85 bp):
CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAAGTAGGGACTTAATTT
TTTTTTTGAAAGTTTGATGA
Found at i:85829970 original size:90 final size:87
Alignment explanation
Indices: 85829693--85830004 Score: 361
Period size: 90 Copynumber: 3.6 Consensus size: 87
85829683 GGTTAAAGAG
* * * *
85829693 CCTTTTTGATGCATTTT-ACAGTTCAAATACCTAATTGAGTGTAAAAAAAA-AAGGGGCTTAATT
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAAAGTAGGGACTTAA--
* *
85829756 TTTCTTTTTTT-TAA-TTTGA-GG
64 TTTCTTTTTTTGAAAGTTTGATGA
* * * *
85829777 GCTTTTTAAATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGC-AAAAAAAGTAGGGACTTAAT
1 CCTTTTT-GATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAAAGTAGGGACTTAAT
85829841 TGT-TTTTTCTTGAAAGTTTGATGA
65 T-TCTTTTT-TTGAAAGTTTGATGA
* * *
85829865 TCTTTTTGATGCATTTTGAAAGTTCCAATACCTAATTGAATGCAAAAAAAAGGTAGGGACTTAAT
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAAA-GTAGGGACTTAAT
85829930 TTCTTTTTTTGAAAAAGTTTGATGA
65 TTCTTTTTTTG--AAAGTTTGATGA
* *
85829955 CCTTTTTGATACATTTTGAAAGTTCAAATACC-AATTGAGTGTAAAAAAAA
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAAA
85830005 AGTATTTAAT
Statistics
Matches: 194, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
84 13 0.07
85 19 0.10
86 32 0.16
87 36 0.19
88 18 0.09
89 35 0.18
90 41 0.21
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (87 bp):
CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGCAAAAAAAAGTAGGGACTTAATT
TCTTTTTTTGAAAGTTTGATGA
Found at i:85830005 original size:90 final size:87
Alignment explanation
Indices: 85829693--85830008 Score: 353
Period size: 89 Copynumber: 3.6 Consensus size: 87
85829683 GGTTAAAGAG
* *
85829693 CCTTTTTGATGCATTTT-ACAGTTCAAATACCTAATTGAGTGTAAAAAAAAA--AGGGGCTTAAT
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTG-AAAAAAAAAGTAGGGACTTAA-
* *
85829755 TTTTCTTTTTTT-TAA-TTTGA-GG
64 -TTTCTTTTTTTGAAAGTTTGATGA
* * * * *
85829777 GCTTTTTAAATGCATTTTGAAAGTTCAAGTACCCAATTGAGTG-CAAAAAAAGTAGGGACTTAAT
1 CCTTTTT-GATGCATTTTGAAAGTTCAAATACCTAATTGAGTGAAAAAAAAAGTAGGGACTTAAT
85829841 TGT-TTTTTCTTGAAAGTTTGATGA
65 T-TCTTTTT-TTGAAAGTTTGATGA
* * * *
85829865 TCTTTTTGATGCATTTTGAAAGTTCCAATACCTAATTGAATGCAAAAAAAAGGTAGGGACTTAAT
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTG-AAAAAAAAAGTAGGGACTTAAT
85829930 TTCTTTTTTTGAAAAAGTTTGATGA
65 TTCTTTTTTTG--AAAGTTTGATGA
*
85829955 CCTTTTTGATACATTTTGAAAGTTCAAATACC-AATTGAGTGTAAAAAAAAAGTA
1 CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTG-AAAAAAAAAGTA
85830009 TTTAATTAAA
Statistics
Matches: 195, Mismatches: 23, Indels: 23
0.81 0.10 0.10
Matches are distributed among these distances:
84 20 0.10
85 12 0.06
86 32 0.16
87 35 0.18
88 11 0.06
89 44 0.23
90 41 0.21
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (87 bp):
CCTTTTTGATGCATTTTGAAAGTTCAAATACCTAATTGAGTGAAAAAAAAAGTAGGGACTTAATT
TCTTTTTTTGAAAGTTTGATGA
Found at i:85832187 original size:121 final size:121
Alignment explanation
Indices: 85831973--85832216 Score: 470
Period size: 121 Copynumber: 2.0 Consensus size: 121
85831963 AATTAGGTGA
*
85831973 TAACCTATTAGATTCATGTATTATCCTTAAAATGTGACATTCAACAAGTTAATACTTAAAAATAG
1 TAACCTATTAGATTCATGCATTATCCTTAAAATGTGACATTCAACAAGTTAATACTTAAAAATAG
*
85832038 AAACAGAGATTATAATTAATGAAATTAGAACTCAAACCTACTTAAATGTCACCTCT
66 AAAAAGAGATTATAATTAATGAAATTAGAACTCAAACCTACTTAAATGTCACCTCT
85832094 TAACCTATTAGATTCATGCATTATCCTTAAAATGTGACATTCAACAAGTTAATACTTAAAAATAG
1 TAACCTATTAGATTCATGCATTATCCTTAAAATGTGACATTCAACAAGTTAATACTTAAAAATAG
85832159 AAAAAGAGATTATAATTAATGAAATTAGAACTCAAACCTACTTAAATGTCACCTCT
66 AAAAAGAGATTATAATTAATGAAATTAGAACTCAAACCTACTTAAATGTCACCTCT
85832215 TA
1 TA
85832217 CAGCTAACTT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (121 bp):
TAACCTATTAGATTCATGCATTATCCTTAAAATGTGACATTCAACAAGTTAATACTTAAAAATAG
AAAAAGAGATTATAATTAATGAAATTAGAACTCAAACCTACTTAAATGTCACCTCT
Found at i:85834365 original size:12 final size:13
Alignment explanation
Indices: 85834339--85834365 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
85834329 AACTCACACC
85834339 AACCTAATAAAAA
1 AACCTAATAAAAA
85834352 AACCTAATAAAAA
1 AACCTAATAAAAA
85834365 A
1 A
85834366 TTTACTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
AACCTAATAAAAA
Found at i:85843026 original size:65 final size:65
Alignment explanation
Indices: 85842920--85843072 Score: 227
Period size: 65 Copynumber: 2.4 Consensus size: 65
85842910 CGAGCCACAT
* * * *
85842920 CAGGACGCACACAAAGAGCTACGTTTGTGTCTGCAACATATGCAGGATCACAACTGATCGCATAA
1 CAGGACGCTCACAAAGAGCTGCGTTTGTGTCTACAACATATGCAGGATCACAACGGATCGCATAA
* * *
85842985 CTGGACGCTCACACAA-AGCTGCGTTTGTGTCTACAACATATGCAGGATCATAACGGATTGCATA
1 CAGGACGCTCACA-AAGAGCTGCGTTTGTGTCTACAACATATGCAGGATCACAACGGATCGCATA
85843049 A
65 A
85843050 CAGGACGCTCACAAAGAGCTGCG
1 CAGGACGCTCACAAAGAGCTGCG
85843073 GTAGTGCACA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
64 2 0.03
65 74 0.95
66 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (65 bp):
CAGGACGCTCACAAAGAGCTGCGTTTGTGTCTACAACATATGCAGGATCACAACGGATCGCATAA
Found at i:85844750 original size:15 final size:15
Alignment explanation
Indices: 85844730--85844758 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85844720 TAATCTTTTA
85844730 AGCTTGAAAATTGAT
1 AGCTTGAAAATTGAT
85844745 AGCTTGAAAATTGA
1 AGCTTGAAAATTGA
85844759 CTTTAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (15 bp):
AGCTTGAAAATTGAT
Found at i:85849125 original size:93 final size:93
Alignment explanation
Indices: 85849013--85849184 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
85849003 CGCCCATAAG
* *
85849013 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
85849078 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
85849106 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
85849171 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
85849185 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:85849181 original size:46 final size:46
Alignment explanation
Indices: 85849006--85849181 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
85848996 TGTAACCCGC
* * *
85849006 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
85849052 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* *
85849102 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
85849145 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
85849182 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:85852769 original size:40 final size:40
Alignment explanation
Indices: 85852652--85852831 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
85852642 ACCCAAGTTT
* * * * * *
85852652 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
* * * * * *
85852691 CTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGC
* *
85852731 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
*
85852771 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
85852811 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
85852832 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 11 0.09
40 106 0.88
41 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
Found at i:85859507 original size:40 final size:40
Alignment explanation
Indices: 85859435--85859645 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
85859425 TCTTCGGAAT
* * * *
85859435 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * *
85859474 TTAGCCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
85859514 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
85859554 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
85859594 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
85859634 TTAGCCCGGATA
1 TTAGCCCGGATA
85859646 TCATTCAAAT
Statistics
Matches: 156, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 6 0.04
40 146 0.94
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:85866800 original size:46 final size:46
Alignment explanation
Indices: 85866733--85866861 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
85866723 TGTAACCCGC
** * * * *
85866733 CCATAAGCAAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
85866779 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
85866825 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85866862 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:85869228 original size:18 final size:18
Alignment explanation
Indices: 85869205--85869241 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85869195 GTATGTAAGG
*
85869205 CAAACGATAGACAGAGTT
1 CAAACGATAGACAAAGTT
*
85869223 CAAACGGTAGACAAAGTT
1 CAAACGATAGACAAAGTT
85869241 C
1 C
85869242 CATCTACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (18 bp):
CAAACGATAGACAAAGTT
Found at i:85870092 original size:7 final size:7
Alignment explanation
Indices: 85870082--85870110 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
85870072 AAAAAAAAGT
85870082 AGAAATA
1 AGAAATA
85870089 AGAAATA
1 AGAAATA
85870096 AGAAATA
1 AGAAATA
85870103 AGAAATA
1 AGAAATA
85870110 A
1 A
85870111 AATTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AGAAATA
Found at i:85870093 original size:21 final size:21
Alignment explanation
Indices: 85870069--85870110 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
85870059 AGGGGAAAAT
85870069 GAAAAAAAAAAGT-AGAAATAA
1 GAAAAAAAAAA-TAAGAAATAA
* *
85870090 GAAATAAGAAATAAGAAATAA
1 GAAAAAAAAAATAAGAAATAA
85870111 AATTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (21 bp):
GAAAAAAAAAATAAGAAATAA
Found at i:85877470 original size:18 final size:18
Alignment explanation
Indices: 85877427--85877473 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
85877417 AATAATAGGG
*
85877427 AAAAA-TGTAATTTTTTC
1 AAAAAGTGTAAATTTTTC
85877444 AAAAAGTGTAAATTTTTC
1 AAAAAGTGTAAATTTTTC
*
85877462 AAAAGGTGTAAA
1 AAAAAGTGTAAA
85877474 CTGTGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (18 bp):
AAAAAGTGTAAATTTTTC
Found at i:85877770 original size:40 final size:40
Alignment explanation
Indices: 85877726--85877801 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
85877716 CGGCTAAGAA
*
85877726 TGACACTTAGTGTGCGGTTTGAAATAGCTTCGGCTAAATG
1 TGACACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
* *
85877766 TGACACTTGGTGTGCGATTTGAGATAGCTTCGGCTA
1 TGACACTTAGTGTGCGATTTGAAATAGCTTCGGCTA
85877802 TATATATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (40 bp):
TGACACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
Found at i:85877864 original size:28 final size:28
Alignment explanation
Indices: 85877812--85877865 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
85877802 TATATATATG
*
85877812 TGACACTTAGTGTACGAAATGTTGAGAA
1 TGACACTTAGTGTACGAAATATTGAGAA
* * *
85877840 TGACACTTGGTGTGCGAGATATTGAG
1 TGACACTTAGTGTACGAAATATTGAG
85877866 TATGTGATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (28 bp):
TGACACTTAGTGTACGAAATATTGAGAA
Found at i:85892789 original size:44 final size:44
Alignment explanation
Indices: 85892675--85892797 Score: 176
Period size: 46 Copynumber: 2.8 Consensus size: 44
85892665 ATTGAGACAA
*
85892675 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT
* * *
85892719 GTTAGCCAGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGAT
1 G-T-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGAT
85892765 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
85892798 AGTATGATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 29 0.42
45 4 0.06
46 36 0.52
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.26
Consensus pattern (44 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT
Found at i:85897064 original size:17 final size:18
Alignment explanation
Indices: 85897042--85897075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85897032 GGTCTTAGCC
*
85897042 CATTAT-AGAATGAGAAA
1 CATTATCAGAATCAGAAA
85897059 CATTATCAGAATCAGAA
1 CATTATCAGAATCAGAA
85897076 TCAAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CATTATCAGAATCAGAAA
Found at i:85897671 original size:27 final size:26
Alignment explanation
Indices: 85897627--85897729 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 26
85897617 TCAATCGGTC
* * *
85897627 AACAGATATAGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
85897653 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* * *
85897680 AACAGATCTTTGTGGCATAGCCACCAAA
1 AACAGAT-ATTGTGGCAGAGCCACC-AG
*
85897708 AACAGATATTTGTGGCATAGCC
1 AACAGATA-TTGTGGCAGAGCC
85897730 GCTAGAATGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
26 7 0.11
27 38 0.58
28 21 0.32
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:85897720 original size:28 final size:27
Alignment explanation
Indices: 85897655--85897729 Score: 107
Period size: 28 Copynumber: 2.8 Consensus size: 27
85897645 GTCACCAGAT
* *
85897655 ACAGATA-TTGTGGCAGAGCCACCAGA
1 ACAGATATTTGTGGCATAGCCACCAAA
*
85897681 ACAGATCTTTGTGGCATAGCCACCAAAA
1 ACAGATATTTGTGGCATAGCCACC-AAA
85897709 ACAGATATTTGTGGCATAGCC
1 ACAGATATTTGTGGCATAGCC
85897730 GCTAGAATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 22 0.51
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCATAGCCACCAAA
Found at i:85897980 original size:27 final size:28
Alignment explanation
Indices: 85897950--85898010 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
85897940 TTAACACTCT
*
85897950 AAGGGTAAAAT-GGTAATTTTACCCCAC
1 AAGGGTAAAATCAGTAATTTTACCCCAC
**
85897977 AAGGGT-ATCTCAGTAATTTTACCCCAC
1 AAGGGTAAAATCAGTAATTTTACCCCAC
*
85898004 AGGGGTA
1 AAGGGTA
85898011 TTTTAGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (28 bp):
AAGGGTAAAATCAGTAATTTTACCCCAC
Found at i:85898011 original size:27 final size:27
Alignment explanation
Indices: 85897962--85898100 Score: 197
Period size: 27 Copynumber: 5.1 Consensus size: 27
85897952 GGGTAAAATG
* * * *
85897962 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
85897989 GTAATTTTACCCCACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
85898016 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
85898043 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
85898070 GTAATTCTAACCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
85898097 GTAA
1 GTAA
85898101 CTCTGTAAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:85898127 original size:27 final size:27
Alignment explanation
Indices: 85898097--85898441 Score: 367
Period size: 27 Copynumber: 12.8 Consensus size: 27
85898087 GGGTATTTCA
* *
85898097 GTAACTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85898124 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
85898151 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
85898178 GTAATTCTATAAATCAAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85898205 GTAATTCTGTAAATTGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85898232 ATAATTCTGTAAA-CTGAGGTTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
85898259 GTAATTCTATAAACCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85898286 GTAATTCTGTAAA-CTGAGGTTAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* * *
85898313 GTAATTCT-TTAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85898339 GTAATTCTGTAAAT-TAGGGGTAAAAAG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
85898366 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85898393 GTAATTCTATAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
85898420 GTAATTTTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
85898442 CTTTGGTAAT
Statistics
Matches: 267, Mismatches: 42, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
26 23 0.09
27 241 0.90
28 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:85898468 original size:81 final size:81
Alignment explanation
Indices: 85898097--85898441 Score: 426
Period size: 81 Copynumber: 4.3 Consensus size: 81
85898087 GGGTATTTCA
* * * *
85898097 GTAACTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATA
85898162 AA-TCGAGGGTAAAATG
66 AACT-GAGGGTAAAATG
* * * * * * *
85898178 GTAATTCTATAAATCAAGGGTGAAACAGTAATTCTGTAAATTGAGGATAAAACGATAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATA
* *
85898243 AACTGAGGTTAAAACG
66 AACTGAGGGTAAAATG
* * * * * *
85898259 GTAATTCTATAAACCGAGGGTAAAACGGTAATTCTGTAAACTGAGGTTAAAACAGTAATTCT-TT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATA
*
85898323 AATTGAGGGTAAAATG
66 AACTGAGGGTAAAATG
* * *
85898339 GTAATTCTGTAAAT-TAGGGGTAAAAAGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTAT
85898403 AAACTGAGGGTAAAATG
65 AAACTGAGGGTAAAATG
* *
85898420 GTAATTTTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
85898442 CTTTGGTAAT
Statistics
Matches: 222, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.00
80 66 0.30
81 154 0.69
82 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATA
AACTGAGGGTAAAATG
Found at i:85900465 original size:18 final size:17
Alignment explanation
Indices: 85900437--85900470 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
85900427 GGTCTTAGCC
*
85900437 CATTACAGAATGAGAAA
1 CATTACAGAATCAGAAA
85900454 CATTATCAGAATCAGAA
1 CATTA-CAGAATCAGAA
85900471 TCAGAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (17 bp):
CATTACAGAATCAGAAA
Found at i:85901118 original size:28 final size:28
Alignment explanation
Indices: 85901042--85901131 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 28
85901032 GTGACAGAGT
* * * *
85901042 CACCAGATACAGATA-TTATGACAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
85901069 CACCAGAATA-A-ATATTTGTGGCATAGC
1 CACCAGAA-ACAGATATTTGTGGCATAGC
85901096 CACCAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
85901124 CACAAGAA
1 CACCAGAA
85901132 CGCTTCCTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 4 0.07
27 26 0.48
28 24 0.44
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:85901412 original size:54 final size:54
Alignment explanation
Indices: 85901354--85901466 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
85901344 TTAACACCCT
* * *
85901354 AGGGGCAAAATGGTAATTTTACCCCATAAGGGTATCTCG-GTAATTCTACCCTAC
1 AGGGGCAAAATAGTAATTCTACCACATAAGGGTAT-TCGAGTAATTCTACCCTAC
* *** * * *
85901408 AGGGGTATTTTAGTAATTCTACCATATAAGGGTATTTGAGTAATTCTACCCTAT
1 AGGGGCAAAATAGTAATTCTACCACATAAGGGTATTCGAGTAATTCTACCCTAC
85901462 AGGGG
1 AGGGG
85901467 TATTTCAGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (54 bp):
AGGGGCAAAATAGTAATTCTACCACATAAGGGTATTCGAGTAATTCTACCCTAC
Found at i:85901413 original size:27 final size:27
Alignment explanation
Indices: 85901366--85901507 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 27
85901356 GGGCAAAATG
* * * *
85901366 GTAATTTTACCCCATAAGGGTATCTCG
1 GTAATTCTACCCTATAAGGGTATTTCA
* * *
85901393 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTATAAGGGTATTTCA
* *
85901420 GTAATTCTACCATATAAGGGTATTTGA
1 GTAATTCTACCCTATAAGGGTATTTCA
*
85901447 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCA
* *
85901474 GTAATTCTAACCTACAAGGGTATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCA
85901501 GTAATTC
1 GTAATTC
85901508 AATAAATCGA
Statistics
Matches: 98, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTATAAGGGTATTTCA
Found at i:85901520 original size:27 final size:27
Alignment explanation
Indices: 85901464--85901549 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
85901454 TACCCTATAG
* *
85901464 GGGTATTTCAGTAATTC--TAACCTACAA
1 GGGTATTTCAGTAATTCAATAA-AT-CGA
85901491 GGGTATTTCAGTAATTCAATAAATCGA
1 GGGTATTTCAGTAATTCAATAAATCGA
** * *
85901518 GGGTAAAAT-GGTAATTCAATAAATTGA
1 GGGT-ATTTCAGTAATTCAATAAATCGA
85901545 GGGTA
1 GGGTA
85901550 AAATAGTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
26 1 0.02
27 43 0.86
28 3 0.06
29 3 0.06
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCAATAAATCGA
Found at i:85901532 original size:81 final size:81
Alignment explanation
Indices: 85901360--85901534 Score: 192
Period size: 81 Copynumber: 2.2 Consensus size: 81
85901350 CCCTAGGGGC
* * * * *
85901360 AAAATGGTAATTTTACCCCATAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAAT
1 AAAATGGTAATTCTACCCCATAAGGGTATCTCAGTAATTCTAACCTACAAGGGTATTTCAGTAAT
* *
85901425 TCTACCATATAAGGGT
66 TCTAACAAATAAGGGT
** * * *
85901441 -ATTTGAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAACCTACAAGGGTATTTCAGTAA
1 AAAATG-GTAATTCTACCCCATAAGGGTATCTCAGTAATTCTAACCTACAAGGGTATTTCAGTAA
* *
85901505 TTC-AATAAATCGAGGGT
65 TTCTAACAAAT-AAGGGT
85901522 AAAATGGTAATTC
1 AAAATGGTAATTC
85901535 AATAAATTGA
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
80 7 0.09
81 65 0.87
82 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (81 bp):
AAAATGGTAATTCTACCCCATAAGGGTATCTCAGTAATTCTAACCTACAAGGGTATTTCAGTAAT
TCTAACAAATAAGGGT
Found at i:85901550 original size:27 final size:27
Alignment explanation
Indices: 85901501--85901845 Score: 365
Period size: 27 Copynumber: 12.8 Consensus size: 27
85901491 GGGTATTTCA
** *
85901501 GTAATTCAATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
** * **
85901528 GTAATTCAATAAATTGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
85901555 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * **
85901582 GTAATTCTGTAAACCGATGGTGAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
85901609 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85901636 ATAATTCTGTAAA-CTGAGGGTAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
85901663 GTAATTTTGTAAACCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
85901690 ATAATTTTTTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
85901717 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
85901744 ATAATTCTGTAAATCGAGGGT-AAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
85901770 ATAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85901797 GTAATTTTGCAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
85901824 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
85901846 CTTTGGTAAT
Statistics
Matches: 272, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
26 28 0.10
27 242 0.89
28 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:85901858 original size:54 final size:54
Alignment explanation
Indices: 85901499--85901845 Score: 403
Period size: 54 Copynumber: 6.4 Consensus size: 54
85901489 AAGGGTATTT
** * ** *
85901499 CAGTAATTCAATAAATCGAGGGTAAAATGGTAATTCAATAAATTGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
* * * * *
85901553 TAGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAACCGATGGTGAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
* *
85901607 TAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
* * * * *
85901661 CAGTAATTTTGTAAACCGAGGGTAAAACGATAATTTTTTAAACTGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
* * * *
85901715 CGGTAATTCTATAAATTGAGGGTAAAACGATAATTCTGTAAA-TCGAGGGT-AAA
1 CAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACT-GAGGGTAAAA
* * * *
85901768 C-GATAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGCAAACTGAGGGTAAAA
1 CAG-TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
* *
85901822 CGGTAATTCTATAAATCGAGGGTA
1 CAGTAATTCTGTAAATCGAGGGTA
85901846 CTTTGGTAAT
Statistics
Matches: 251, Mismatches: 37, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
52 1 0.00
53 43 0.17
54 206 0.82
55 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
CAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
Found at i:85903925 original size:533 final size:532
Alignment explanation
Indices: 85902210--85905403 Score: 5652
Period size: 532 Copynumber: 6.0 Consensus size: 532
85902200 GCCCAACCCA
* *
85902210 AACGAGCACGCAATAAAGCGAAAGGGATCAGCGAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
1 AACGAGCACGCCATAAAGCGAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
85902275 CTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
66 CTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
85902340 TCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAAAATAAATGCTCTTTGATTG
131 TCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAAAATAAATGCTCTTTGATTG
*
85902405 CCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTCCCTGCCTCTTATGTG
196 CCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTGCCTCTTATGTG
*
85902470 GCGCTACTTTTCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAGG
261 GCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAGG
85902535 CCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTGA
326 CCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTGA
* * *
85902600 ACCCAGGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCATTCATTAACAAAAT
391 ACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACGAAAT
85902665 TTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTCT
456 TTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTCT
85902730 AGGCCCAAATTC
521 AGGCCCAAATTC
* *
85902742 AACGAGCACGCCATAAAGCGAAAGGGATCAGCCGAGAAAGGTACCTTTACTCTCCTCATGGTCCT
1 AACGAGCACGCCATAAAGCGAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
* *
85902807 CTCTATTTAAAGCTAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATTCCTCCATCA
66 CTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
*
85902872 TCAGAGTTTAAATTCAACACCAACTTTTGCCGCCCCCTGTTAGCAAAATAAATGCTCTTTGATTG
131 TCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAAAATAAATGCTCTTTGATTG
85902937 CCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTGCCTCTTATGTG
196 CCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTGCCTCTTATGTG
*
85903002 GCGCTACTTTTCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAGG
261 GCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAGG
85903067 CCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTGA
326 CCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTGA
*
85903132 ACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACAAAAT
391 ACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACGAAAT
*
85903197 TAACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTCT
456 TTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTCT
85903262 AGGCCCAAATTC
521 AGGCCCAAATTC
* * *
85903274 AACGAGTACGCCATAAAGTGAAAGGGATCAGCCGAGAAAGGTACCTTTACTCTCCTCATGGTTCT
1 AACGAGCACGCCATAAAGCGAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
* * *
85903339 CTCTATTTAAAGCTAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCACTATCA
66 CTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
* * *
85903404 TCAGACTTTAAATTCAATACTAACTCTTGCCGCCCCCTGTTAGCAAAATAAATGCTCTTTGATTG
131 TCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAAAATAAATGCTCTTTGATTG
* *
85903469 CCATGAGTTTCAAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTACCTCTTATGTG
196 CCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTGCCTCTTATGTG
85903534 GCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAGG
261 GCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAGG
85903599 CCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTTGCTAGAGTCCAGGTTTG
326 CCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAA-TTTTTGCTAGAGTCCAGGTTTG
85903664 AACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACGAAA
390 AACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACGAAA
** *
85903729 TTTACATGCACAACAAAATATTATAAGCTGCCTTCAACCGCTCCCATGCTCAAGGCCCCAACTTC
455 TTTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTC
85903794 TAGGCCCAAATTC
520 TAGGCCCAAATTC
* * *
85903807 AACGAGCACACCATAAAGCGAAAAGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCAAGGTTCT
1 AACGAGCACGCCATAAAGCGAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
* *
85903872 TTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAACTTCCCGATGTGGGATCCCTCCATCA
66 CTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
*
85903937 TCAGAGTTTAAATTCAACACCAACTCTTGCCACCCCCCTGTTAGCAAAATAAATGCTCTTTGATT
131 TCAGAGTTTAAATTCAACACCAACTCTTGCC-GCCCCCTGTTAGCAAAATAAATGCTCTTTGATT
* *
85904002 GCCATGAGTTTCGAACCCTAGACCTCCTTGCCAACTCTATGACGCCACTTTCCTGCCTCTTATGT
195 GCCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTGCCTCTTATGT
* *
85904067 GGCTCTACTTTTCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAG
260 GGCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAG
85904132 GCCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTG
325 GCCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTG
* *
85904197 AACCCAAGACTTCTCCAAGACTTCTCAGCACAGTTAACCACTAAAACAAGCCTTCATTAACGAAA
390 AACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACGAAA
* *
85904262 TTTACATGCACAACAAAATATTATAAGCTGCCTTCTACCGTTCCCATGCTCAAGGCCCGAACTTC
455 TTTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTC
85904327 TAGGCCCAAATTC
520 TAGGCCCAAATTC
* *
85904340 AACGAGCATGCCATAAAGCGAAAGGGATCAGCTAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
1 AACGAGCACGCCATAAAGCGAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
** * * *
85904405 CTCTATTTAAAGATAGCTTCGCATCCACTCTTATGTTAGCTTTCCGATGTGAGACCCCTCCATCA
66 CTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
85904470 TCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTTGTTAGCAAAATAAATGCTCTTTGATT
131 TCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCC-TGTTAGCAAAATAAATGCTCTTTGATT
* * *
85904535 GCCATAAGTTTCGAACCTTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTACCTCTTATGT
195 GCCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTGCCTCTTATGT
85904600 GGCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAG
260 GGCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAG
* *
85904665 GCCTACCTACTACACCCAGGGTTTGATTCACCTTAAATCAAAATTTTAGCTAGAGTCCAGGTTTG
325 GCCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTG
* *
85904730 AACCCAGGACTTCTCCAACACTTCTCAACACACTTAACCACTAAAACAAGCCTTCATTAACGAAA
390 AACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACGAAA
** *
85904795 TTTACATGCACAACAAAATATTATAAGCTGCCTTCAACCGCTCCCATGCTCAAGGCCCAAACTTC
455 TTTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTC
*
85904860 TAGG-CTAAATTC
520 TAGGCCCAAATTC
* *
85904872 AACGAGCACGCCATAAAGCGAAAAGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCAAGGTTCT
1 AACGAGCACGCCATAAAGCGAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
*
85904937 TTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
66 CTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
* * *
85905002 TCAGAGTTTAAATTCAACACCAACTCTTGCCTCCCCCCTGTTAGCAAAAAAAATACTCTTTGATT
131 TCAGAGTTTAAATTCAACACCAACTCTTGCC-GCCCCCTGTTAGCAAAATAAATGCTCTTTGATT
* *
85905067 GCCATGAGTTTCGAACCCTAGACCTCCTTGCCAACTCTATGACGCCACTTTCCTGCCTCTTATGT
195 GCCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTGCCTCTTATGT
* *
85905132 GGCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCTAACAATATTCTGAAG
260 GGCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAG
85905197 GCCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTG
325 GCCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTG
* * *
85905262 AACTCAAGACTTCTCCAACACTTTTCAGCACACTTAACCACTAAAACAAGCTTTCATTAACGAAA
390 AACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACGAAA
* * *
85905327 ATTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATACTCAAGGCCCAAACTTC
455 TTTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTC
85905392 TAGGCCCAAATT
520 TAGGCCCAAATT
85905404 TAGGGTGTTA
Statistics
Matches: 2540, Mismatches: 117, Indels: 9
0.95 0.04 0.00
Matches are distributed among these distances:
532 1374 0.54
533 967 0.38
534 199 0.08
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (532 bp):
AACGAGCACGCCATAAAGCGAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCATGGTTCT
CTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCCCTCCATCA
TCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAAAATAAATGCTCTTTGATTG
CCATGAGTTTCGAACCCTGGACCTCCTTGCCAACTCTATGACGCCACCTTCCTGCCTCTTATGTG
GCGCTACTTTGCCACTAGACCACAAGGCTTTTTGTGGCACAATTTCTCCAACAATATTCTTAAGG
CCTACCTACTACACCCAGGGTTTGATTCACCTTAAACCAAAATTTTTGCTAGAGTCCAGGTTTGA
ACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAACGAAAT
TTACATGCACAACAAAATATTATAAGCTGCCTTCAACCATTCCCATGCTCAAGGCCCGAACTTCT
AGGCCCAAATTC
Found at i:85909222 original size:22 final size:23
Alignment explanation
Indices: 85909197--85909252 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
85909187 TATAAAATCT
85909197 AATAAAAA-TAAGCTTAAAGA-AA
1 AATAAAAAGTAAGCTTAAA-ATAA
**
85909219 AATAAAAAGTATTCTTAAAATAA
1 AATAAAAAGTAAGCTTAAAATAA
85909242 AAT-AAAAGTAA
1 AATAAAAAGTAA
85909253 AAACATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.23
Consensus pattern (23 bp):
AATAAAAAGTAAGCTTAAAATAA
Found at i:85917709 original size:9 final size:9
Alignment explanation
Indices: 85917695--85917720 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
85917685 ACATTTACAT
85917695 GCCAATATG
1 GCCAATATG
85917704 GCCAATATG
1 GCCAATATG
85917713 GCCAATAT
1 GCCAATAT
85917721 AACCTACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (9 bp):
GCCAATATG
Found at i:85918589 original size:57 final size:58
Alignment explanation
Indices: 85918497--85918637 Score: 160
Period size: 57 Copynumber: 2.4 Consensus size: 58
85918487 ATGTATACAA
* * ** ** *
85918497 CAGGATTACCAGTCTAGGCTAAATCCTTTTTATAACATATGCTCTA-AGGAGCTT-GAT
1 CAGGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGA-CTTAGAT
* *
85918554 CTGGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATAT
1 CAGGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTAGAT
* *
85918612 CAGGATTACCCATCCGGGCTAAATCC
1 CAGGATTACCCGTCCAGGCTAAATCC
85918638 TTTTTGTAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 41 0.59
58 29 0.41
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (58 bp):
CAGGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTAGAT
Found at i:85937536 original size:48 final size:48
Alignment explanation
Indices: 85937413--85937541 Score: 159
Period size: 48 Copynumber: 2.7 Consensus size: 48
85937403 TCTTATATCG
* * * ** * * *
85937413 ATGCTATGTCCCAGGCATGGTCTTACACGAAATCACTTATTGCTGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACTTATCGATGCCA
* *
85937461 ATGCCATATCCCAGATATGGTCTTACATGGGATCACTTATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACTTATCGATGCCA
*
85937509 ATTCCATGTCCCAGACATGGTCTTACATGGGAT
1 ATGCCATGTCCCAGACATGGTCTTACATGGGAT
85937542 TACACATAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACTTATCGATGCCA
Found at i:85939493 original size:35 final size:35
Alignment explanation
Indices: 85939447--85939517 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
85939437 CATCTCTAGA
*
85939447 GCTTGGTAAATATGGAAAGTAATCTTCAAACATAT
1 GCTTGGCAAATATGGAAAGTAATCTTCAAACATAT
* * *
85939482 GCTTGGCAAATATGGAAGGTGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGTAATCTTCAAACATAT
85939517 G
1 G
85939518 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTAATCTTCAAACATAT
Found at i:85940426 original size:18 final size:17
Alignment explanation
Indices: 85940386--85940432 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
85940376 TTAAAAGTTA
*
85940386 AGTTTCGAAAACATAGT
1 AGTTTTGAAAACATAGT
*
85940403 -GTTTTGAAAACAGTTGT
1 AGTTTTGAAAACA-TAGT
85940420 AGTTTTGGAAAAC
1 AGTTTT-GAAAAC
85940433 TGCGATCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 11 0.44
17 3 0.12
18 5 0.20
19 6 0.24
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (17 bp):
AGTTTTGAAAACATAGT
Found at i:85941465 original size:41 final size:41
Alignment explanation
Indices: 85941406--85941522 Score: 180
Period size: 41 Copynumber: 2.9 Consensus size: 41
85941396 AAAGCCACCG
* * *
85941406 GTGGATCCACGATTGTCAAGCAACCATGCGATCCTTAATCA
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
* * *
85941447 GTGGATCTATGGTCGTCAAGCAACCATGCGATCCTCAATCG
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
85941488 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
85941523 GAATTTCTTC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
Found at i:85941816 original size:27 final size:27
Alignment explanation
Indices: 85941786--85941892 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 27
85941776 GGTAAATATA
* *
85941786 CAAACCAAGGGTATTTTTGTAATTTTC
1 CAAATCAAGGGCATTTTTGTAATTTTC
* * *
85941813 CAAATTAAGGGCATTCTAGTAATTTTC
1 CAAATCAAGGGCATTTTTGTAATTTTC
* *
85941840 CAAATCAGGGGCA-TTTTGATAATTTTA
1 CAAATCAAGGGCATTTTTG-TAATTTTC
* * * **
85941867 AAAATCAAAGGTATTTCGGTAATTTT
1 CAAATCAAGGGCATTTTTGTAATTTT
85941893 ACAAGTTAAT
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
26 3 0.05
27 56 0.90
28 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (27 bp):
CAAATCAAGGGCATTTTTGTAATTTTC
Found at i:85941893 original size:27 final size:26
Alignment explanation
Indices: 85941859--85941919 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
85941849 GGCATTTTGA
85941859 TAATTTTAAAAATCAAAGGTATTTCGG
1 TAATTTTAAAAAT-AAAGGTATTTCGG
* * * *
85941886 TAATTTTACAAGTTAATGTATTTCGG
1 TAATTTTAAAAATAAAGGTATTTCGG
85941912 TAATTTTA
1 TAATTTTA
85941920 TAGGTCGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (26 bp):
TAATTTTAAAAATAAAGGTATTTCGG
Found at i:85941969 original size:27 final size:26
Alignment explanation
Indices: 85941938--85941996 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
85941928 GGGTATTTAG
85941938 TAATTTCAAAAA-TCAGGGGCATTTTGC
1 TAATTT-AAAAACT-AGGGGCATTTTGC
* * *
85941965 TAATTTACAAACTAGGGGTATTTTGG
1 TAATTTAAAAACTAGGGGCATTTTGC
85941991 TAATTT
1 TAATTT
85941997 TGCTAATCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (26 bp):
TAATTTAAAAACTAGGGGCATTTTGC
Found at i:85942052 original size:26 final size:27
Alignment explanation
Indices: 85942021--85942075 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
85942011 ATTTTGATAG
85942021 TTTTGTAAACCAAGCGTATTT-AGTAA
1 TTTTGTAAACCAAGCGTATTTCAGTAA
*
85942047 TTTTGTAAACCAAGGGTATTTCAGTAA
1 TTTTGTAAACCAAGCGTATTTCAGTAA
85942074 TT
1 TT
85942076 CTACCCTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (27 bp):
TTTTGTAAACCAAGCGTATTTCAGTAA
Found at i:85942088 original size:26 final size:27
Alignment explanation
Indices: 85942064--85942166 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
85942054 AACCAAGGGT
85942064 ATTTCAGTAATTCTACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
85942091 A-TTCAGTAATTCTATCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* * * *
85942117 ATTTTAGTAATTTTACCTTATAGGGGT
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
85942144 ATTTCAGTAATACTAGCCTATAG
1 ATTTCAGTAATTCTACCCTATAG
85942167 ATATGAGATT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
26 24 0.39
27 38 0.61
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTATAGGGGC
Found at i:85943776 original size:37 final size:36
Alignment explanation
Indices: 85943676--85943864 Score: 193
Period size: 36 Copynumber: 5.0 Consensus size: 36
85943666 TACGTATGAT
* * *
85943676 CACTTATCAC-TTGTCCCTGAT-AGATAAGTGTAGC
1 CACTTATCACTTTTTTCTTGATCAGATAAGTGTAGC
* * *
85943710 CACCTATCACTTTGTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTTTTCTTGATCAGATAAGTGTAGC
85943746 CACTTATCACTTGTTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTT-TTTTCTTGATCAGATAAGTGTAGC
*
85943783 CACTTATCACTTTTGTCTTGATCAGATAAGTGAGCTAAAGC
1 CACTTATCACTTTTTTCTTGATCAGATAAGT--G-T--AGC
* *
85943824 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTT-TTTCTTGATCAGATAAGTGTAGC
85943864 C
1 C
85943865 GAAGCTATCA
Statistics
Matches: 133, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
34 9 0.07
35 9 0.07
36 41 0.31
37 35 0.26
38 1 0.01
39 1 0.01
40 3 0.02
41 3 0.02
42 1 0.01
44 13 0.10
45 17 0.13
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTTTTCTTGATCAGATAAGTGTAGC
Found at i:85943783 original size:73 final size:70
Alignment explanation
Indices: 85943676--85943814 Score: 199
Period size: 73 Copynumber: 1.9 Consensus size: 70
85943666 TACGTATGAT
85943676 CACTTATCACTTGTCCCTGATAGATAAGTGTAGCCACCTATCAC-TTTGTTCTTGATCACATAAG
1 CACTTATCACTTGTCCCTGATAGATAAGTGTAGCCACCTATCACTTTTG-TCTTGATCACATAAG
85943740 TGTAGC
65 TGTAGC
* * * *
85943746 CACTTATCACTTGTTTTCTTGATCAGATAAGTGTAGCCACTTATCACTTTTGTCTTGATCAGATA
1 CACTTATCACTTG--TCCCTGAT-AGATAAGTGTAGCCACCTATCACTTTTGTCTTGATCACATA
85943811 AGTG
63 AGTG
85943815 AGCTAAAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
70 13 0.21
72 6 0.10
73 38 0.62
74 4 0.07
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (70 bp):
CACTTATCACTTGTCCCTGATAGATAAGTGTAGCCACCTATCACTTTTGTCTTGATCACATAAGT
GTAGC
Found at i:85943881 original size:46 final size:46
Alignment explanation
Indices: 85943783--85944147 Score: 385
Period size: 52 Copynumber: 7.6 Consensus size: 46
85943773 TAAGTGTAGC
* **
85943783 CACTTATCACTTTTGT--CTTGATCAGATAAGT-GAGCTAAAGCTAT
1 CACTTATCAC-TTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
85943827 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
85943873 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* ** *
85943925 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
85943977 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAATCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
85944023 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
85944069 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
85944121 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
85944148 AGTACTCAAA
Statistics
Matches: 282, Mismatches: 23, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
43 5 0.02
44 10 0.04
45 15 0.05
46 118 0.42
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 127 0.45
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:85943900 original size:52 final size:52
Alignment explanation
Indices: 85943824--85944141 Score: 399
Period size: 52 Copynumber: 6.3 Consensus size: 52
85943814 GAGCTAAAGC
* *
85943824 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
85943877 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
85943929 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
85943981 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAATCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
85944027 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
85944073 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
85944125 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
85944142 ATCAGAAGTA
Statistics
Matches: 233, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
46 80 0.34
47 2 0.01
48 2 0.01
52 131 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:85944000 original size:98 final size:97
Alignment explanation
Indices: 85943782--85944147 Score: 402
Period size: 98 Copynumber: 3.8 Consensus size: 97
85943772 ATAAGTGTAG
*
85943782 CCACTTATCACTT-TTGT--CTTGATCAGATAAGTG-AGCTAAAGCTATCACTTATCAC--T-TT
1 CCACTTATCACTTCTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATT
*
85943840 GTCTCTTGATCAGATAAGTATAGCCGAAGCTA
66 GTCACTTGATCAGATAAGTATAGCCGAAGCTA
* *
85943872 TCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 CCACTTATCAC--TT--CTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTT
* **
85943937 TCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
62 T--A-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTA
* * *
85943976 CCACTTATCAC-T-TTGTCACTTGATCAGATAAGTATAGCCGAATCTATCACTTATCACTTTA--
1 CCACTTATCACTTCTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATT
85944037 -TCACTTGATCAGATAAGTATAGCCGAAGCTA
66 GTCACTTGATCAGATAAGTATAGCCGAAGCTA
** * *
85944068 TTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 CCACTTATCAC-TT---CTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTT
85944133 TA---TCACTTGATCAGA
62 TATTGTCACTTGATCAGA
85944148 AGTACTCAAA
Statistics
Matches: 236, Mismatches: 20, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
90 10 0.04
92 39 0.17
94 1 0.00
95 4 0.02
96 1 0.00
97 16 0.07
98 123 0.52
100 1 0.00
101 1 0.00
104 40 0.17
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (97 bp):
CCACTTATCACTTCTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATT
GTCACTTGATCAGATAAGTATAGCCGAAGCTA
Found at i:85944025 original size:39 final size:43
Alignment explanation
Indices: 85943945--85944147 Score: 145
Period size: 46 Copynumber: 4.3 Consensus size: 43
85943935 TTTCCACTTG
* ** * *
85943945 TCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTG
1 TCACTTGATCAGATAAGTATAGCCGAA--TA-GACTTATCACTTTA
*
85943991 TCACTTGATCAGATAAGTATAGCCGAATCTATCACTTATCACTTTA
1 TCACTTGATCAGATAAGTATAGCCGAA--TA-GACTTATCACTTTA
*
85944037 TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCA
1 TCACTTGATCAGATAAGTATAGCCGAA--TA-GACTTATCACTTT--A
* ** *
85944085 CTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTA
1 ----TCACTTGATCAGATAAGTATAGCCGAA--TA-GACTTATCACTTTA
85944135 TCACTTGATCAGA
1 TCACTTGATCAGA
85944148 AGTACTCAAA
Statistics
Matches: 138, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
46 96 0.70
48 1 0.01
50 1 0.01
52 40 0.29
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (43 bp):
TCACTTGATCAGATAAGTATAGCCGAATAGACTTATCACTTTA
Found at i:85947419 original size:49 final size:48
Alignment explanation
Indices: 85947245--85947435 Score: 301
Period size: 48 Copynumber: 3.9 Consensus size: 48
85947235 TTCGTTTTCT
* * * * *
85947245 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATG-CATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
*
85947294 CGATGCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
85947342 CGATGCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
85947390 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCAC
1 CGATG-CATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCAC
85947436 ATGTTCACAT
Statistics
Matches: 134, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
48 90 0.67
49 39 0.29
50 5 0.04
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (48 bp):
CGATGCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
Found at i:85949010 original size:36 final size:37
Alignment explanation
Indices: 85948894--85949038 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
85948884 TACGTATGAT
* *
85948894 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
85948929 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
85948966 CACTTATCACTTTGTTTCTTGATCAGATAAGTG-AGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
85949002 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
85949039 TAAAGCTATC
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
35 9 0.09
36 38 0.38
37 53 0.53
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:85949013 original size:73 final size:72
Alignment explanation
Indices: 85948894--85949038 Score: 220
Period size: 73 Copynumber: 2.0 Consensus size: 72
85948884 TACGTATGAT
*
85948894 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCACATAA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCACATAA
85948959 GTGTAGC
66 GTGTAGC
* * * *
85948966 CACTTATCACTTTGTTTCTTGATCAGATAAGTG-AGCCACTTATCACTTTGTCTCTTGATCAGAT
1 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCACAT
85949030 AAGTGTAGC
64 AAGTGTAGC
85949039 TAAAGCTATC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
72 10 0.15
73 40 0.61
74 16 0.24
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (72 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCACATAA
GTGTAGC
Done.