Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 307 of 770
Found at i:93861096 original size:40 final size:39
Alignment explanation
Indices: 93860928--93861098 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
93860918 AGAAATTGAA
* *
93860928 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
93860968 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
93861008 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
93861048 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
93861088 TGATATCCGGG
1 TGATATCCGGG
93861099 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:93877784 original size:2 final size:2
Alignment explanation
Indices: 93877777--93877805 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93877767 TCAAAATTCA
93877777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93877806 AGTTCATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93898904 original size:49 final size:49
Alignment explanation
Indices: 93898835--93899138 Score: 581
Period size: 49 Copynumber: 6.2 Consensus size: 49
93898825 GTACATAATA
93898835 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
93898884 ATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
93898933 ATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
93898982 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
93899031 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
93899080 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
93899129 ATATATGTGA
1 ATATATGTGA
93899139 AAGTGTATAT
Statistics
Matches: 251, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 251 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:93899138 original size:18 final size:18
Alignment explanation
Indices: 93899115--93899156 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
93899105 GACGTGATGA
93899115 ATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATAT
93899133 ATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATAT
93899151 ATGTGA
1 ATGTGA
93899157 TAAGGCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
ATGTGAAAGTGTATATAT
Found at i:93899144 original size:67 final size:67
Alignment explanation
Indices: 93899066--93899285 Score: 289
Period size: 67 Copynumber: 3.1 Consensus size: 67
93899056 GATGTGATGA
93899066 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
93899131 AT
66 AT
93899133 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
93899198 AT
66 AT
*
93899200 ATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 ATGTGA-AAGTG--T-AT-----A--T-AT--ATGTGATAAGGCCTAATGGCCGACGTGATGAAT
*
93899264 GTGAAAATGTATATAT
52 GTGAAAGTGTATATAT
93899280 ATGTGA
1 ATGTGA
93899286 TAAGGCCTAA
Statistics
Matches: 137, Mismatches: 2, Indels: 15
0.89 0.01 0.10
Matches are distributed among these distances:
67 74 0.54
68 3 0.02
69 1 0.01
70 2 0.01
75 1 0.01
77 1 0.01
78 2 0.01
80 53 0.39
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (67 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
AT
Found at i:93899149 original size:116 final size:122
Alignment explanation
Indices: 93899010--93899330 Score: 485
Period size: 116 Copynumber: 2.6 Consensus size: 122
93899000 AATGGCCGAT
*
93899010 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 GTGAT-AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
93899075 TGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA-AAGTG-T-AT-A
65 TGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGATAAG-GCTAATGA
93899130 -T-AT-ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
1 GTGATAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
*
93899192 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAAGGCCTAATGGCCGA
66 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGATAAGG-CTAAT----GA
*
93899254 TGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA
1 -GTGAT-AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA
93899319 GTGTATATATAT
64 GTGTATATATAT
93899331 ATGTGGTAAA
Statistics
Matches: 184, Mismatches: 3, Indels: 19
0.89 0.01 0.09
Matches are distributed among these distances:
116 103 0.56
117 3 0.02
118 3 0.02
119 3 0.02
124 1 0.01
126 1 0.01
127 2 0.01
129 68 0.37
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (122 bp):
GTGATAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGATAAGGCTAATGA
Found at i:93899186 original size:49 final size:49
Alignment explanation
Indices: 93899133--93899236 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
93899123 GTGTATATAT
93899133 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGA
*
93899182 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGA
93899231 ATGTGA
1 ATGTGA
93899237 TAAGGCCTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGA
Found at i:93899238 original size:31 final size:31
Alignment explanation
Indices: 93899200--93899267 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
93899190 GTGTATATAT
93899200 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
93899231 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
93899262 ATGTGA
1 ATGTGA
93899268 AAATGTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:93899284 original size:80 final size:80
Alignment explanation
Indices: 93899151--93899316 Score: 305
Period size: 80 Copynumber: 2.1 Consensus size: 80
93899141 GTGTATATAT
*
93899151 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAA
*
93899216 TGGCCGATGTGATGA
66 TGGCCGACGTGATGA
*
93899231 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAA
93899296 TGGCCGACGTGATGA
66 TGGCCGACGTGATGA
93899311 ATGTGA
1 ATGTGA
93899317 AAGTGTATAT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.28
Consensus pattern (80 bp):
ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAA
TGGCCGACGTGATGA
Found at i:93899350 original size:51 final size:49
Alignment explanation
Indices: 93899231--93899330 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
93899221 GATGTGATGA
*
93899231 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATAT
1 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATAT
*
93899280 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATAT
93899329 AT
1 AT
93899331 ATGTGGTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATAT
Found at i:93899454 original size:37 final size:37
Alignment explanation
Indices: 93899413--93899485 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
93899403 TTCCAGGTGA
93899413 GACCCAATGACTACGTGTGGAGATTATGTCCGGGTAC
1 GACCCAATGACTACGTGTGGAGATTATGTCCGGGTAC
*
93899450 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 GACCCAATGACTACGTGTGGAGATTATGTCCGGGTA
93899486 AGACTTCGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
GACCCAATGACTACGTGTGGAGATTATGTCCGGGTAC
Found at i:93902441 original size:47 final size:47
Alignment explanation
Indices: 93902365--93902629 Score: 170
Period size: 47 Copynumber: 5.6 Consensus size: 47
93902355 GGTACGATGC
* *
93902365 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACATCTAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCACACATCTAAGT
* * ***
93902413 CGATGTCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACA-C-ATCTAAGT
* * * * *
93902462 CGATGCCATGTCCCAGATAGGGCTTGCACT-G---ACACATGTCAAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACACATCT-AAGT
* * * * ** *
93902506 CGATGCCATGTCCCAAACATGTTTTACACTAGCT--TTCGTCTTAA-T
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACACATC-TAAGT
* * * *
93902551 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGT
1 -C-GATGCCATGTCCCAGACA-GGTCTTACACTGGCTCACA-CATCTAAGT
*
93902601 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
93902630 AGCATACATC
Statistics
Matches: 164, Mismatches: 39, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
43 2 0.01
44 26 0.16
45 3 0.02
46 15 0.09
47 49 0.30
48 34 0.21
49 32 0.20
50 2 0.01
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACACATCTAAGT
Found at i:93908492 original size:54 final size:54
Alignment explanation
Indices: 93908421--93908578 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 54
93908411 ATTACCAAAG
* * *
93908421 TACCCTCGATTTATAGAATTA-TCGTTTTACGCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTATAGAATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTT
* *
93908475 TACCCTCAATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
* * **** * *
93908529 TACCCTCAATTTACAAAATTACTAAAATACCATCGATTTACAAAATTACC
1 TACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACC
93908579 AAAATACCCT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 87 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:93908551 original size:27 final size:27
Alignment explanation
Indices: 93908421--93908551 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
93908411 ATTACCAAAG
93908421 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTATAGAATTACT-GTTT
* *
93908448 TACGCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
93908475 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
93908502 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * *
93908529 TACCCTCAATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
93908552 AAAATACCAT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:93908559 original size:27 final size:27
Alignment explanation
Indices: 93908529--93908775 Score: 230
Period size: 27 Copynumber: 9.2 Consensus size: 27
93908519 ATTACTGTTT
** *
93908529 TACCCTCAATTTACAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* * **
93908556 TACCATCGATTTACAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
** **
93908583 TACCCTTGATCAGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* * * *
93908610 TACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* *** *
93908636 TACCATTGGTTTGTAAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
93908663 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*
93908690 TA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAA
** * *
93908717 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCAATTTGTAAAATTACCAAAA
93908744 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
93908771 TACCC
1 TACCC
93908776 CTGATTTACA
Statistics
Matches: 182, Mismatches: 33, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 26 0.14
27 153 0.84
28 1 0.01
29 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:93908614 original size:81 final size:82
Alignment explanation
Indices: 93908529--93908801 Score: 290
Period size: 81 Copynumber: 3.4 Consensus size: 82
93908519 ATTACTGTTT
* ** * **
93908529 TACCCTC-AATTTACAAAATTACTAAAATACCATCGATTTACAAAATTACCAAAATACCCTTGAT
1 TACCCTCTAATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAAT
**
93908593 CAGTAAAATTACCAAAA
66 TTGTAAAATTACCAAAA
* * ** * *
93908610 TA-CC-CTAGTCTGTAAAATTGCTAAAATACCATTGGTTTGTAAAATTACCGAAATACCCTCAAT
1 TACCCTCTAATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAAT
93908673 TTGTAAAATTACCAAAA
66 TTGTAAAATTACCAAAA
* ** * *
93908690 TA-CCTCTAGTTTGTAAAATTACCAAAATACCA-CTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TACCCTCTAATTTACAAAATTACTAAAATACCATC-GGTTTGTAAAATTACCGAAATACCCTCAA
93908753 TTTGTAAAATTACCAAAA
65 TTTGTAAAATTACCAAAA
* *
93908771 TACCC-CTGATTTACAAAGTTAC-AGAAATACC
1 TACCCTCTAATTTACAAAATTACTA-AAATACC
93908802 CTTGACTTTC
Statistics
Matches: 163, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 67 0.41
81 93 0.57
82 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (82 bp):
TACCCTCTAATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAAT
TTGTAAAATTACCAAAA
Found at i:93908798 original size:54 final size:51
Alignment explanation
Indices: 93908529--93908803 Score: 180
Period size: 54 Copynumber: 5.1 Consensus size: 51
93908519 ATTACTGTTT
** * *
93908529 TACCCTCAATTTACAAAATTACTAAAATACCATCGATTTACAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCT-GATTTAC-AAATTA-CAAAA
** ** *
93908583 TACCCTTGATCAGTAAAATTACCAAAATACCCT-AGTCTGTA-AAATTGCTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTGA-T-T-TACAAATTAC-AAAA
* *** * *
93908636 TACCATTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTA-AAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCT-GA-TT-TACAAATTA-CAAAA
* * ** *
93908690 TA-CCTCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACC-CTGATTT-ACAAATTA-CAAAA
93908744 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATA-CCCTGATTTACAAA-TTACA-AAA
93908798 TACCCT
1 TACCCT
93908804 TGACTTTCTA
Statistics
Matches: 177, Mismatches: 29, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
52 3 0.02
53 46 0.26
54 115 0.65
55 13 0.07
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (51 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTGATTTACAAATTACAAAA
Found at i:93909008 original size:27 final size:27
Alignment explanation
Indices: 93908920--93909011 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
93908910 ACCCCTATTA
**
93908920 GGTAAAAAAACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
93908947 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
*
93908974 GGTAAAATGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
93909001 GGTAAAATGAC
1 GGTAAAATGAC
93909012 GAATGTGCCC
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
26 1 0.02
27 57 0.95
28 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:93909869 original size:54 final size:51
Alignment explanation
Indices: 93909810--93909947 Score: 201
Period size: 54 Copynumber: 2.7 Consensus size: 51
93909800 GAGGAAGTGC
* *
93909810 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTTATGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
93909862 AAAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 --AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
93909915 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
93909948 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 10 0.12
53 14 0.17
54 35 0.43
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:93909909 original size:25 final size:26
Alignment explanation
Indices: 93909810--93909947 Score: 167
Period size: 26 Copynumber: 5.3 Consensus size: 26
93909800 GAGGAAGTGC
93909810 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
93909836 AAAAGGGTTTATGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
93909862 AAAAAAGGGCTTATGCCCCAGTTTATTG
1 --AAAAGGGCTTATGCCCCAGTTTATTG
**
93909890 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
93909915 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
93909938 AAAAGAGGCT
1 AAAAG-GGCT
93909948 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.32
26 32 0.33
28 22 0.23
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:93912458 original size:49 final size:49
Alignment explanation
Indices: 93912389--93912688 Score: 528
Period size: 49 Copynumber: 6.1 Consensus size: 49
93912379 GTACATAATA
*
93912389 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
93912438 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
93912487 ATATATGTGATGAGGCCTAATGGTCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * *
93912536 ATATATGTGATGAGGCCTAATGGCTGATGTGATGAATGTGAAGATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
93912585 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
93912634 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
93912683 ATATAT
1 ATATAT
93912689 ATATGTGGTA
Statistics
Matches: 240, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 240 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:93912494 original size:27 final size:27
Alignment explanation
Indices: 93912464--93912548 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
93912454 CTAATGGCCG
93912464 ATGTGATGAATGTGAAAATGTATATAT
1 ATGTGATGAATGTGAAAATGTATATAT
** * **
93912491 ATGTGATG-A-G-GCCTAATG---GTCG
1 ATGTGATGAATGTG-AAAATGTATATAT
93912513 ATGTGATGAATGTGAAAATGTATATAT
1 ATGTGATGAATGTGAAAATGTATATAT
93912540 ATGTGATGA
1 ATGTGATGA
93912549 GGCCTAATGG
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
22 9 0.22
23 1 0.02
24 6 0.15
25 6 0.15
26 1 0.02
27 18 0.44
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAATGTATATAT
Found at i:93912814 original size:37 final size:37
Alignment explanation
Indices: 93912773--93912845 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
93912763 TTCCAGGTGA
*
93912773 GACCCGATGACTACGTGTGGAGATTATGTCTGGGTAC
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
93912810 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
93912846 AGACTTCGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
Found at i:93914484 original size:29 final size:31
Alignment explanation
Indices: 93914368--93914484 Score: 127
Period size: 31 Copynumber: 3.9 Consensus size: 31
93914358 CGTTTACAGT
* *
93914368 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTAATGA
* *
93914399 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTAATGA
* **
93914430 AAAGGCTTCAGCCCAGT-A-ACCATTAAATG-
1 AAAGGCTTCGGCCCAGTGATATGATT-AATGA
93914459 AAAGGCTTCGGCCCAGT-ATATG-TTAA
1 AAAGGCTTCGGCCCAGTGATATGATTAA
93914485 GACTAAATAG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
28 2 0.03
29 23 0.31
30 5 0.07
31 44 0.59
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTAATGA
Found at i:93918142 original size:46 final size:46
Alignment explanation
Indices: 93918092--93918264 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
93918082 TGGTTGAGCA
*
93918092 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
93918138 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
93918185 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
93918231 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93918265 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:93918248 original size:93 final size:93
Alignment explanation
Indices: 93918089--93918259 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93918079 GGATGGTTGA
* *
93918089 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
93918154 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
93918182 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
93918247 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
93918260 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93918525 original size:19 final size:20
Alignment explanation
Indices: 93918488--93918525 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
93918478 ATAAGGTGGT
93918488 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
93918508 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
93918526 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:93925958 original size:19 final size:20
Alignment explanation
Indices: 93925921--93925958 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
93925911 ATAAGGTGGT
93925921 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
93925941 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
93925959 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:93929562 original size:21 final size:21
Alignment explanation
Indices: 93929533--93929572 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93929523 TGGTTCATGG
93929533 GAAAATTTTCT-AAGTTTTCCT
1 GAAAATTTT-TAAAGTTTTCCT
*
93929554 GAAACTTTTTAAAGTTTTC
1 GAAAATTTTTAAAGTTTTC
93929573 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (21 bp):
GAAAATTTTTAAAGTTTTCCT
Found at i:93931695 original size:49 final size:49
Alignment explanation
Indices: 93931623--93931797 Score: 219
Period size: 49 Copynumber: 3.5 Consensus size: 49
93931613 CTGGTACGCA
*
93931623 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTAGACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTAGACG
* * * *
93931672 TAGTAGCCTGCACTTAGTACTACACA-CCTATTCGAAGTTATCAGGTACG-CA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA--CCAA-TTATCAGGTA-GACG
** * *
93931723 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTAGACG
93931772 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
93931798 CGTGACCTCA
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
48 2 0.02
49 60 0.56
50 6 0.06
51 36 0.34
52 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTAGACG
Found at i:93931777 original size:100 final size:100
Alignment explanation
Indices: 93931604--93931798 Score: 336
Period size: 100 Copynumber: 1.9 Consensus size: 100
93931594 CACTTGTAGC
* ** *
93931604 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTAG
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
93931669 ACGTAGTAGCCTGCACTTAGTACTACACACCTATT
66 ACGTAGTAGCCTGCACTTAGTACTACACACCTATT
* *
93931704 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
93931769 ACGTAGTAGCCTGCACTTAGTACTACACAC
66 ACGTAGTAGCCTGCACTTAGTACTACACAC
93931799 GTGACCTCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 89 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (100 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACCTATT
Found at i:93932470 original size:30 final size:30
Alignment explanation
Indices: 93932436--93932495 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
93932426 CTTTAATACG
93932436 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
** *
93932466 AACTTTTTCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
93932496 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:93939130 original size:27 final size:27
Alignment explanation
Indices: 93939091--93939170 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
93939081 TTAGAATACT
* *
93939091 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
* *
93939119 TTAGTTTGTAAAAATACTGAAATACTC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
93939146 -TCGATTTGTAAAATTACTGAAATAC
1 TTAG-TTTGTAAAATTACTGAAATAC
93939171 TTTCGACTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.04
27 36 0.80
28 7 0.16
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:93939171 original size:27 final size:27
Alignment explanation
Indices: 93939100--93939189 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
93939090 TTTAGTTTAC
* * *
93939100 TAAAATTACCGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACTCTCGA-TTTG
*
93939127 TAAAAATACTGAAATACTCTCGATTTG
1 TAAAATTACTGAAATACTCTCGATTTG
* *
93939154 TAAAATTACTGAAATACTTTCGACTTG
1 TAAAATTACTGAAATACTCTCGATTTG
93939181 TAAAATTAC
1 TAAAATTAC
93939190 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (27 bp):
TAAAATTACTGAAATACTCTCGATTTG
Found at i:93939225 original size:27 final size:27
Alignment explanation
Indices: 93939195--93939404 Score: 178
Period size: 27 Copynumber: 7.8 Consensus size: 27
93939185 ATTACCAAAG
* *
93939195 TACCCCTGATTTATAGAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
93939222 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
93939249 TACCCC-GATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* * **
93939275 TA-CCCTCAATTTACAAAATTACTATTT
1 TACCCCT-GATTTACAGAATTACCGTTT
*
93939302 TA-CCCTCGATTTACAGAATTACCATTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* * * *
93939329 TA-CCCTCAATTTATAGAATTACTGTGT
1 TACCCCT-GATTTACAGAATTACCGTTT
* * **
93939356 TACCCTTGATTTACAAAATTACTATTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
93939383 TA-CCCTCGATTTACAAAATTAC
1 TACCCCT-GATTTACAGAATTAC
93939405 TAAAATACCC
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
25 3 0.02
26 25 0.16
27 125 0.80
28 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCCTGATTTACAGAATTACCGTTT
Found at i:93939332 original size:54 final size:54
Alignment explanation
Indices: 93939198--93939406 Score: 242
Period size: 54 Copynumber: 3.9 Consensus size: 54
93939188 ACCAAAGTAC
* * * * * * **
93939198 CCCT-GATTTATAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTATTTTA
* *
93939251 CCC-CGATTTACATAATTACCGTTTTACCCTCAATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTATTTTA
* * * *
93939304 CCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTGTTA
1 CCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTATTTTA
* * * *
93939358 CCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTA
1 CCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTA
93939407 AAATACCCTT
Statistics
Matches: 133, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 47 0.35
54 86 0.65
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.40
Consensus pattern (54 bp):
CCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTATTTTA
Found at i:93939377 original size:81 final size:80
Alignment explanation
Indices: 93939219--93939404 Score: 264
Period size: 81 Copynumber: 2.3 Consensus size: 80
93939209 AGAATTATCG
* * * * * *
93939219 TTTTACCCCCGATTTACATAATTACCGTTTTACCCCGATTTACATAATTACCGTTTTACCCTCAA
1 TTTTACCCTCGATTTACAAAATTACCATTTTACCCCAATTTACAGAATTACCGTGTTACCCTCAA
93939284 TTTACAAAATTACTA
66 TTTACAAAATTACTA
* * * **
93939299 TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTGTTACCCTTG
1 TTTTACCCTCGATTTACAAAATTACCATTTTACCC-CAATTTACAGAATTACCGTGTTACCCTCA
93939364 ATTTACAAAATTACTA
65 ATTTACAAAATTACTA
93939380 TTTTACCCTCGATTTACAAAATTAC
1 TTTTACCCTCGATTTACAAAATTAC
93939405 TAAAATACCC
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 32 0.34
81 62 0.66
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.40
Consensus pattern (80 bp):
TTTTACCCTCGATTTACAAAATTACCATTTTACCCCAATTTACAGAATTACCGTGTTACCCTCAA
TTTACAAAATTACTA
Found at i:93939405 original size:27 final size:27
Alignment explanation
Indices: 93939219--93939406 Score: 225
Period size: 27 Copynumber: 7.0 Consensus size: 27
93939209 AGAATTATCG
* * **
93939219 TTTTACCCCCGATTTACATAATTACCG
1 TTTTACCCTCGATTTACAAAATTACTA
* **
93939246 TTTTACCC-CGATTTACATAATTACCG
1 TTTTACCCTCGATTTACAAAATTACTA
*
93939272 TTTTACCCTCAATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
* *
93939299 TTTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTACAAAATTACTA
* * * *
93939326 TTTTACCCTCAATTTATAGAATTACTG
1 TTTTACCCTCGATTTACAAAATTACTA
* *
93939353 TGTTACCCTTGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
93939380 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
93939407 AAATACCCTT
Statistics
Matches: 141, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 26 0.18
27 115 0.82
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAAAATTACTA
Found at i:93939413 original size:27 final size:27
Alignment explanation
Indices: 93939275--93939604 Score: 150
Period size: 27 Copynumber: 12.1 Consensus size: 27
93939265 ATTACCGTTT
* ***
93939275 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
93939302 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ****
93939329 TACCCTCAATTTATAGAATTACTGTGT
1 TACCCTCGATTTACAAAATTACTAAAA
* ***
93939356 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
93939383 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
93939410 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
93939437 TACCCATAG-TTTATAAAATTACCAAAA
1 TACCC-TCGATTTACAAAATTACTAAAA
* * *** **
93939464 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
93939491 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
93939518 TACCC-CTGATTTACAAAGTTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
* *
93939545 TATCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* *
93939574 TACCAT-TAGTTTACAAAATTACTAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
93939601 TACC
1 TACC
93939605 ATTGGTTTGT
Statistics
Matches: 247, Mismatches: 46, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.02
27 215 0.87
28 11 0.04
29 17 0.07
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:93939414 original size:54 final size:54
Alignment explanation
Indices: 93939255--93939534 Score: 231
Period size: 54 Copynumber: 5.2 Consensus size: 54
93939245 GTTTTACCCC
* * * *** *
93939255 GATTTACATAATTACCGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTC
1 GATTTACAAAATTACCATTTTACCCTCAATTTATAAAATTACTAAAATACCCTT
* * ****
93939309 GATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTGTTACCCTT
1 GATTTACAAAATTACCATTTTACCCTCAATTTATAAAATTACTAAAATACCCTT
* * *
93939363 GATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
1 GATTTACAAAATTACCATTTTACCCTCAATTTATAAAATTACTAAAATACCCTT
* ** *** * *
93939417 GGTTTGTAAAATTACCAAAATACCCAT-AGTTTATAAAATTACCAAAATACCCTT
1 GATTTACAAAATTACCATTTTACCC-TCAATTTATAAAATTACTAAAATACCCTT
* *** ** * * *
93939471 GGTTTGTGAAATTACCGA-AATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 GATTTACAAAATTACC-ATTTTACCCTCAATTTATAAAATTACTAAAATACCCTT
93939525 GATTTACAAA
1 GATTTACAAA
93939535 GTTATAGAAA
Statistics
Matches: 188, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 185 0.98
55 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (54 bp):
GATTTACAAAATTACCATTTTACCCTCAATTTATAAAATTACTAAAATACCCTT
Found at i:93939441 original size:81 final size:81
Alignment explanation
Indices: 93939283--93939534 Score: 236
Period size: 81 Copynumber: 3.1 Consensus size: 81
93939273 TTTACCCTCA
* *** * *
93939283 ATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAAT
1 ATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAAT
***** *
93939348 TACTGTGTTACCCTTG
66 TACCAAAATACCCATG
* ***
93939364 ATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAAT
1 ATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAAT
93939429 TACCAAAATACCCAT-
66 TACCAAAATACCCATG
* * *** * * *** *
93939444 AGTTTATAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAA
1 A-TTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAA
*
93939509 TTACCAAAATACCCCTG
65 TTACCAAAATACCCATG
93939526 ATTTACAAA
1 ATTTACAAA
93939535 GTTATAGAAA
Statistics
Matches: 136, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
80 1 0.01
81 134 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.35
Consensus pattern (81 bp):
ATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAAT
TACCAAAATACCCATG
Found at i:93939612 original size:27 final size:27
Alignment explanation
Indices: 93939356--93939612 Score: 160
Period size: 27 Copynumber: 9.4 Consensus size: 27
93939346 ATTACTGTGT
* ***
93939356 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
93939383 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
** *
93939410 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * * *
93939437 TACCCATAGTTTATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** **
93939464 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** ** *
93939491 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * *
93939518 TACCCCTGATTTACAAAGTTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
* *
93939545 TATCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
* *
93939574 TACCATTAGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
93939601 TACCATTGGTTT
1 TACCCTTGGTTT
93939613 GTAGATTTAC
Statistics
Matches: 186, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 159 0.85
28 8 0.04
29 18 0.10
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:93939730 original size:27 final size:27
Alignment explanation
Indices: 93939653--93939730 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
93939643 AAATGACTAA
* *
93939653 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
*
93939680 AA-AGCCCCTGTA-GAGTAAAGTGACCGT
1 AATA-CCCCTGTATG-GTAAAATGACCGT
93939707 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
93939731 GAATATGCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 2 0.05
27 38 0.90
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:93940613 original size:52 final size:49
Alignment explanation
Indices: 93940532--93940641 Score: 148
Period size: 52 Copynumber: 2.2 Consensus size: 49
93940522 GAGGAAGTGC
* * *
93940532 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCTCAGTTTATT
1 AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGCCTT-TGCCCCAG-TTATT
*
93940583 GAAAAAGGCTTATGCCCCAGTTTACTGAAAAGGCCTTTGCCCCAGTTATT
1 -AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGCCTTTGCCCCAGTTATT
*
93940633 AAAGAGGCT
1 AAAAAGGCT
93940642 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
49 8 0.15
50 5 0.09
51 7 0.13
52 33 0.62
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (49 bp):
AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGCCTTTGCCCCAGTTATT
Found at i:93940623 original size:25 final size:26
Alignment explanation
Indices: 93940532--93940629 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
93940522 GAGGAAGTGC
*
93940532 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
93940558 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
93940584 AAAAAGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
93940610 AAAAGGCCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
93940630 ATTAAAGAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 10 0.16
26 54 0.84
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:93940833 original size:42 final size:42
Alignment explanation
Indices: 93940774--93940865 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
93940764 TAGTCTCCCC
* ** *
93940774 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
93940816 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
93940858 AAATGGGC
1 AAATGGGC
93940866 CTATAGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:93940927 original size:31 final size:31
Alignment explanation
Indices: 93940889--93940967 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
93940879 CGTTTACAGT
93940889 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
** *
93940920 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
93940951 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
93940968 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGAAATGATTTATGA
Found at i:93946932 original size:29 final size:29
Alignment explanation
Indices: 93946899--93946981 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
93946889 GTGTCGAGAT
93946899 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
93946928 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
93946957 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
93946982 AAAAATACGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:93955004 original size:29 final size:29
Alignment explanation
Indices: 93954962--93955033 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
93954952 ATGGTGAGAT
93954962 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
93954991 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
93955020 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
93955034 AAGCTGGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:93970706 original size:30 final size:30
Alignment explanation
Indices: 93970651--93970781 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
93970641 ATAGTGAATC
*
93970651 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
93970680 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
93970710 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
93970738 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
93970768 CGCACACTTAGTGC
1 CGCACACTTAGTGC
93970782 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:93970761 original size:58 final size:58
Alignment explanation
Indices: 93970650--93970781 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
93970640 TATAGTGAAT
* * * * *
93970650 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
93970709 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
93970767 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
93970782 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:93974674 original size:26 final size:26
Alignment explanation
Indices: 93974644--93974699 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
93974634 TGAAATTCCC
93974644 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93974670 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93974696 ATCA
1 ATCA
93974700 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93976449 original size:40 final size:39
Alignment explanation
Indices: 93976404--93976533 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
93976394 CGGAATATAA
93976404 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
93976444 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
93976484 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
93976524 CCGGATATAA
1 CCGGATATAA
93976534 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:93976548 original size:40 final size:40
Alignment explanation
Indices: 93976420--93976571 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
93976410 ATAACCATGT
* * *
93976420 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
93976460 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
93976500 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
93976540 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
93976572 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:93976554 original size:80 final size:80
Alignment explanation
Indices: 93976420--93976569 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
93976410 ATAACCATGT
*
93976420 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
93976484 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
93976500 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
93976563 CCCGGAT
64 CCCGGAT
93976570 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:93978356 original size:22 final size:22
Alignment explanation
Indices: 93978330--93978383 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
93978320 CATGTTAATG
*
93978330 ACACGGGCGTGTCACATCAGCC
1 ACACGGGCGTGTCACATAAGCC
*
93978352 ACACGGGAGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
93978374 ACACGGGCGT
1 ACACGGGCGT
93978384 ATGGTACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.31, G:0.30, T:0.13
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:93981288 original size:39 final size:39
Alignment explanation
Indices: 93981207--93981369 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
93981197 TATGGTAACC
* *
93981207 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
93981247 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
93981286 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
93981325 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
93981364 CGCACA
1 CGCACA
93981370 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:93986251 original size:40 final size:40
Alignment explanation
Indices: 93986187--93986376 Score: 208
Period size: 39 Copynumber: 4.8 Consensus size: 40
93986177 GCTACTCGTT
* * * ***
93986187 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
93986227 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* ** *
93986267 CAATTGCCTTCGGG-CTTAGCCCGGATATCA-TGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
93986305 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
93986344 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
93986377 TTCGCACATT
Statistics
Matches: 133, Mismatches: 16, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
38 35 0.26
39 53 0.40
40 45 0.34
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:93986353 original size:39 final size:39
Alignment explanation
Indices: 93986223--93986384 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
93986213 TATGGTAACC
* *
93986223 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
**
93986263 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA-TGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
93986301 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
93986340 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
93986379 CGCACA
1 CGCACA
93986385 TTCATACACA
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
38 35 0.31
39 60 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:93990212 original size:29 final size:28
Alignment explanation
Indices: 93990178--93990280 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
93990168 TAATCGATCA
*
93990178 CGCACACTTAGTGCCATGTGATTTGAGCT
1 CGCACACTTAGTGCCATAT-ATTTGAGCT
* * *
93990207 CGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATAT-ATTTGAGCT
93990236 CGCACACTTAGTGCCATACT-TTTCGAGCT
1 CGCACACTTAGTGCCATA-TATTT-GAGCT
*
93990265 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
93990281 ATCTTGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.94
30 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTGAGCT
Found at i:94005500 original size:40 final size:40
Alignment explanation
Indices: 94005445--94005539 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
94005435 TACTCGGATG
* *
94005445 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACT
94005485 ATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACT
94005525 ATATCCGGGCTAAGT
1 ATATCCGGGCTAAGT
94005540 GACTATATCC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACT
Found at i:94005542 original size:19 final size:19
Alignment explanation
Indices: 94005518--94005558 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
94005508 AATTTATGCT
94005518 AGTGACTATATCCGGGCTA
1 AGTGACTATATCCGGGCTA
94005537 AGTGACTATATCCGGGCTA
1 AGTGACTATATCCGGGCTA
94005556 AGT
1 AGT
94005559 CCCGAAGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (19 bp):
AGTGACTATATCCGGGCTA
Found at i:94005550 original size:59 final size:59
Alignment explanation
Indices: 94005478--94005597 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
94005468 CATTTGTGCT
94005478 AGTGACTATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACTATATCCGGGCTA
1 AGTGACTATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACTATATCCGGGCTA
* * *
94005537 AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTGTATCCGGGCTA
1 AGTGACTATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACTATATCCGGGCTA
94005596 AG
1 AG
94005598 ACTCGAAGGC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (59 bp):
AGTGACTATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACTATATCCGGGCTA
Found at i:94005566 original size:99 final size:98
Alignment explanation
Indices: 94005445--94005635 Score: 296
Period size: 99 Copynumber: 1.9 Consensus size: 98
94005435 TACTCGGATG
*
94005445 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGAA
94005510 TTTATGCT-AG-TGACTATATCCGGGCTAAGTGACT
66 TTTATG-TGAGTTG-CTATATCC-GGCTAAGTGACT
* * *
94005544 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTGTATCCGGGCTAAGACTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGAA
*
94005609 TTTGTGTGAGTTGCTATATCCGGCTAA
66 TTTATGTGAGTTGCTATATCCGGCTAA
94005636 TTCCCGAAGG
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
98 7 0.08
99 76 0.89
100 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (98 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGAA
TTTATGTGAGTTGCTATATCCGGCTAAGTGACT
Found at i:94005645 original size:39 final size:40
Alignment explanation
Indices: 94005537--94005645 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
94005527 ATCCGGGCTA
94005537 AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT
1 AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT
* * *
94005577 AGTGACTGTATCCGGGCTAAGACTCGAAGGCATTTGTG-T
1 AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT
*
94005616 GAGTTG-CTATATCC-GGCTAATTCCCGAAGG
1 -AG-TGACTATATCCGGGCTAAGTCCCGAAGG
94005646 TACTTGGGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 14 0.23
40 44 0.73
41 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT
Found at i:94009535 original size:33 final size:33
Alignment explanation
Indices: 94009498--94009589 Score: 84
Period size: 33 Copynumber: 2.7 Consensus size: 33
94009488 CATTTTTTCA
94009498 ATTTTCTCTTCCTTTTCTTCTTTTTCTTTATT-G-
1 ATTTTCTCTTCCTTTTCTT-TTTTTCTTT-TTCGT
*
94009531 ATTTTCTTTTCAC-TTTCTTTTATTTTCTTTTTCGT
1 ATTTTCTCTTC-CTTTTC-TTT-TTTTCTTTTTCGT
*
94009566 ATTTTTCTCTT-CTTTTATTTTTTT
1 A-TTTTCTCTTCCTTTTCTTTTTTT
94009590 ACAGTTTTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
33 21 0.43
34 16 0.33
35 4 0.08
36 8 0.16
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (33 bp):
ATTTTCTCTTCCTTTTCTTTTTTTCTTTTTCGT
Found at i:94011802 original size:2 final size:2
Alignment explanation
Indices: 94011797--94011821 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94011787 AATTTTTTTG
94011797 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
94011822 CTATTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94017259 original size:40 final size:38
Alignment explanation
Indices: 94017129--94017276 Score: 111
Period size: 40 Copynumber: 3.8 Consensus size: 38
94017119 TGAGAAATTG
* * *
94017129 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * * *
94017169 AAT-TATAACCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
94017206 AGTGGCTACATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
94017246 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
94017277 CTTGGTGCGG
Statistics
Matches: 84, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
37 4 0.05
38 2 0.02
39 3 0.04
40 75 0.89
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:94020496 original size:6 final size:6
Alignment explanation
Indices: 94020485--94020534 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
94020475 TCTGTACCTG
* *
94020485 ACTGTT ACTGTT ACTGTT ACTGTT ATTGTT ATTGTT ACTGTT ACTGTT
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT
94020533 AC
1 AC
94020535 CCTTACGGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (6 bp):
ACTGTT
Found at i:94022093 original size:24 final size:24
Alignment explanation
Indices: 94022064--94022111 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
94022054 ATTGTTTAAG
94022064 ATAATTTATTTAAAATGTGATTTT
1 ATAATTTATTTAAAATGTGATTTT
94022088 ATAATTTATTTAAAATGTGATTTT
1 ATAATTTATTTAAAATGTGATTTT
94022112 GAATATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (24 bp):
ATAATTTATTTAAAATGTGATTTT
Found at i:94022120 original size:24 final size:24
Alignment explanation
Indices: 94022066--94022120 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
94022056 TGTTTAAGAT
*
94022066 AATTTATTTAAAATGTGATTTTAT
1 AATTTATTTAAAATGTGATTTTAG
94022090 AATTTATTTAAAATGTGATTTT-G
1 AATTTATTTAAAATGTGATTTTAG
94022113 AATATTAT
1 AAT-TTAT
94022121 GAGTATTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (24 bp):
AATTTATTTAAAATGTGATTTTAG
Found at i:94023150 original size:40 final size:40
Alignment explanation
Indices: 94023095--94023195 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
94023085 TATGTGCATA
94023095 GCATTCGTGCGGGTTATTACAA-CAGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTACAATC-GGGTTAAGTCCCGAAG
*
94023135 GCATTCGTGCGGGTTATTATAATCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTACAATCGGGTTAAGTCCCGAAG
* *
94023175 GCATTCGTGCTGGTTGTTACA
1 GCATTCGTGCGGGTTATTACA
94023196 TCCGAGCCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 55 0.98
41 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTACAATCGGGTTAAGTCCCGAAG
Found at i:94024809 original size:22 final size:22
Alignment explanation
Indices: 94024781--94024828 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
94024771 TGGCATGGGT
*
94024781 GTGTCACATCATCCACACGGGC
1 GTGTCACATCAGCCACACGGGC
94024803 GTGTCACATCAGCCACACGGGC
1 GTGTCACATCAGCCACACGGGC
94024825 GTGT
1 GTGT
94024829 GGTACTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (22 bp):
GTGTCACATCAGCCACACGGGC
Found at i:94028679 original size:28 final size:29
Alignment explanation
Indices: 94028647--94028745 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
94028637 ATAATAAGCC
*
94028647 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
94028675 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
94028703 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
94028732 CGCACACTTAGTGC
1 CGCACACTTAGTGC
94028746 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:94032833 original size:15 final size:15
Alignment explanation
Indices: 94032813--94032841 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94032803 TATATTCTAA
94032813 CTATGATTAAAATAG
1 CTATGATTAAAATAG
94032828 CTATGATTAAAATA
1 CTATGATTAAAATA
94032842 ATAAGAATAA
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:0.07, G:0.10, T:0.34
Consensus pattern (15 bp):
CTATGATTAAAATAG
Found at i:94042781 original size:15 final size:15
Alignment explanation
Indices: 94042736--94042798 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
94042726 CAAACCTTAG
*
94042736 ATTATTCATTATTTTT
1 ATTA-TCATTATTATT
94042752 ATTATCATTCA-TATT
1 ATTATCATT-ATTATT
*
94042767 ATTCTCATTATTATT
1 ATTATCATTATTATT
* * *
94042782 AGTATTATTATTTTT
1 ATTATCATTATTATT
94042797 AT
1 AT
94042799 ATCCCATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
14 1 0.03
15 32 0.84
16 5 0.13
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTATCATTATTATT
Found at i:94045141 original size:44 final size:42
Alignment explanation
Indices: 94045087--94045292 Score: 141
Period size: 44 Copynumber: 4.8 Consensus size: 42
94045077 CCAATATGTG
94045087 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAACTTATGA
1 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAA-TT-TGA
* ** * * * * *
94045131 TTTTCATGTAAGACCACATCCGGAATGTTGGCATTGACTTATGA
1 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCA-TCAATT-TGA
* * * * *
94045175 TTTACGTGTAAGACCACGTCCGGAACGTTGGCATCGTATTTGA
1 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATC-AATTTGA
* *
94045218 -TTTCGTGTAAGACCCTGTCTGGGACAG-TGGCATTGATATTTGA
1 TTTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA-TCA-ATTTGA
** * *
94045261 --TTAATGTAAAACCATGTTTGGGACGTTGGCAT
1 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
94045293 TGTACGAGCT
Statistics
Matches: 129, Mismatches: 27, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 49 0.38
43 12 0.09
44 64 0.50
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAATTTGA
Found at i:94045258 original size:43 final size:44
Alignment explanation
Indices: 94045091--94045262 Score: 142
Period size: 44 Copynumber: 4.0 Consensus size: 44
94045081 TATGTGTTTT
* * * * *
94045091 CGTGTAAGACCATGTCTGGGACGTTGGCA-TCA-ACTTATGATTTT
1 CGTGTAAGACCACGTCCGGAACGTTGGCATTGATA-TT-TGATTTA
* * * *
94045135 CATGTAAGACCACATCCGGAATGTTGGCATTGACT-TATGATTTA
1 CGTGTAAGACCACGTCCGGAACGTTGGCATTGA-TATTTGATTTA
*
94045179 CGTGTAAGACCACGTCCGGAACGTTGGCATCG-TATTTGATTT-
1 CGTGTAAGACCACGTCCGGAACGTTGGCATTGATATTTGATTTA
* *
94045221 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGATT
1 CGTGTAAGACCAC-GTCCGGAAC-GTTGGCATTGATATTTGATT
94045263 AATGTAAAAC
Statistics
Matches: 104, Mismatches: 17, Indels: 15
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.25
43 17 0.16
44 57 0.55
45 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCACGTCCGGAACGTTGGCATTGATATTTGATTTA
Found at i:94046325 original size:24 final size:25
Alignment explanation
Indices: 94046266--94046325 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 25
94046256 ATAATCAATT
*
94046266 TTTATGCAAATATAATAAACAAATAA
1 TTTATG-AAATAAAATAAACAAATAA
*
94046292 --TAT-ATA-AAAAT-AACAAATAA
1 TTTATGAAATAAAATAAACAAATAA
94046312 TTTATGAAATAAAA
1 TTTATGAAATAAAA
94046326 ATTAACCTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
20 9 0.33
21 4 0.15
22 5 0.19
23 2 0.07
24 7 0.26
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (25 bp):
TTTATGAAATAAAATAAACAAATAA
Found at i:94046948 original size:24 final size:24
Alignment explanation
Indices: 94046898--94046950 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
94046888 ATGTATAATA
** *
94046898 ATATAAATAATATAACGAATAATT
1 ATATAAATAATATAAAAAATAAAT
94046922 ATATAAATAA-ATAAAAAATAAGAT
1 ATATAAATAATATAAAAAATAA-AT
94046946 ATATA
1 ATATA
94046951 CCATTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
ATATAAATAATATAAAAAATAAAT
Found at i:94048611 original size:44 final size:44
Alignment explanation
Indices: 94048563--94049113 Score: 816
Period size: 44 Copynumber: 12.5 Consensus size: 44
94048553 GCTCAAGAAC
* * * *
94048563 GCCAAATCTGTTATCTCCGATCTGCTCTCTGATAATACAAAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
94048607 GCCAAATCTCCTATCTTTGATTTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
94048651 GCTAAATCTGCTATCTTCGATCTGCTTTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
94048695 GCCAAATCCG-TGATCTTCGATCTGTTCTCTGACAATACAGAGAT
1 GCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
94048739 ACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
94048783 GCCAAATCTGCTATCTTTGATCTGCTCTGTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
*
94048827 GCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
94048871 GCCAAATCTGCTATCTTCGATCTGCTTTCTGACAATATAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
94048915 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
94048959 GCCAAATCTGCTATCTTCTATCTGCTCTCTGACAATACAGATAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
94049003 GCCAAATTTTCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * * *
94049047 GCCAAATATGCTATCTTTGATCTGCTCTCTGATAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
94049091 ACCAAATATGCTATCTTCAATCT
1 GCCAAATCTGCTATCTTCGATCT
94049114 ACATTGTCCT
Statistics
Matches: 457, Mismatches: 48, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 1 0.00
44 455 1.00
45 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
Found at i:94061511 original size:24 final size:24
Alignment explanation
Indices: 94061479--94061534 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
94061469 AAAATTTATA
*
94061479 AATAAAATGTATAATAATATAAAT
1 AATAAAATGAATAATAATATAAAT
* * *
94061503 AATATAATGAATAATTATATAAAAA
1 AATAAAATGAATAATAATAT-AAAT
94061528 AATAAAA
1 AATAAAA
94061535 AAATAAGATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (24 bp):
AATAAAATGAATAATAATATAAAT
Found at i:94068229 original size:40 final size:40
Alignment explanation
Indices: 94068122--94068337 Score: 230
Period size: 39 Copynumber: 5.5 Consensus size: 40
94068112 CGGATGATAA
* * *
94068122 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-T
* * *
94068162 TCGGGCTAA-ACCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
*
94068201 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGA-A-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT-ATAT
* *
94068240 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
94068280 CCGGG-TCAAGTCCCGAAGGCATTTGAGCAAG-TAGTTATAT
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
* *
94068320 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
94068338 TACTTGGGTT
Statistics
Matches: 150, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 81 0.54
40 67 0.45
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
Found at i:94068255 original size:79 final size:78
Alignment explanation
Indices: 94068118--94068302 Score: 239
Period size: 79 Copynumber: 2.3 Consensus size: 78
94068108 TATTCGGATG
* * *
94068118 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAACCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAA-TCCGGGCTAAACCCGAAGGCAA
*
94068183 TTGTGCGAGTTATT
65 TTGTGCGAGTTACT
* * * *
94068197 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGAA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACT-AATCCGGGCTAA-ACCCGAAGGCA
*
94068261 TTTGTGCGAGTTACT
64 ATTGTGCGAGTTACT
94068276 ATAACCGGG-TCAAGTCCCGAAGGCATT
1 ATAACCGGGCT-AAGTCCCGAAGGCATT
94068303 TGAGCAAGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 9 0.10
79 82 0.88
80 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATCCGGGCTAAACCCGAAGGCAAT
TGTGCGAGTTACT
Found at i:94068326 original size:79 final size:77
Alignment explanation
Indices: 94068118--94068337 Score: 230
Period size: 79 Copynumber: 2.8 Consensus size: 77
94068108 TATTCGGATG
* * * * *
94068118 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAACCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGT-AGTTATATCCGGCTAATCCCGAAGGCAA
*
94068183 TTGTGCGAGTTATT
64 TTGTGCGAGTTACT
* * *
94068197 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGC-G-AGTTATTGAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTA-T-ATCC-GGCTAA-TCCCGAAGGC
*
94068260 ATTTGTGCGAGTTACT
62 AATTGTGCGAGTTACT
* *
94068276 ATAACCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGC-AGTAGTTATATCCGGCT-AATCCCGAAGG
94068338 TACTTGGGTT
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
75 3 0.03
76 1 0.01
77 2 0.02
78 7 0.06
79 92 0.79
80 5 0.04
81 2 0.02
82 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTATATCCGGCTAATCCCGAAGGCAATT
GTGCGAGTTACT
Found at i:94081175 original size:30 final size:30
Alignment explanation
Indices: 94081139--94081269 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
94081129 GACAAGATTG
* * * * *
94081139 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
94081169 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
94081197 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
94081227 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
94081256 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
94081270 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:94081230 original size:58 final size:58
Alignment explanation
Indices: 94081139--94081269 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
94081129 GACAAGATTG
* * * * * *
94081139 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
94081197 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
94081256 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
94081270 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:94094133 original size:27 final size:26
Alignment explanation
Indices: 94094085--94094144 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
94094075 GCGAGGCTGC
*
94094085 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
94094112 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
94094138 CAGATAT
1 CAGATAT
94094145 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:94096701 original size:46 final size:46
Alignment explanation
Indices: 94096648--94096823 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94096638 TATTTGGGCA
94096648 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
94096694 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
94096741 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
94096787 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94096824 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:94096803 original size:93 final size:93
Alignment explanation
Indices: 94096644--94096815 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94096634 GGGATATTTG
* *
94096644 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94096709 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
94096737 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94096802 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94096816 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:94099792 original size:15 final size:15
Alignment explanation
Indices: 94099772--94099840 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
94099762 GTATCTTGGG
94099772 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
94099787 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
94099802 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
94099817 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
94099832 TTTCTTTAT
1 TTTCTTTAT
94099841 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:94099841 original size:30 final size:30
Alignment explanation
Indices: 94099763--94099850 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
94099753 CATAGTATCG
* * * *
94099763 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
94099793 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
94099823 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
94099851 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:94102284 original size:46 final size:46
Alignment explanation
Indices: 94102231--94102406 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94102221 TATTTGGGCA
94102231 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
94102277 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
94102324 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
94102370 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94102407 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:94102386 original size:93 final size:93
Alignment explanation
Indices: 94102227--94102398 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94102217 GGGATATTTG
* *
94102227 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94102292 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
94102320 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94102385 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94102399 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:94107126 original size:13 final size:13
Alignment explanation
Indices: 94107105--94107146 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
94107095 TGATTTAATC
94107105 GCACACGGGCGTG
1 GCACACGGGCGTG
*
94107118 GCACGCGGGCGTG
1 GCACACGGGCGTG
*
94107131 GTACACGGGCGTG
1 GCACACGGGCGTG
94107144 GCA
1 GCA
94107147 AACCAGCGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.14, C:0.29, G:0.48, T:0.10
Consensus pattern (13 bp):
GCACACGGGCGTG
Found at i:94107155 original size:26 final size:26
Alignment explanation
Indices: 94107107--94107156 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
94107097 ATTTAATCGC
** **
94107107 ACACGGGCGTGGCACGCGGGCGTGGT
1 ACACGGGCGTGGCAAACCAGCGTGGT
94107133 ACACGGGCGTGGCAAACCAGCGTG
1 ACACGGGCGTGGCAAACCAGCGTG
94107157 TCCCTGTCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.18, C:0.28, G:0.44, T:0.10
Consensus pattern (26 bp):
ACACGGGCGTGGCAAACCAGCGTGGT
Found at i:94111339 original size:55 final size:55
Alignment explanation
Indices: 94111239--94111370 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
94111229 GTGGGCAAAT
* * ** * *
94111239 CTACCAAAATAACACGAGTGTGTGACACGCCCGTGCCGAGCAACCATGGAAGAAC
1 CTACCAAAATAACACGGGCGTACGACACGCCCATGCCGAGAAACCATGGAAGAAC
* ** **
94111294 CTACCAAAACAACACGGGCGTACGACACGCCCATGCCTTGAAACCATGGCCGAAC
1 CTACCAAAATAACACGGGCGTACGACACGCCCATGCCGAGAAACCATGGAAGAAC
** *
94111349 CTGTCAAATTAACACGGGCGTA
1 CTACCAAAATAACACGGGCGTA
94111371 GGCCTTCATA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (55 bp):
CTACCAAAATAACACGGGCGTACGACACGCCCATGCCGAGAAACCATGGAAGAAC
Found at i:94124146 original size:25 final size:25
Alignment explanation
Indices: 94124104--94124152 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
94124094 CTTACCAAAA
* *
94124104 TACAAAATCGATGAATAGGAATGAC
1 TACAAAAACGATGAATAGCAATGAC
94124129 TACAAAAACGAT-AGATAGCAATGA
1 TACAAAAACGATGA-ATAGCAATGA
94124153 AGGGAAAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (25 bp):
TACAAAAACGATGAATAGCAATGAC
Found at i:94126064 original size:26 final size:27
Alignment explanation
Indices: 94126035--94126087 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
94126025 ATATCGAAAA
*
94126035 CATATTAGGAAA-GAAAGACTTTGTGG
1 CATAATAGGAAAGGAAAGACTTTGTGG
* * *
94126061 CATAATATGAAAGGAATGCCTTTGTGG
1 CATAATAGGAAAGGAAAGACTTTGTGG
94126088 AAAACTCCGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (27 bp):
CATAATAGGAAAGGAAAGACTTTGTGG
Found at i:94126102 original size:27 final size:27
Alignment explanation
Indices: 94126072--94126141 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
94126062 ATAATATGAA
*
94126072 AGGAATGCCTTTGTGGAAAACTCCGTT
1 AGGAATGCCTTTGTGGAAAACTCCATT
* *
94126099 AGGAATACCTTTATGGAAAACTCCATT
1 AGGAATGCCTTTGTGGAAAACTCCATT
*
94126126 AGGAATGCCTTCGTGG
1 AGGAATGCCTTTGTGG
94126142 TGTACTCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (27 bp):
AGGAATGCCTTTGTGGAAAACTCCATT
Found at i:94128597 original size:33 final size:33
Alignment explanation
Indices: 94128555--94128620 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
94128545 ACCACGTCTT
* *
94128555 TCATTTACTTATTGAACCATTCGAAATACTATA
1 TCATTTACTTATTGAACCAATCAAAATACTATA
94128588 TCATTTACTTATTGAACCAATCAAAATACTATA
1 TCATTTACTTATTGAACCAATCAAAATACTATA
94128621 GGATACATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (33 bp):
TCATTTACTTATTGAACCAATCAAAATACTATA
Found at i:94129445 original size:21 final size:20
Alignment explanation
Indices: 94129417--94129455 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
94129407 CAAAACTTGT
94129417 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
94129437 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
94129456 CAAAATACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:94131610 original size:49 final size:48
Alignment explanation
Indices: 94131484--94131756 Score: 381
Period size: 49 Copynumber: 5.7 Consensus size: 48
94131474 CCCTTCGGGA
* * * * *
94131484 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
94131531 CCTATCACATA-TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94131578 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94131627 CTTATCACATATGTATACGCTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94131675 CTTATCACATATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
94131724 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA-TTATACACTTTCACATTCATC
94131757 GCGTAAAATC
Statistics
Matches: 209, Mismatches: 12, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
47 51 0.24
48 47 0.22
49 110 0.53
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:94131692 original size:97 final size:96
Alignment explanation
Indices: 94131484--94131756 Score: 390
Period size: 97 Copynumber: 2.8 Consensus size: 96
94131474 CCCTTCGGGA
* * * * * * *
94131484 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATA-TATAC
1 CTTATCACATATTATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTATAC
*
94131547 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94131578 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATGTAT
1 CTTATCACATAT-TATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT-TAT
*
94131643 ACGCTTTCACATTCA-CACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
94131675 CTTATCACATATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATTTAT
1 CTTATCACATAT-TATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-TTAT
*
94131740 ACACATTCACATTCATC
64 ACACTTTCACATTCATC
94131757 GCGTAAAATC
Statistics
Matches: 160, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
94 10 0.06
95 1 0.01
96 40 0.25
97 90 0.56
98 19 0.12
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (96 bp):
CTTATCACATATTATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:94141058 original size:31 final size:32
Alignment explanation
Indices: 94140978--94141061 Score: 138
Period size: 31 Copynumber: 2.7 Consensus size: 32
94140968 TTAGTCTTGA
*
94140978 CATAT-ACTAGGCCGAAG-CTTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCCATAAAT
94141008 CATATCACTGGGCCGAAGCCTTTT-CATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCCATAAAT
94141039 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
94141062 ATTTCAATAT
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
30 5 0.10
31 41 0.80
32 5 0.10
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (32 bp):
CATATCACTGGGCCGAAGCCTTTTCCATAAAT
Found at i:94141280 original size:24 final size:24
Alignment explanation
Indices: 94141242--94141325 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
94141232 CTAGAGGCCT
*
94141242 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACCGGGGCAA
*
94141266 ATCCCTTTCTAATAAACCGGGGCAA
1 AGCCCTTT-TAATAAACCGGGGCAA
** * *
94141291 AGCCCTTTTCGGTAAACAGGGGCAG
1 AGCCCTTTT-AATAAACCGGGGCAA
94141316 AGCCCTTTTA
1 AGCCCTTTTA
94141326 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
23 4 0.08
24 8 0.16
25 37 0.76
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (24 bp):
AGCCCTTTTAATAAACCGGGGCAA
Found at i:94142163 original size:27 final size:26
Alignment explanation
Indices: 94142133--94142209 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
94142123 AGGCATATTC
*
94142133 GTCATTTTACCATATAAGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* * *
94142160 GTCACTTTACCCTACAGGGGT-TTATG
1 GTCATTTTA-CCTATAGGGGTATTACG
*
94142186 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
94142210 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
25 4 0.10
26 17 0.43
27 17 0.43
28 2 0.05
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:94142279 original size:26 final size:27
Alignment explanation
Indices: 94142250--94142300 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
94142240 GTAAATCTAC
94142250 AAACCAA-GGTATTTC-AGTAATTTTGT
1 AAACCAATGGTATTTCTA-TAATTTTGT
94142276 AAACCAATGGTATTTCTATAATTTT
1 AAACCAATGGTATTTCTATAATTTT
94142301 TAGAAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.30
27 15 0.65
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (27 bp):
AAACCAATGGTATTTCTATAATTTTGT
Found at i:94142352 original size:27 final size:27
Alignment explanation
Indices: 94142312--94142435 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
94142302 AGAAAGTTAA
* **
94142312 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
*
94142339 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
94142365 AGGGTATTTCGGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAATCAG
* **
94142393 TGGTATTCCGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
94142420 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
94142436 CTATCCTACA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.02
27 78 0.96
28 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:94142452 original size:54 final size:54
Alignment explanation
Indices: 94142332--94142477 Score: 147
Period size: 54 Copynumber: 2.7 Consensus size: 54
94142322 GTAATTTTGT
* *
94142332 AAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAC
1 AAATCAGGGGTATTTCGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCAC
* * *
94142386 AAATCAGTGGTATTCCGGTAATTTTACAAACTAG-GGGTATTTTGGTAA-TTCTATC
1 AAATCAGGGGTATTTCGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTC-A-C
** * * *
94142441 CTA-CAGGGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 AAATCAGGGGTATTTCGGTAATTTTACAAATAGAGGGTA
94142478 AAATGGTAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
52 2 0.03
53 10 0.13
54 60 0.79
55 4 0.05
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (54 bp):
AAATCAGGGGTATTTCGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCAC
Found at i:94142475 original size:27 final size:26
Alignment explanation
Indices: 94142333--94142475 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 26
94142323 TAATTTTGTA
* *
94142333 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTCGGTAATTTCAC
*
94142359 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 -AATCAG-GGGTATTTCGGTAATTTCAC
* * *
94142386 AAATCAGTGGTATTCCGGTAATTTTAC
1 -AATCAGGGGTATTTCGGTAATTTCAC
* *
94142413 AAACTAGGGGTATTTTGGTAA-TTCTATC
1 AATC-AGGGGTATTTCGGTAATTTC-A-C
* *
94142441 -CTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CAGGGGTATTTCGGTAATTTCAC
94142467 AATCGAGGG
1 AATC-AGGG
94142476 TAAAATGGTA
Statistics
Matches: 90, Mismatches: 17, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
26 8 0.09
27 76 0.84
28 6 0.07
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (26 bp):
AATCAGGGGTATTTCGGTAATTTCAC
Found at i:94142501 original size:27 final size:27
Alignment explanation
Indices: 94142467--94142664 Score: 281
Period size: 27 Copynumber: 7.3 Consensus size: 27
94142457 GTAATTTCAC
*
94142467 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
94142494 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* *
94142521 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
94142548 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
94142575 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
94142602 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
94142629 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
94142656 AATCGAGGG
1 AATCGAGGG
94142665 CATTTCAGTA
Statistics
Matches: 153, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 151 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:94142684 original size:81 final size:81
Alignment explanation
Indices: 94142467--94142664 Score: 335
Period size: 81 Copynumber: 2.4 Consensus size: 81
94142457 GTAATTTCAC
* *
94142467 AATCGAGGGTAAAATGGTAATTTTATAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATAGTAATTTTGTAAATCGAGGGT
*
94142531 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTATA
*
94142548 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
94142613 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
*
94142629 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
94142665 CATTTCAGTA
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
81 110 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTATA
Found at i:94158860 original size:25 final size:25
Alignment explanation
Indices: 94158832--94158885 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
94158822 TTCAAAAATA
94158832 AAATAAAAGAAGTGTAGTTTTATAT
1 AAATAAAAGAAGTGTAGTTTTATAT
***
94158857 AAATTTTAGAAGTGTAGTTTTATAT
1 AAATAAAAGAAGTGTAGTTTTATAT
94158882 AAAT
1 AAAT
94158886 TTTACTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (25 bp):
AAATAAAAGAAGTGTAGTTTTATAT
Found at i:94158886 original size:25 final size:25
Alignment explanation
Indices: 94158839--94158889 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
94158829 ATAAAATAAA
94158839 AGAAGTGTAGTTTTATATAAATTTT
1 AGAAGTGTAGTTTTATATAAATTTT
94158864 AGAAGTGTAGTTTTATATAAATTTT
1 AGAAGTGTAGTTTTATATAAATTTT
94158889 A
1 A
94158890 CTTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
AGAAGTGTAGTTTTATATAAATTTT
Found at i:94160800 original size:40 final size:40
Alignment explanation
Indices: 94160741--94160867 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
94160731 CGGAATACAA
* *
94160741 CCGGATATAACCACGTGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
* *
94160781 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
* * *
94160821 CCGGAT-GTAGC-CGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAGAACCACG-T-GCACGAA-TGCCTTCGGGTCTTAGC
94160861 CCGGATA
1 CCGGATA
94160868 TAATTTCCAG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 5 0.07
40 68 0.92
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
Found at i:94166185 original size:28 final size:29
Alignment explanation
Indices: 94166117--94166190 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
94166107 GGTTGAGAGA
* * *
94166117 ATGGCACTAAGTGTGAGGGCTTGAAATGC
1 ATGGCACTAAGTGTGCGAGCTTGAAATAC
94166146 ATGGCACTAAGTGTGCGAG-TT-AAAGTAC
1 ATGGCACTAAGTGTGCGAGCTTGAAA-TAC
94166174 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
94166191 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 3 0.07
28 21 0.51
29 17 0.41
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTTGAAATAC
Found at i:94166231 original size:2 final size:2
Alignment explanation
Indices: 94166226--94166256 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
94166216 GCGAACCCAC
*
94166226 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94166257 TTTCTATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:94174920 original size:37 final size:36
Alignment explanation
Indices: 94174867--94174956 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 36
94174857 TATAAAAGAA
94174867 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
*
94174904 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
94174940 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
94174957 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
36 11 0.22
37 38 0.78
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:94175107 original size:49 final size:49
Alignment explanation
Indices: 94175052--94175311 Score: 429
Period size: 49 Copynumber: 5.4 Consensus size: 49
94175042 TTTTACATTA
94175052 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
94175101 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
94175150 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
94175199 G----TAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
94175244 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
94175293 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
94175312 CATATATGTA
Statistics
Matches: 201, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
45 44 0.22
49 157 0.78
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Done.