Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 44 of 311
Found at i:12610847 original size:21 final size:19
Alignment explanation
Indices: 12610814--12610858 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
12610804 TTCCTCTCTC
*
12610814 TTTGCTTCGTTTGTTTGTA
1 TTTGCTTCGTTTGTATGTA
*
12610833 TTTGCTATGCGTTTGTATGTT
1 TTTGCT-T-CGTTTGTATGTA
12610854 TTTGC
1 TTTGC
12610859 AGGTACGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 1 0.05
21 15 0.68
ACGTcount: A:0.07, C:0.11, G:0.22, T:0.60
Consensus pattern (19 bp):
TTTGCTTCGTTTGTATGTA
Found at i:12638212 original size:75 final size:75
Alignment explanation
Indices: 12638129--12638486 Score: 457
Period size: 75 Copynumber: 4.8 Consensus size: 75
12638119 AAGTGAGTCT
* * * * * *
12638129 AGCTCTAGTTGGATTAACCAACAATATTTGTACCTAGTGCTAGTTGGATGAACCGAAGATAATGA
1 AGCTCTAGTTGGATTAACCAACAATATTTGCACCCAGTGCTAGTCGGATAAACCGACGATAATAA
*
12638194 TTTTGAGCCC
66 TTGTGAGCCC
* *
12638204 AGCTCTAGTTGGATTAACCAACAATATTTGCACCCAGTGCTAGTCGGATAAATCGACGATAATGA
1 AGCTCTAGTTGGATTAACCAACAATATTTGCACCCAGTGCTAGTCGGATAAACCGACGATAATAA
12638269 TTGTGAGCCC
66 TTGTGAGCCC
* *
12638279 AGCTCTAGTTGGATTAACCAACAATATTTGCACCCTGTGCTAGTCGGATAAACCGACGATAGTAA
1 AGCTCTAGTTGGATTAACCAACAATATTTGCACCCAGTGCTAGTCGGATAAACCGACGATAATAA
*
12638344 TTGTGAGCCT
66 TTGTGAGCCC
* * * ** * *
12638354 AGCTCTAGTTGGATAAACCAACGATGTTTGCACCCAGTGCTAGTC-GAGTGTACCGACGACAGTA
1 AGCTCTAGTTGGATTAACCAACAATATTTGCACCCAGTGCTAGTCGGA-TAAACCGACGATAATA
12638418 ATTGTGAGCCC
65 ATTGTGAGCCC
* ** * * * * *
12638429 AGCTCTAGTTGGATGAACCAACGGTAATTACGCCCAGCGCTAGTCGGATAAATCGACG
1 AGCTCTAGTTGGATTAACCAACAATATTTGCACCCAGTGCTAGTCGGATAAACCGACG
12638487 GTTGTACAAG
Statistics
Matches: 251, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
74 2 0.01
75 247 0.98
76 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (75 bp):
AGCTCTAGTTGGATTAACCAACAATATTTGCACCCAGTGCTAGTCGGATAAACCGACGATAATAA
TTGTGAGCCC
Found at i:12638247 original size:35 final size:34
Alignment explanation
Indices: 12638133--12638397 Score: 149
Period size: 35 Copynumber: 7.1 Consensus size: 34
12638123 GAGTCTAGCT
* *
12638133 CTAGTTGGATTAACCAACAATATTTGTACCTAGTG
1 CTAGTTGGATAAACCAACAATATTTG-ACCCAGTG
* *
12638168 CTAGTTGGATGAACCGAAGATAATGATTTTGAGCCCAGCT-
1 CTAGTTGGATAAACC--A-ACAAT-A-TTTGA-CCCAG-TG
*
12638208 CTAGTTGGATTAACCAACAATATTTGCACCCAGTG
1 CTAGTTGGATAAACCAACAATATTTG-ACCCAGTG
* * *
12638243 CTAGTCGGATAAATCGACGATAATGATTGTGAGCCCAGCT-
1 CTAGTTGGATAAA-C--CAACAAT-ATT-TGA-CCCAG-TG
* *
12638283 CTAGTTGGATTAACCAACAATATTTGCACCCTGTG
1 CTAGTTGGATAAACCAACAATATTTG-ACCCAGTG
* * *
12638318 CTAGTCGGATAAACCGACGATAGTAATTGTGAGCCTAGCT-
1 CTAGTTGGATAAACCAAC-A-A-T-ATT-TGA-CCCAG-TG
* *
12638358 CTAGTTGGATAAACCAACGATGTTTGCACCCAGTG
1 CTAGTTGGATAAACCAACAATATTTG-ACCCAGTG
12638393 CTAGT
1 CTAGT
12638398 CGAGTGTACC
Statistics
Matches: 179, Mismatches: 24, Indels: 54
0.70 0.09 0.21
Matches are distributed among these distances:
34 3 0.02
35 66 0.37
36 11 0.06
37 12 0.07
38 12 0.07
39 11 0.06
40 61 0.34
41 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (34 bp):
CTAGTTGGATAAACCAACAATATTTGACCCAGTG
Found at i:12638378 original size:40 final size:38
Alignment explanation
Indices: 12638121--12638378 Score: 159
Period size: 40 Copynumber: 6.9 Consensus size: 38
12638111 AAAAATGAAA
* * *
12638121 GTGAGTCTAGCTCTAGTTGGATTAACCAACAATAT-TT
1 GTGAGCCTAGCTCTAGTTGGATAAACCAACGATATATT
*
12638158 GT-A-CCTAG-TGCTAGTTGGATGAACCGAA-GATAATGATT
1 GTGAGCCTAGCT-CTAGTTGGATAAACC-AACGAT-AT-ATT
* * *
12638196 TTGAGCCCAGCTCTAGTTGGATTAACCAAC-A-ATATT
1 GTGAGCCTAGCTCTAGTTGGATAAACCAACGATATATT
* * * *
12638232 -TGCA-CCCAG-TGCTAGTCGGATAAATCGACGATAATGATT
1 GTG-AGCCTAGCT-CTAGTTGGATAAACCAACGAT-AT-ATT
* *
12638271 GTGAGCCCAGCTCTAGTTGGATTAACCAAC-A-ATATT
1 GTGAGCCTAGCTCTAGTTGGATAAACCAACGATATATT
* * *
12638307 -TGCACCCT-G-TGCTAGTCGGATAAACCGACGATAGTAATT
1 GTG-AGCCTAGCT-CTAGTTGGATAAACCAACGATA-T-ATT
12638346 GTGAGCCTAGCTCTAGTTGGATAAACCAACGAT
1 GTGAGCCTAGCTCTAGTTGGATAAACCAACGAT
12638379 GTTTGCACCC
Statistics
Matches: 172, Mismatches: 22, Indels: 51
0.70 0.09 0.21
Matches are distributed among these distances:
34 3 0.02
35 59 0.34
36 17 0.10
37 7 0.04
38 6 0.03
39 16 0.09
40 61 0.35
41 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (38 bp):
GTGAGCCTAGCTCTAGTTGGATAAACCAACGATATATT
Found at i:12641552 original size:25 final size:25
Alignment explanation
Indices: 12641522--12641571 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
12641512 TTTTCGGACT
12641522 GTTAGTGATGAATTATGGAATAAAA
1 GTTAGTGATGAATTATGGAATAAAA
12641547 GTTAGTGATGAATTATGGAATAAAA
1 GTTAGTGATGAATTATGGAATAAAA
12641572 TAATGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (25 bp):
GTTAGTGATGAATTATGGAATAAAA
Found at i:12645552 original size:6 final size:6
Alignment explanation
Indices: 12645541--12645592 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
12645531 TTCTTTCTAG
* * *
12645541 GCTTGA GCTTGA GCTTGA GCTTGA GCTTGG GCTT-A GGCTTGG GCTTGG
1 GCTTGA GCTTGA GCTTGA GCTTGA GCTTGA GCTTGA -GCTTGA GCTTGA
12645589 GCTT
1 GCTT
12645593 TAGTGAAGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.10, C:0.17, G:0.38, T:0.35
Consensus pattern (6 bp):
GCTTGA
Found at i:12645564 original size:18 final size:18
Alignment explanation
Indices: 12645538--12645592 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
12645528 AACTTCTTTC
*
12645538 TAGGCTTGAGCTTGAGCT
1 TAGGCTTGAGCTTGGGCT
12645556 T-GAGCTTGAGCTTGGGCT
1 TAG-GCTTGAGCTTGGGCT
*
12645574 TAGGCTTGGGCTTGGGCT
1 TAGGCTTGAGCTTGGGCT
12645592 T
1 T
12645593 TAGTGAAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.11, C:0.16, G:0.38, T:0.35
Consensus pattern (18 bp):
TAGGCTTGAGCTTGGGCT
Found at i:12653540 original size:19 final size:19
Alignment explanation
Indices: 12653494--12653541 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
12653484 GTATATATTT
12653494 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
12653512 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
12653531 TAAGTTTTATT
1 TAAATTTTATT
12653542 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:12653603 original size:43 final size:43
Alignment explanation
Indices: 12653555--12653647 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
12653545 ATTCTAGAAA
*
12653555 TATTTT-TATTTTGTCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
12653598 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
12653641 TATTTTC
1 TATTTTC
12653648 CCAATTAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:12656232 original size:15 final size:15
Alignment explanation
Indices: 12656212--12656282 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 15
12656202 AAACATGATC
12656212 TTATAAGATATTATT
1 TTATAAGATATTATT
*
12656227 TTATAAGATTACATATCT
1 TTATAAGA-TA-TTAT-T
*
12656245 TAGATAAGATATGTAATT
1 T-TATAAGATAT-T-ATT
* *
12656263 TTAGAAGATATGATT
1 TTATAAGATATTATT
12656278 TTATA
1 TTATA
12656283 TTCTTAAAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
15 15 0.35
16 2 0.05
17 11 0.26
18 7 0.16
19 8 0.19
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.45
Consensus pattern (15 bp):
TTATAAGATATTATT
Found at i:12664605 original size:5 final size:6
Alignment explanation
Indices: 12664588--12664614 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12664578 TCTAAACCTC
12664588 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
12664615 AAATGATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:12670647 original size:20 final size:20
Alignment explanation
Indices: 12670622--12670659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12670612 ATAGTGAGAA
12670622 TTTATTTCCTAAGTATAAAT
1 TTTATTTCCTAAGTATAAAT
* *
12670642 TTTATTTTCTGAGTATAA
1 TTTATTTCCTAAGTATAA
12670660 TAATTCTACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTATTTCCTAAGTATAAAT
Found at i:12675267 original size:27 final size:26
Alignment explanation
Indices: 12675236--12675485 Score: 171
Period size: 27 Copynumber: 9.3 Consensus size: 26
12675226 TTAGTTTACC
*
12675236 AAATTACTAAAATACCCTTGTTTTATA
1 AAATTACCAAAATACCCTTG-TTTATA
** * *
12675263 AAATTA-CTGAATACCCTTGATTAGCA
1 AAATTACCAAAATACCCTTGTTTA-TA
*
12675289 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATA-CCCTTGTTTATA
* *
12675316 AAATTACCAAAATACACCTGGTTTGTA
1 AAATTACCAAAATAC-CCTTGTTTATA
* *
12675343 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTTGTTTATA
** *
12675370 AAATTACCAAAATACCCCTAATTTATG
1 AAATTACCAAAATA-CCCTTGTTTATA
** * **
12675397 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTTG-TTTATA
** * * *
12675424 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTG-TTTATA
* *
12675451 AAATTACCAAAGTACCC-CGATTTATA
1 AAATTACCAAAATACCCTTG-TTTATA
*
12675477 GAATTACCA
1 AAATTACCA
12675486 TTTTACCCTC
Statistics
Matches: 187, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.02
26 37 0.20
27 138 0.74
28 9 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AAATTACCAAAATACCCTTGTTTATA
Found at i:12675354 original size:54 final size:53
Alignment explanation
Indices: 12675236--12675485 Score: 220
Period size: 54 Copynumber: 4.7 Consensus size: 53
12675226 TTAGTTTACC
* * * ** * *
12675236 AAATTACTAAAATACCCTTGTTTTATAAAATTA-CTGAATACCCTTGATTAGCA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCC-TGATTTGTA
* *
12675289 AAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACACCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATAC-CCTGATTTGTA
* * * *
12675343 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTATG
1 AAATTACCAAAATACCCCTGA-TTTATAAAATTACCAAAATA-CCCTGATTTGTA
** ** ** *
12675397 AAATTACTGAAATA-CCCTCGACCTATAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTATAAAATTACCAAAATACCCT-GATTTGTA
* *
12675451 AAATTACCAAAGTACCCC-GATTTATAGAATTACCA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCA
12675486 TTTTACCCTC
Statistics
Matches: 156, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
53 50 0.32
54 99 0.63
55 7 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCTGATTTGTA
Found at i:12675395 original size:81 final size:81
Alignment explanation
Indices: 12675236--12675485 Score: 222
Period size: 81 Copynumber: 3.1 Consensus size: 81
12675226 TTAGTTTACC
* * *** ** * *
12675236 AAATTACTAAAATACCCTTGTTTTATAAAATTA-CTGAATACCCTTGA-TTAGCAAAATTACCAA
1 AAATTACCAAAATACCCTCGACCTATAAAATTACCAAAATACCCTAGACTT-GTAAAATTACCAA
*
12675299 AATACCCCTGGTTTATA
65 AATACCCCTGATTTATA
*** * *
12675316 AAATTACCAAAATACACCT-GGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
1 AAATTACCAAAATAC-CCTCGACCTATAAAATTACCAAAATA-CCCTAGACTTGTAAAATTACCA
* *
12675379 AAATACCCCTAATTTATG
64 AAATACCCCTGATTTATA
** ** *
12675397 AAATTACTGAAATACCCTCGACCTATAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGACCTATAAAATTACCAAAATACCCTAGACTTGTAAAATTACCAAA
*
12675462 GTACCCC-GATTTATA
66 ATACCCCTGATTTATA
*
12675477 GAATTACCA
1 AAATTACCA
12675486 TTTTACCCTC
Statistics
Matches: 138, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
80 46 0.33
81 85 0.62
82 7 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGACCTATAAAATTACCAAAATACCCTAGACTTGTAAAATTACCAAA
ATACCCCTGATTTATA
Found at i:12675515 original size:80 final size:81
Alignment explanation
Indices: 12675262--12675520 Score: 201
Period size: 81 Copynumber: 3.2 Consensus size: 81
12675252 CTTGTTTTAT
* * ** *
12675262 AAAATTACTG-AATACCCTTGA-TTAGCAAAATTACCAAAATACCCCTGGTTTATAAAATTAC-C
1 AAAATTACTGAAATACCCTCGACTT-GTAAAATTACCAAAATACCCCTAATTTATGAAATTACTC
*** **
12675324 AAAATACACCT-GGTTTGT
65 -AAATAC-CCTCGACCTAC
** * * *
12675342 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTG
1 AAAATTACTGAAATACCCTCGA-CTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTC
*
12675406 AAATACCCTCGACCTAT
65 AAATACCCTCGACCTAC
* *
12675423 AAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCC-GATTTAT-AGAATTAC-C
1 AAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAATTTATGA-AATTACTC
** **
12675485 ATTTTACCCTCGATTTAC
65 A-AATACCCTCGACCTAC
*
12675503 AAAATTATTGAAATACCC
1 AAAATTACTGAAATACCC
12675521 CTGAGGGTAG
Statistics
Matches: 145, Mismatches: 26, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
79 2 0.01
80 52 0.36
81 87 0.60
82 4 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTCA
AATACCCTCGACCTAC
Found at i:12675540 original size:26 final size:27
Alignment explanation
Indices: 12675503--12675564 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
12675493 CTCGATTTAC
*
12675503 AAAATTATTGAAATACCCCTG-AGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* * *
12675529 AGAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
12675556 AAAATTACT
1 AAAATTACT
12675565 ATTTTACCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGTAGGGT
Found at i:12676296 original size:216 final size:217
Alignment explanation
Indices: 12675917--12676310 Score: 517
Period size: 216 Copynumber: 1.8 Consensus size: 217
12675907 TACCGAAGGC
12675917 TGTGTGCCAAACGTATTTGCCTAAGGCTATGTACCAATATATGATTATTGACGACTCTATGTCGA
1 TGTGTGCCAAACGTATTTGCCTAAGGCTATGTACCAATATATGATTATTGACGACTCTATGTCGA
* * *
12675982 TCATATTTACTCAAGGCTATGTGCAAACTATGTTACCGTCGCTGATGGCTATGTGCCTAACATGA
66 TCACATTTACTCAAGGCTATGTGCAAACTATGTTACCGTAGCTGATGGCTATGTGCCTAACATAA
*
12676047 TACAGCTACCGATGGCTTAAAGCCAATTATTCTGATT-A-TGGCTTTGCGCCAACCTACATATAG
131 TACAGCTACCGATGGCTTAAAGCCAAGTATTCTG-TTAAGTGGCTTTGCGCCAACCTACATATAG
12676110 CTCTGTGCCAACCTGATTATGGA
195 CTCTGTGCCAACCTGATTATGGA
* * * * *
12676133 TGTGTGCCAAACTTATTTTCCTAAGGCTATGTGCCAATATATGGTTATTGACGACTCTGTGTCGA
1 TGTGTGCCAAACGTATTTGCCTAAGGCTATGTACCAATATATGATTATTGACGACTCTATGTCGA
* * **** *
12676198 TCACATTTAC-CTAGGGCTGTGTGCCGGTTATGTTACTC-TAGTTGATGGCTATGTGCCTAACAT
66 TCACATTTACTC-AAGGCTATGTGCAAACTATGTTAC-CGTAGCTGATGGCTATGTGCCTAACAT
* * ** *** *
12676261 AATGCAGTTGTCGATGGCTTTGTGCCACGTATTCTGTTAAGTGGCTTTGC
129 AATACAGCTACCGATGGCTTAAAGCCAAGTATTCTGTTAAGTGGCTTTGC
12676311 CACATTATCT
Statistics
Matches: 150, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
215 3 0.02
216 137 0.91
217 10 0.07
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (217 bp):
TGTGTGCCAAACGTATTTGCCTAAGGCTATGTACCAATATATGATTATTGACGACTCTATGTCGA
TCACATTTACTCAAGGCTATGTGCAAACTATGTTACCGTAGCTGATGGCTATGTGCCTAACATAA
TACAGCTACCGATGGCTTAAAGCCAAGTATTCTGTTAAGTGGCTTTGCGCCAACCTACATATAGC
TCTGTGCCAACCTGATTATGGA
Found at i:12676353 original size:27 final size:27
Alignment explanation
Indices: 12676290--12676353 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
12676280 TTGTGCCACG
* *
12676290 TATTCTGTTA-AGTGGCTTTGCCACAT
1 TATTCTGTTATAGTGGCTCTGCCACAA
*
12676316 TA-TCTGATTATGGTGGCTCTGCCACAA
1 TATTCTG-TTATAGTGGCTCTGCCACAA
12676343 TATTCTGTTAT
1 TATTCTGTTAT
12676354 TAGCAGCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.12
26 5 0.16
27 19 0.59
28 4 0.12
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
TATTCTGTTATAGTGGCTCTGCCACAA
Found at i:12676488 original size:6 final size:6
Alignment explanation
Indices: 12676479--12676672 Score: 148
Period size: 6 Copynumber: 31.5 Consensus size: 6
12676469 TTCACATTTC
* * *
12676479 GATTCT GATTCT G-TTACCT GATACT GATTCT GATTCT G-TCACCT AATTCT
1 GATTCT GATTCT GATT--CT GATTCT GATTCT GATTCT GAT--TCT GATTCT
*
12676529 GATTCT GATTCT GATTCT GATTCT GATTCT G-TTACCT GATACT GATTCT
1 GATTCT GATTCT GATTCT GATTCT GATTCT GATT--CT GATTCT GATTCT
* * * *
12676578 GATTCT G-TCACCT AATTTT GATTTT GATTCT GATTCT GATTCT GATTCT
1 GATTCT GAT--TCT GATTCT GATTCT GATTCT GATTCT GATTCT GATTCT
* * *
12676627 G-TCACCT GATTCT GATTCT GATTCT CATTTT GATTCT -AGTTCT GAT
1 GAT--TCT GATTCT GATTCT GATTCT GATTCT GATTCT GA-TTCT GAT
12676673 AATGCTTCTT
Statistics
Matches: 151, Mismatches: 20, Indels: 34
0.74 0.10 0.17
Matches are distributed among these distances:
5 8 0.05
6 124 0.82
7 14 0.09
8 5 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
GATTCT
Found at i:12676507 original size:25 final size:25
Alignment explanation
Indices: 12676479--12676651 Score: 167
Period size: 25 Copynumber: 7.5 Consensus size: 25
12676469 TTCACATTTC
*
12676479 GATTCTGATTCTGTTACCTGATACT
1 GATTCTGATTCTGTCACCTGATACT
* *
12676504 GATTCTGATTCTGTCACCTAATTCT
1 GATTCTGATTCTGTCACCTGATACT
12676529 GATTCTGATTCTG--A--T--T-CT
1 GATTCTGATTCTGTCACCTGATACT
*
12676547 GATTCTGATTCTGTTACCTGATACT
1 GATTCTGATTCTGTCACCTGATACT
* **
12676572 GATTCTGATTCTGTCACCTAATTTT
1 GATTCTGATTCTGTCACCTGATACT
*
12676597 GATTTTGATTCTG--A--T--T-CT
1 GATTCTGATTCTGTCACCTGATACT
*
12676615 GATTCTGATTCTGTCACCTGATTCT
1 GATTCTGATTCTGTCACCTGATACT
12676640 GATTCTGATTCT
1 GATTCTGATTCT
12676652 CATTTTGATT
Statistics
Matches: 124, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
18 28 0.23
19 2 0.02
20 2 0.02
21 2 0.02
22 2 0.02
23 2 0.02
24 2 0.02
25 84 0.68
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (25 bp):
GATTCTGATTCTGTCACCTGATACT
Found at i:12676531 original size:31 final size:31
Alignment explanation
Indices: 12676496--12676615 Score: 116
Period size: 31 Copynumber: 3.7 Consensus size: 31
12676486 ATTCTGTTAC
12676496 CTGATACTGATTCTGATTCTGTCACCTAATT
1 CTGATACTGATTCTGATTCTGTCACCTAATT
* * *
12676527 CTGATTCTGATTCTGATTCTGATTCTGATTCT-GTT
1 CTGATACTGATTCTGATTCTG--TC--A-CCTAATT
12676562 ACCTGATACTGATTCTGATTCTGTCACCTAATT
1 --CTGATACTGATTCTGATTCTGTCACCTAATT
* **
12676595 TTGATTTTGATTCTGATTCTG
1 CTGATACTGATTCTGATTCTG
12676616 ATTCTGATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
31 38 0.53
32 2 0.03
33 5 0.07
35 5 0.07
36 2 0.03
37 20 0.28
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
CTGATACTGATTCTGATTCTGTCACCTAATT
Found at i:12676588 original size:68 final size:68
Alignment explanation
Indices: 12676479--12676651 Score: 310
Period size: 68 Copynumber: 2.5 Consensus size: 68
12676469 TTCACATTTC
12676479 GATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGAT
1 GATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGAT
12676544 TCT
66 TCT
* *
12676547 GATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTGATTTTGATTCTGAT
1 GATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGAT
12676612 TCT
66 TCT
* *
12676615 GATTCTGATTCTGTCACCTGATTCTGATTCTGATTCT
1 GATTCTGATTCTGTTACCTGATACTGATTCTGATTCT
12676652 CATTTTGATT
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 101 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (68 bp):
GATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGAT
TCT
Found at i:12688177 original size:21 final size:20
Alignment explanation
Indices: 12688153--12688227 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 20
12688143 AGTTTTGGAC
12688153 TAAATTGAGTAATGTCATTAA
1 TAAA-TGAGTAATGTCATTAA
*
12688174 TAAATGAGTTAAATTTTCTATTAA
1 TAAATGAG-T-AA-TGTC-ATTAA
12688198 TAAATTGAGTAATGTCATTAA
1 TAAA-TGAGTAATGTCATTAA
12688219 TAAATGAGT
1 TAAATGAGT
12688228 TAAATTTTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
20 9 0.19
21 14 0.30
22 5 0.11
23 5 0.11
24 10 0.21
25 4 0.09
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (20 bp):
TAAATGAGTAATGTCATTAA
Found at i:12688197 original size:24 final size:24
Alignment explanation
Indices: 12688169--12688241 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
12688159 GAGTAATGTC
12688169 ATTAATAAATGAGTTAAATTTTCT
1 ATTAATAAATGAGTTAAATTTTCT
*
12688193 ATTAATAAATTGAG-T-AA-TGTC-
1 ATTAATAAA-TGAGTTAAATTTTCT
12688214 ATTAATAAATGAGTTAAATTTTCT
1 ATTAATAAATGAGTTAAATTTTCT
12688238 ATTA
1 ATTA
12688242 TAGATTAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 4 0.10
21 10 0.24
22 5 0.12
23 5 0.12
24 14 0.33
25 4 0.10
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (24 bp):
ATTAATAAATGAGTTAAATTTTCT
Found at i:12688204 original size:45 final size:45
Alignment explanation
Indices: 12688153--12688241 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
12688143 AGTTTTGGAC
12688153 TAAATTGAGTAATGTCATTAATAAATGAGTTAAATTTTCTATTAA
1 TAAATTGAGTAATGTCATTAATAAATGAGTTAAATTTTCTATTAA
12688198 TAAATTGAGTAATGTCATTAATAAATGAGTTAAATTTTCTATTA
1 TAAATTGAGTAATGTCATTAATAAATGAGTTAAATTTTCTATTA
12688242 TAGATTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (45 bp):
TAAATTGAGTAATGTCATTAATAAATGAGTTAAATTTTCTATTAA
Found at i:12688604 original size:42 final size:41
Alignment explanation
Indices: 12688508--12688605 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 41
12688498 ACCGATGCTA
*
12688508 TGTGTAAGACCATATATGGGATATGGCATCATTACGAGACTT
1 TGTGTAAGACCATATATGGGATATAGCATCATTA-GAGACTT
* *
12688550 TGTTTAAAACCATATATGGGATATAGCATCGATGT-GAGA-TT
1 TGTGTAAGACCATATATGGGATATAGCATC-AT-TAGAGACTT
12688591 TCGTGTAAGACCATA
1 T-GTGTAAGACCATA
12688606 GCTAGGTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
41 3 0.06
42 42 0.88
43 2 0.04
44 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (41 bp):
TGTGTAAGACCATATATGGGATATAGCATCATTAGAGACTT
Found at i:12689874 original size:20 final size:20
Alignment explanation
Indices: 12689822--12689875 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
12689812 CACGGCCTAC
*
12689822 CCACACGGGCGTATCCTAAG
1 CCACACGGGCGTGTCCTAAG
*
12689842 CCACACGGACGTGTCCTAAG
1 CCACACGGGCGTGTCCTAAG
12689862 CCACACGGGCGTGT
1 CCACACGGGCGTGT
12689876 GGCTTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.35, G:0.28, T:0.15
Consensus pattern (20 bp):
CCACACGGGCGTGTCCTAAG
Found at i:12690801 original size:35 final size:35
Alignment explanation
Indices: 12690639--12690789 Score: 194
Period size: 35 Copynumber: 4.3 Consensus size: 35
12690629 GCCTCAACAA
* *
12690639 CAATATTTCATTCATTTAACATTCCGCCACAACAC
1 CAATATTTCATTCATTTAACATCCCGCCACAACGC
* *
12690674 CAATATTTCATTCATTTAACATCCCACCACAATGC
1 CAATATTTCATTCATTTAACATCCCGCCACAACGC
* * * * *
12690709 CAATACTTCATTCATTTAACATTCTGCCATAACAC
1 CAATATTTCATTCATTTAACATCCCGCCACAACGC
* * *
12690744 TAATACTTCATTCATTTAACATCCCGCCACAACGT
1 CAATATTTCATTCATTTAACATCCCGCCACAACGC
12690779 CAATATTTCAT
1 CAATATTTCAT
12690790 CAATTTGACA
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 97 1.00
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (35 bp):
CAATATTTCATTCATTTAACATCCCGCCACAACGC
Found at i:12690807 original size:70 final size:70
Alignment explanation
Indices: 12690585--12690825 Score: 256
Period size: 70 Copynumber: 3.5 Consensus size: 70
12690575 CCTTTATCAA
** * * * * *
12690585 TTAACATTCCACCATAACACCAATAC-ACTATTCACTT-ACAGCCCGCCTCAACAACAATATTTC
1 TTAACATTCTGCCATAACACCAATACTTC-ATTCATTTAACATCCCGCCACAACGACAATATTTC
12690648 ATTCAT
65 ATTCAT
* * * * * * *
12690654 TTAACATTCCGCCACAACACCAATATTTCATTCATTTAACATCCCACCACAATGCCAATACTTCA
1 TTAACATTCTGCCATAACACCAATACTTCATTCATTTAACATCCCGCCACAACGACAATATTTCA
12690719 TTCAT
66 TTCAT
* *
12690724 TTAACATTCTGCCATAACACTAATACTTCATTCATTTAACATCCCGCCACAACGTCAATATTTCA
1 TTAACATTCTGCCATAACACCAATACTTCATTCATTTAACATCCCGCCACAACGACAATATTTCA
12690789 -TCAAT
66 TTC-AT
* **
12690794 TTGACA-TCTTGCCATAACACCGGTACTTCATT
1 TTAACATTC-TGCCATAACACCAATACTTCATT
12690826 TATAATATAC
Statistics
Matches: 144, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
69 34 0.24
70 110 0.76
ACGTcount: A:0.34, C:0.31, G:0.05, T:0.31
Consensus pattern (70 bp):
TTAACATTCTGCCATAACACCAATACTTCATTCATTTAACATCCCGCCACAACGACAATATTTCA
TTCAT
Found at i:12695484 original size:24 final size:24
Alignment explanation
Indices: 12695457--12695508 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12695447 TTAGTAAGTC
*
12695457 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12695481 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12695505 AAAT
1 AAAT
12695509 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12697453 original size:24 final size:24
Alignment explanation
Indices: 12697426--12697477 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12697416 TTAGTAAGTC
*
12697426 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12697450 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12697474 AAAT
1 AAAT
12697478 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12698045 original size:55 final size:56
Alignment explanation
Indices: 12697960--12698066 Score: 171
Period size: 55 Copynumber: 1.9 Consensus size: 56
12697950 AACTTACTCC
* *
12697960 TATATATCAGGAGTACATCAAAAAAGAAAACAATAGCAAAGAAATTTGAAATCTCT
1 TATATATCAGGAGTACATCAAAAAAGAAAACAAAAGCAAAGAAATTTAAAATCTCT
* *
12698016 TATATATC-GGAGTACATCAAAACAGAAAACAAAAGTAAAGAAATTTAAAAT
1 TATATATCAGGAGTACATCAAAAAAGAAAACAAAAGCAAAGAAATTTAAAAT
12698067 ACAAATAGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 39 0.83
56 8 0.17
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.22
Consensus pattern (56 bp):
TATATATCAGGAGTACATCAAAAAAGAAAACAAAAGCAAAGAAATTTAAAATCTCT
Found at i:12701123 original size:27 final size:27
Alignment explanation
Indices: 12701093--12701146 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
12701083 ACCAATAGTT
12701093 TTGGCGAAGCAAGGATCGCCAGTAGGC
1 TTGGCGAAGCAAGGATCGCCAGTAGGC
* *
12701120 TTGGTGAAGTAAGGATCGCCAGTAGGC
1 TTGGCGAAGCAAGGATCGCCAGTAGGC
12701147 CTGGAGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.37, T:0.19
Consensus pattern (27 bp):
TTGGCGAAGCAAGGATCGCCAGTAGGC
Found at i:12701579 original size:16 final size:16
Alignment explanation
Indices: 12701558--12701591 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12701548 AAACATCTTA
*
12701558 AATTAATTAATTTCTC
1 AATTAAATAATTTCTC
*
12701574 AATTAAATAATTTTTC
1 AATTAAATAATTTCTC
12701590 AA
1 AA
12701592 CCCAATTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAAATAATTTCTC
Found at i:12701763 original size:6 final size:6
Alignment explanation
Indices: 12701752--12701776 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12701742 CAATTCCAGG
12701752 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
12701777 AGAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:12706227 original size:31 final size:30
Alignment explanation
Indices: 12706192--12706274 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 30
12706182 TTAACAACTA
* *
12706192 AATGACTTAAATAAAAACTTTTGACTAGTTT
1 AATGA-TTAAATAAAAACTTTTGAATAGTCT
*
12706223 AATGATTTAAATTAAAACTTTTGAATAGTCT
1 AATGA-TTAAATAAAAACTTTTGAATAGTCT
12706254 AATGATTGAAATAAAAACTTT
1 AATGATT-AAATAAAAACTTT
12706275 CAAATAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.04
31 44 0.96
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.39
Consensus pattern (30 bp):
AATGATTAAATAAAAACTTTTGAATAGTCT
Found at i:12714913 original size:17 final size:17
Alignment explanation
Indices: 12714887--12714919 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12714877 TAAACCGACC
12714887 ACTAACTCCATTACCCT
1 ACTAACTCCATTACCCT
*
12714904 ACTAAGTCCATTACCC
1 ACTAACTCCATTACCC
12714920 CACTTGCCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.39, G:0.03, T:0.27
Consensus pattern (17 bp):
ACTAACTCCATTACCCT
Found at i:12715157 original size:3 final size:3
Alignment explanation
Indices: 12715149--12715297 Score: 78
Period size: 3 Copynumber: 50.3 Consensus size: 3
12715139 AGGGGGAGAG
12715149 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA -TA TTTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * ** * *
12715192 CTG TTA CTA TTA TT- TTA -TA TATA TTTA TTA CCA TCA TTTA TTTA TTT
1 TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA -TTA -TTA TTA
* * ** * *
12715239 TTT TTA TTA GTA ACA -TA TTG TTA TTT TTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
12715285 TTG TTA TTA TTA T
1 TTA TTA TTA TTA T
12715298 CATTGTACTA
Statistics
Matches: 113, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
2 13 0.12
3 87 0.77
4 12 0.11
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12718061 original size:11 final size:11
Alignment explanation
Indices: 12718045--12718070 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12718035 CTAGCAATGC
12718045 TTTGTTAAAAA
1 TTTGTTAAAAA
12718056 TTTGTTAAAAA
1 TTTGTTAAAAA
12718067 TTTG
1 TTTG
12718071 CATTCTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (11 bp):
TTTGTTAAAAA
Found at i:12720132 original size:49 final size:49
Alignment explanation
Indices: 12720079--12720184 Score: 133
Period size: 49 Copynumber: 2.2 Consensus size: 49
12720069 TATTTCAGTG
***
12720079 TTCTACC-ATACCAGATAGCCCAACAATGATGGTATCCATTACCTAAACA
1 TTCTACCAAT-CCAGATAGCCCAACAATGATAAAATCCATTACCTAAACA
* * * *
12720128 TTCTACCAATCTAGATGGCCTATCAATGATAAAATCCATTACCTAAACA
1 TTCTACCAATCCAGATAGCCCAACAATGATAAAATCCATTACCTAAACA
12720177 TTCTACCA
1 TTCTACCA
12720185 CCTTGGATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
49 47 0.96
50 2 0.04
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (49 bp):
TTCTACCAATCCAGATAGCCCAACAATGATAAAATCCATTACCTAAACA
Found at i:12723952 original size:20 final size:20
Alignment explanation
Indices: 12723924--12723964 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12723914 TTTTAAAAAA
* * *
12723924 AATATTTTTTATACTTTTTT
1 AATAATTTTAATAATTTTTT
12723944 AATAATTTTAATAATTTTTT
1 AATAATTTTAATAATTTTTT
12723964 A
1 A
12723965 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
AATAATTTTAATAATTTTTT
Found at i:12723989 original size:19 final size:17
Alignment explanation
Indices: 12723926--12723986 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
12723916 TTAAAAAAAA
* *
12723926 TATTTTTTATACTTTTT
1 TATTTTTAATAATTTTT
12723943 TAATAATTTTAATAATTTTT
1 T-AT--TTTTAATAATTTTT
12723963 TATTTTTAA-AATATTTT
1 TATTTTTAATAAT-TTTT
12723980 TATTTTT
1 TATTTTT
12723987 TTAGCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 3 0.08
17 18 0.47
18 2 0.05
19 2 0.05
20 13 0.34
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTTAATAATTTTT
Found at i:12731875 original size:3 final size:3
Alignment explanation
Indices: 12731867--12731897 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
12731857 ATTTTATAAC
*
12731867 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12731898 ACAAAAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:12733277 original size:22 final size:22
Alignment explanation
Indices: 12733249--12733306 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
12733239 GAATATTCTG
*
12733249 TGATATGCTCCGATATGATATA
1 TGATATGCTCCGATATGAAATA
* *
12733271 TGTTATG-TCTTGATATGAAATA
1 TGATATGCTC-CGATATGAAATA
12733293 TGATATGCTCCGAT
1 TGATATGCTCCGAT
12733307 GAGGGATGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (22 bp):
TGATATGCTCCGATATGAAATA
Found at i:12736196 original size:18 final size:19
Alignment explanation
Indices: 12736173--12736208 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12736163 TAAACTAGAT
*
12736173 TTAAATCTCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
12736191 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
12736209 AAGTTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:12736534 original size:17 final size:16
Alignment explanation
Indices: 12736479--12736534 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
12736469 CCTAGCTTTC
*
12736479 TCTTTTTC-TTTTCTT
1 TCTTTTTCATTCTCTT
* *
12736494 TCCTTTTTCCTTCTGTT
1 T-CTTTTTCATTCTCTT
*
12736511 TCGTTTTCGATTCTCTT
1 TCTTTTTC-ATTCTCTT
12736528 TCTTTTT
1 TCTTTTT
12736535 TTCTATTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 1 0.03
16 13 0.41
17 18 0.56
ACGTcount: A:0.02, C:0.23, G:0.05, T:0.70
Consensus pattern (16 bp):
TCTTTTTCATTCTCTT
Found at i:12736560 original size:5 final size:5
Alignment explanation
Indices: 12736550--12736576 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
12736540 TTCATTTTAT
12736550 TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
12736577 CTTAACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:12746097 original size:57 final size:56
Alignment explanation
Indices: 12746036--12746171 Score: 161
Period size: 57 Copynumber: 2.4 Consensus size: 56
12746026 TGTTTTTCAG
**
12746036 ATTTTACAGTTTTCCCCTATTTTTTAGATTTTATTATTTTACCCT-TATTTTTTAAAA
1 ATTTTACAGTTTTCCCCTATTTTTTAGATTTTACAATTTT-CCCTCTA-TTTTTAAAA
* * *
12746093 ATTTTATAGTTTTTCCCCT-TTTTTTAGATTTTACAATTTTTCCTCTATTTTTCAAA
1 ATTTTACAG-TTTTCCCCTATTTTTTAGATTTTACAATTTTCCCTCTATTTTTAAAA
*
12746149 A-TTTACAATTTTTCCCCTATTTT
1 ATTTTAC-AGTTTTCCCCTATTTT
12746172 CAAATTTTGC
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
55 13 0.19
56 17 0.25
57 29 0.43
58 9 0.13
ACGTcount: A:0.23, C:0.16, G:0.03, T:0.58
Consensus pattern (56 bp):
ATTTTACAGTTTTCCCCTATTTTTTAGATTTTACAATTTTCCCTCTATTTTTAAAA
Found at i:12746133 original size:28 final size:28
Alignment explanation
Indices: 12746021--12746188 Score: 144
Period size: 27 Copynumber: 6.0 Consensus size: 28
12746011 CAACTGTGTG
* * *
12746021 TCCCCTGTTTTTCAGATTTTAC-AGTTT
1 TCCCCTATTTTTCAAATTTTACAATTTT
* * **
12746048 TCCCCTATTTTTTAGATTTTATTATTTT
1 TCCCCTATTTTTCAAATTTTACAATTTT
* * * * *
12746076 ACCCTTATTTTTTAAAAATTTTATAGTTTT
1 TCCCCTA-TTTTT-CAAATTTTACAATTTT
* *
12746106 TCCCCT-TTTTTTAGATTTTACAATTTT
1 TCCCCTATTTTTCAAATTTTACAATTTT
* *
12746133 TCCTCTATTTTTCAAAATTTACAATTTT
1 TCCCCTATTTTTCAAATTTTACAATTTT
*
12746161 TCCCCTA-TTTTCAAATTTTGCAATTTT
1 TCCCCTATTTTTCAAATTTTACAATTTT
12746188 T
1 T
12746189 TCCAAAATTT
Statistics
Matches: 114, Mismatches: 23, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
27 55 0.48
28 38 0.33
29 5 0.04
30 16 0.14
ACGTcount: A:0.22, C:0.17, G:0.04, T:0.57
Consensus pattern (28 bp):
TCCCCTATTTTTCAAATTTTACAATTTT
Found at i:12753198 original size:41 final size:37
Alignment explanation
Indices: 12753092--12753202 Score: 105
Period size: 38 Copynumber: 2.9 Consensus size: 37
12753082 TCGGATAGTT
* *
12753092 CGAAGCAAAGTTGACACCCAGTGTCTCATCACCCTAAC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCAACCTAAC
** ** * *
12753130 CGAAGTAAAGTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATC-AACCTAAC
12753168 CGAAGTACAATAGTGACACCCAGTGTCTCATCAAC
1 CGAAGT--AA-AGTGACACCCAGTGTCTCATCAAC
12753203 TCGAGGTCGA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
37 15 0.27
38 20 0.36
40 4 0.07
41 17 0.30
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (37 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCAACCTAAC
Found at i:12753859 original size:22 final size:24
Alignment explanation
Indices: 12753817--12753860 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
12753807 TAACTAAGTT
12753817 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
12753841 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
12753861 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:12754204 original size:13 final size:13
Alignment explanation
Indices: 12754188--12754213 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12754178 AGTTTCTCCT
12754188 TTTCTTTTCTTTC
1 TTTCTTTTCTTTC
12754201 TTTCTTTTCTTTC
1 TTTCTTTTCTTTC
12754214 CCACTTTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCTTTTCTTTC
Found at i:12757641 original size:2 final size:2
Alignment explanation
Indices: 12757634--12757716 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
12757624 TACCTTGGTG
12757634 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12757676 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
12757717 ATTATAGAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:12759407 original size:27 final size:27
Alignment explanation
Indices: 12759377--12759429 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
12759367 TAGAATTTTT
12759377 AATTA-TTATCCATGTGATTGATTAAAA
1 AATTATTTATCCATGT-ATTGATTAAAA
*
12759404 AATTATTTATCCTTGTATTGATTAAA
1 AATTATTTATCCATGTATTGATTAAA
12759430 CAAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (27 bp):
AATTATTTATCCATGTATTGATTAAAA
Found at i:12761416 original size:16 final size:15
Alignment explanation
Indices: 12761387--12761415 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12761377 AGGTATAGTA
12761387 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
12761402 AAATATTTAAAAAA
1 AAATATTTAAAAAA
12761416 AAAGAATTTA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:12764466 original size:1 final size:1
Alignment explanation
Indices: 12764460--12764488 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
12764450 TCATGTTCTC
12764460 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12764489 CTTGCTGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12764832 original size:23 final size:23
Alignment explanation
Indices: 12764806--12764849 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
12764796 AATTTTATAT
12764806 AATTTAATGAAT-AAAATAAAAAA
1 AATTTAAT-AATCAAAATAAAAAA
*
12764829 AATTTAATCATCAAAATAAAA
1 AATTTAATAATCAAAATAAAA
12764850 TGTCTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (23 bp):
AATTTAATAATCAAAATAAAAAA
Found at i:12770039 original size:17 final size:17
Alignment explanation
Indices: 12770012--12770054 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12770002 TTAGAAATTT
*
12770012 TAAAAATTTATTAAAAAA
1 TAAAAA-TTATGAAAAAA
* *
12770030 TATAAATTATGAAAATA
1 TAAAAATTATGAAAAAA
12770047 TAAAAATT
1 TAAAAATT
12770055 GTAAGAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAATTATGAAAAAA
Found at i:12775516 original size:27 final size:26
Alignment explanation
Indices: 12775480--12775592 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
12775470 CAGCATGGCT
* **
12775480 ACCAGAACAGATAATGTGACAGAGTT
1 ACCAGAACAGATAATGTGGCAGAGCC
12775506 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
12775534 ACCAGAACAGAAATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
12775561 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
12775588 ACCAG
1 ACCAG
12775593 GATGCTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 53 0.70
28 16 0.21
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:12775544 original size:54 final size:54
Alignment explanation
Indices: 12775480--12775592 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
12775470 CAGCATGGCT
* **
12775480 ACCAGAACAGATA-ATGTGACAGAGTTACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * *
12775534 ACCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
12775588 ACCAG
1 ACCAG
12775593 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:12777038 original size:24 final size:24
Alignment explanation
Indices: 12777011--12777081 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
12777001 CTAGATTTCC
**
12777011 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
12777035 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
12777059 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
12777082 CTCCTGGCAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:12778789 original size:75 final size:75
Alignment explanation
Indices: 12778589--12778790 Score: 280
Period size: 75 Copynumber: 2.7 Consensus size: 75
12778579 ATATCTGTCA
* * *
12778589 ATTTATCTGACTAGCGTTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTACAAGCCACACTATT
1 ATTTATCCGACTAGCGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGCAAGCCACACTATT
12778654 ATATTTTCCG
66 ATATTTTCCG
* * * * **
12778664 ATTTATCCGACTAGTGCTGGGCACAACCTTCGTTAGTTTATCTGACTAGTGCAGGGTACACTATT
1 ATTTATCCGACTAGCGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGCAAGCCACACTATT
12778729 ATATTTGT-CG
66 ATATTT-TCCG
* * *
12778739 GTTTATCCGACTAGCGCTGGGCGCAACCTTGGTCAGTTTATCTGAATAGTGC
1 ATTTATCCGACTAGCGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGC
12778791 TAGACACATC
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
75 110 0.99
76 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (75 bp):
ATTTATCCGACTAGCGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGCAAGCCACACTATT
ATATTTTCCG
Found at i:12778805 original size:75 final size:74
Alignment explanation
Indices: 12778578--12778812 Score: 262
Period size: 75 Copynumber: 3.1 Consensus size: 74
12778568 TATAATTATG
* * * * *
12778578 TATATCTGTCAATTTATCTGACTAGCGTTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTACAA
1 TATATTTGTCGATTTATCCGACTAGCGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGC-A
*
12778643 GCCACA-CTAT
65 GACACATC-AT
* * *
12778653 TATATTT-TCCGATTTATCCGACTAGTGCTGGGCACAACCTTCGTTAGTTTATCTGACTAGTGCA
1 TATATTTGT-CGATTTATCCGACTAGCGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGCA
12778717 GGGTACAC-T-AT
65 --G-ACACATCAT
* * *
12778728 TATATTTGTCGGTTTATCCGACTAGCGCTGGGCGCAACCTTGGTCAGTTTATCTGAATAGTGCTA
1 TATATTTGTCGATTTATCCGACTAGCGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGC-A
12778793 GACACATCAT
65 GACACATCAT
*
12778803 TATAATTGTC
1 TATATTTGTC
12778813 AAATATCTTA
Statistics
Matches: 135, Mismatches: 16, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
73 4 0.03
74 4 0.03
75 121 0.90
76 3 0.02
77 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (74 bp):
TATATTTGTCGATTTATCCGACTAGCGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGCAG
ACACATCAT
Found at i:12779184 original size:2 final size:2
Alignment explanation
Indices: 12779177--12779219 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
12779167 GTGATGTACT
*
12779177 TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12779219 T
1 T
12779220 TTTGTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:12780984 original size:13 final size:13
Alignment explanation
Indices: 12780966--12780993 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12780956 AAGAAATATG
12780966 TCAGGGAACTATA
1 TCAGGGAACTATA
12780979 TCAGGGAACTATA
1 TCAGGGAACTATA
12780992 TC
1 TC
12780994 TCGATGATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (13 bp):
TCAGGGAACTATA
Found at i:12785205 original size:69 final size:69
Alignment explanation
Indices: 12785086--12785218 Score: 230
Period size: 69 Copynumber: 1.9 Consensus size: 69
12785076 CTCAATATCC
*
12785086 TCACCTCTTTTCAAGTAAATTTCGAGGATGAAATTTTTTAAAAGGCAAAGAATTGTAATGATTCA
1 TCACCTCTTTTCAAGTAAATTTCGAGGATGAAATTTTTTAAAAGGAAAAGAATTGTAATGATTCA
12785151 AAAT
66 AAAT
* * *
12785155 TCACCTCTTTTCAAGTAAATTTTGGGGATGAAATTTTTTAAAGGGAAAAGAATTGTAATGATTC
1 TCACCTCTTTTCAAGTAAATTTCGAGGATGAAATTTTTTAAAAGGAAAAGAATTGTAATGATTC
12785219 GAAAGTCAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.36
Consensus pattern (69 bp):
TCACCTCTTTTCAAGTAAATTTCGAGGATGAAATTTTTTAAAAGGAAAAGAATTGTAATGATTCA
AAAT
Found at i:12786594 original size:75 final size:76
Alignment explanation
Indices: 12786471--12786758 Score: 359
Period size: 75 Copynumber: 3.8 Consensus size: 76
12786461 TGTAATTATG
* ** * *
12786471 TATATCTG-TCAGTTTATCTGACTAGGGTTGGGCACAACCTTCGTCAATTTATCTGACTAGTGCA
1 TATATCTGATCGGTTTATCCAACTAGCGCTGGGCACAACCTTCGTCAATTTATCTGACTAGTGCA
12786535 GGGCACACTGT
66 GGGCACACTGT
* * * * *
12786546 TATAT-TGATCGGTTTATCCAACTAGCACTAGGTACAACTTTCGTCAATTTATTTGACTAGTGCA
1 TATATCTGATCGGTTTATCCAACTAGCGCTGGGCACAACCTTCGTCAATTTATCTGACTAGTGCA
*
12786610 GGACACACTGT
66 GGGCACACTGT
* * * *
12786621 TATATCT-ATCGGTTTATCTAACTAGCGCTGGGCACAACCTTTGTTAGTTTATCTGACTAGTGCA
1 TATATCTGATCGGTTTATCCAACTAGCGCTGGGCACAACCTTCGTCAATTTATCTGACTAGTGCA
*
12786685 GGGCACACTAT
66 GGGCACACTGT
* * * * *
12786696 TATATCCG-TCGGTTTATCCTACTAGCGTTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGC
1 TATATCTGATCGGTTTATCCAACTAGCGCTGGGCACAACCTTCGTCAATTTATCTGACTAGTGC
12786759 TAAGAACATC
Statistics
Matches: 181, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
74 2 0.01
75 178 0.98
76 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (76 bp):
TATATCTGATCGGTTTATCCAACTAGCGCTGGGCACAACCTTCGTCAATTTATCTGACTAGTGCA
GGGCACACTGT
Found at i:12789040 original size:25 final size:25
Alignment explanation
Indices: 12789000--12789060 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
12788990 CTCTTAAAGT
*
12789000 TTATATTTTTTTGTT-AATTTGACCT
1 TTAT-TTTTTTTGTTAAATTTGACCC
*
12789025 TTCTTTTTTTTAGTTAAATTTGACCC
1 TTATTTTTTTT-GTTAAATTTGACCC
12789051 TTATTTTTTT
1 TTATTTTTTT
12789061 AAAAAAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.23
25 6 0.19
26 18 0.58
ACGTcount: A:0.18, C:0.10, G:0.07, T:0.66
Consensus pattern (25 bp):
TTATTTTTTTTGTTAAATTTGACCC
Found at i:12789061 original size:25 final size:24
Alignment explanation
Indices: 12789003--12789061 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
12788993 TTAAAGTTTA
*
12789003 TATTTTTTT-GTTAATTTGACCTT
1 TATTTTTTTAGTTAATTTGACCCT
*
12789026 TCTTTTTTTTAGTTAAATTTGACCCT
1 T-ATTTTTTTAGTT-AATTTGACCCT
12789052 TATTTTTTTA
1 TATTTTTTTA
12789062 AAAAAAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 7 0.23
25 11 0.37
26 11 0.37
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (24 bp):
TATTTTTTTAGTTAATTTGACCCT
Found at i:12790554 original size:22 final size:22
Alignment explanation
Indices: 12790524--12790578 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
12790514 GTCCCTGGCC
*
12790524 CACACGGGCGTGTGCCTCC-CTT
1 CACATGGGCGTGTGCC-CCTCTT
12790546 CACATGGGCGTGTGCCCCTCTT
1 CACATGGGCGTGTGCCCCTCTT
12790568 CACATGGGCGT
1 CACATGGGCGT
12790579 TTGACCTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.11, C:0.36, G:0.29, T:0.24
Consensus pattern (22 bp):
CACATGGGCGTGTGCCCCTCTT
Found at i:12794851 original size:33 final size:32
Alignment explanation
Indices: 12794789--12794851 Score: 74
Period size: 33 Copynumber: 1.9 Consensus size: 32
12794779 TGTGCTATCA
*
12794789 TTTTTAACTTTCAAGACTTACTTTGTGTTGCT
1 TTTTTAACTTTCAAGACTTACTTTATGTTGCT
* *
12794821 TTTTTAAACTTTTAAGA-TTTCTTCTATGTTG
1 TTTTT-AACTTTCAAGACTTACTT-TATGTTG
12794852 TCATAGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 10 0.38
33 16 0.62
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.56
Consensus pattern (32 bp):
TTTTTAACTTTCAAGACTTACTTTATGTTGCT
Found at i:12796043 original size:38 final size:40
Alignment explanation
Indices: 12795964--12796051 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 40
12795954 TTAAAAATAT
* * * *
12795964 TTATATTAAAAATACTACCATACATTTGATAAATGTTTTA
1 TTATATTAAAAATACTACAATAAATATAATAAATGTTTTA
*
12796004 TTATATTAAAAATAC-A-AATAAATATAATAAATTTTTTA
1 TTATATTAAAAATACTACAATAAATATAATAAATGTTTTA
*
12796042 TTTTATTAAA
1 TTATATTAAA
12796052 TATTATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 26 0.62
39 1 0.02
40 15 0.36
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (40 bp):
TTATATTAAAAATACTACAATAAATATAATAAATGTTTTA
Found at i:12803713 original size:15 final size:17
Alignment explanation
Indices: 12803688--12803721 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
12803678 ATCAACTAAT
12803688 TTTTTTGATATATA-TA
1 TTTTTTGATATATAGTA
12803704 TTTTTT-ATATATAGTA
1 TTTTTTGATATATAGTA
12803720 TT
1 TT
12803722 CATATGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTTTGATATATAGTA
Found at i:12804403 original size:23 final size:23
Alignment explanation
Indices: 12804348--12804417 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
12804338 TTATTAACAT
*
12804348 TGTTCGTGAACATGCTT-AATTATA
1 TGTTCGTGAACATG-TTCGATTA-A
*
12804372 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
* *
12804395 TGTTGGTGAGCATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
12804418 GTTAAATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
23 23 0.57
24 17 0.43
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:12805070 original size:3 final size:3
Alignment explanation
Indices: 12805062--12805092 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
12805052 ATTTCAAGCT
*
12805062 TTA TTA TTA TTA TTA TGA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12805093 GTTTGACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:12805084 original size:15 final size:15
Alignment explanation
Indices: 12805064--12805093 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12805054 TTCAAGCTTT
12805064 ATTATTATTATTATG
1 ATTATTATTATTATG
12805079 ATTATTATTATTATG
1 ATTATTATTATTATG
12805094 TTTGACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
ATTATTATTATTATG
Found at i:12807181 original size:14 final size:15
Alignment explanation
Indices: 12807162--12807190 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12807152 TAAAAATATT
12807162 AAATAAAAT-TTAAA
1 AAATAAAATATTAAA
12807176 AAATAAAATATTAAA
1 AAATAAAATATTAAA
12807191 GTCATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAAAATATTAAA
Found at i:12807372 original size:18 final size:18
Alignment explanation
Indices: 12807349--12807385 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
12807339 AAGTTATTTG
*
12807349 TTTAAATTTATTTTAAAT
1 TTTAAAATTATTTTAAAT
12807367 TTTAAAATTATTTTAAAT
1 TTTAAAATTATTTTAAAT
12807385 T
1 T
12807386 GTCTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAAAATTATTTTAAAT
Found at i:12808240 original size:25 final size:25
Alignment explanation
Indices: 12808212--12808260 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
12808202 TACATTTCCT
*
12808212 TTCAAATTTTACTATTCTTTTTATG
1 TTCAAAATTTACTATTCTTTTTATG
*
12808237 TTCAAAATTTACTCTTCTTTTTAT
1 TTCAAAATTTACTATTCTTTTTAT
12808261 CATGTAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.02, T:0.59
Consensus pattern (25 bp):
TTCAAAATTTACTATTCTTTTTATG
Found at i:12809600 original size:16 final size:17
Alignment explanation
Indices: 12809569--12809601 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12809559 CATAAGTATA
12809569 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
12809586 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
12809602 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:12809909 original size:45 final size:45
Alignment explanation
Indices: 12809840--12809944 Score: 183
Period size: 45 Copynumber: 2.3 Consensus size: 45
12809830 TTGTTCAATA
*
12809840 GATGTCATAGCATCTCCCATCCACGGTCTTATTTATCTTTGACAT
1 GATGCCATAGCATCTCCCATCCACGGTCTTATTTATCTTTGACAT
*
12809885 GATGCCATAGCGTCTCCCATCCACGGTCTTATTTATCTTTGACAT
1 GATGCCATAGCATCTCCCATCCACGGTCTTATTTATCTTTGACAT
*
12809930 GATGCCATAGTATCT
1 GATGCCATAGCATCT
12809945 TTCAACTATG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (45 bp):
GATGCCATAGCATCTCCCATCCACGGTCTTATTTATCTTTGACAT
Found at i:12809991 original size:46 final size:46
Alignment explanation
Indices: 12809909--12810170 Score: 296
Period size: 46 Copynumber: 5.7 Consensus size: 46
12809899 TCCCATCCAC
* * * * * *
12809909 GGTCTTATTTATCTT-TGACATGATGCCATAGTATCTTTCAACTAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* *
12809954 GGTCTTACTCATTTTCTGTCATGTTGTCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* * * *
12810000 GTTCTTATTCATTTTCCCGTCGTGTTGCCATGGTATCTTTCAAACAT
1 GGTCTTATTCATTTT-CTGTCATGTTGCCATGGTATCTTTCAACCAT
* *
12810047 GGTCTTATTCA-TTTCATGTCACGCTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
* *
12810093 GGTCTTATTCATTTTCTATCATGTTACCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* ** *
12810139 GGTCCTACACA-TTTCATATCATGTTGCCATGG
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGG
12810171 ATAGGATCAT
Statistics
Matches: 184, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
45 17 0.09
46 126 0.68
47 41 0.22
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.43
Consensus pattern (46 bp):
GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
Found at i:12810049 original size:93 final size:92
Alignment explanation
Indices: 12809927--12810170 Score: 312
Period size: 93 Copynumber: 2.6 Consensus size: 92
12809917 TTATCTTTGA
* * *
12809927 CATGATGCCATAGTATCTTTC-AACTATGGTCTTACTCATTTTC-TGTCATGTTGTCATGGTATC
1 CATGTTGCCATGGTATCTTTCAAAC-ATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTATC
* *
12809990 TTTCAACCATGTTCTTATTCATTTTCCCGT
64 TTTCAACCATGGTCTTATTCATTTT-CCAT
* * * *
12810020 CGTGTTGCCATGGTATCTTTCAAACATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAAACATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTT
*
12810085 TCAACCATGGTCTTATTCATTTTCTAT
66 TCAACCATGGTCTTATTCATTTTCCAT
* * * * *
12810112 CATGTTACCATGGTATCTTTCAACCATGGTCCTACACATTTCATATCATGTTGCCATGG
1 CATGTTGCCATGGTATCTTTCAAACATGGTCTTACTCATTTCATGTCATGTTGCCATGG
12810171 ATAGGATCAT
Statistics
Matches: 130, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
92 56 0.43
93 71 0.55
94 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAAACATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTTCCAT
Found at i:12811739 original size:21 final size:21
Alignment explanation
Indices: 12811716--12811764 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
12811706 CACCTTTAAT
12811716 TTTTCCCCTTTT-TTTCTTTC
1 TTTTCCCCTTTTCTTTCTTTC
* *
12811736 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCCTTTTCTTTCTTTC
*
12811757 -CTTCCCCT
1 TTTTCCCCT
12811765 GCTATCTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCCCCTTTTCTTTCTTTC
Found at i:12812017 original size:21 final size:20
Alignment explanation
Indices: 12811978--12812027 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
12811968 ATAATATAAT
12811978 TATTTAAT-TAATAAATATC
1 TATTTAATATAATAAATATC
*
12811997 TTTTATAATATAATAAATATC
1 TATT-TAATATAATAAATATC
12812018 TATTTAATAT
1 TATTTAATAT
12812028 CTAATACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.37
21 14 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAATATAATAAATATC
Found at i:12812196 original size:29 final size:27
Alignment explanation
Indices: 12812125--12812196 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 27
12812115 TATCATATAA
* *
12812125 ATATCTTATAATATAATTATAATAAATT
1 ATATTTTATAAT-TTATTATAATAAATT
*
12812153 A-ATTTAATATCATTTATTACTAATAAATAT
1 ATATTT--TATAATTTATTA-TAATAAAT-T
12812183 ATATTTTATAATTT
1 ATATTTTATAATTT
12812197 GAAATCTAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
27 3 0.09
28 6 0.17
29 20 0.57
30 2 0.06
31 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTTTATAATTTATTATAATAAATT
Found at i:12814074 original size:11 final size:11
Alignment explanation
Indices: 12814058--12814096 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
12814048 TAAAAAGAAG
12814058 AAAGAAACGAA
1 AAAGAAACGAA
12814069 AAAGAAA--AA
1 AAAGAAACGAA
12814078 GAAAGAAACGAA
1 -AAAGAAACGAA
12814090 AAAGAAA
1 AAAGAAA
12814097 AAAAAAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 2 0.08
10 7 0.28
11 14 0.56
12 2 0.08
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAGAAACGAA
Found at i:12814075 original size:15 final size:17
Alignment explanation
Indices: 12814049--12814096 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
12814039 TCAAAGAAGT
12814049 AAAAAGAAGAAAGAAACG
1 AAAAAGAA-AAAGAAACG
12814067 AAAAAGAAAAAGAAA-G
1 AAAAAGAAAAAGAAACG
*
12814083 -AAACGAAAAAGAAA
1 AAAAAGAAAAAGAAA
12814097 AAAAAAGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 13 0.45
16 1 0.03
17 7 0.24
18 8 0.28
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAACG
Found at i:12814081 original size:21 final size:21
Alignment explanation
Indices: 12814055--12814104 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
12814045 AAGTAAAAAG
12814055 AAGAAAGAAACGAAAAAGAAA
1 AAGAAAGAAACGAAAAAGAAA
12814076 AAGAAAGAAACGAAAAAGAAA
1 AAGAAAGAAACGAAAAAGAAA
*
12814097 AAAAAAGA
1 AAGAAAGA
12814105 GTACAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAACGAAAAAGAAA
Found at i:12814104 original size:25 final size:24
Alignment explanation
Indices: 12814049--12814101 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 24
12814039 TCAAAGAAGT
*
12814049 AAAAAGAAGAAAGAAACGAAAAAG
1 AAAAAAAAGAAAGAAACGAAAAAG
12814073 ---AAAAAGAAAGAAACGAAAAAG
1 AAAAAAAAGAAAGAAACGAAAAAG
12814094 AAAAAAAA
1 AAAAAAAA
12814102 AGAGTACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 20 0.80
24 5 0.20
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (24 bp):
AAAAAAAAGAAAGAAACGAAAAAG
Found at i:12821902 original size:18 final size:18
Alignment explanation
Indices: 12821879--12821921 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12821869 TTTGGTGCAT
*
12821879 CTTTCTTAACTATCGATG
1 CTTTCTTAACTATAGATG
12821897 CTTTCTTAACTATAGATG
1 CTTTCTTAACTATAGATG
*
12821915 CTGTCTT
1 CTTTCTT
12821922 GGTGCAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (18 bp):
CTTTCTTAACTATAGATG
Found at i:12823908 original size:16 final size:16
Alignment explanation
Indices: 12823882--12823920 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
12823872 AGAAAAATTA
12823882 TATTTTTCAT-CTTTC
1 TATTTTTCATCCTTTC
12823897 TATTTTTCCATCCTTTC
1 TATTTTT-CATCCTTTC
*
12823914 AATTTTT
1 TATTTTT
12823921 TTTTTCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 3 0.14
17 11 0.52
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTTCATCCTTTC
Found at i:12823929 original size:17 final size:19
Alignment explanation
Indices: 12823909--12823943 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12823899 TTTTTCCATC
12823909 CTTT-CAATTTT-TTTTTT
1 CTTTCCAATTTTCTTTTTT
12823926 CTTTCCAATTTTCTTTTT
1 CTTTCCAATTTTCTTTTT
12823944 ACTCTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (19 bp):
CTTTCCAATTTTCTTTTTT
Found at i:12849549 original size:7 final size:7
Alignment explanation
Indices: 12849537--12849563 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12849527 ATAATCATCA
12849537 GAAAAAT
1 GAAAAAT
12849544 GAAAAAT
1 GAAAAAT
12849551 GAAAAAT
1 GAAAAAT
12849558 GAAAAA
1 GAAAAA
12849564 CAAGCTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (7 bp):
GAAAAAT
Found at i:12854009 original size:26 final size:26
Alignment explanation
Indices: 12853978--12854027 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12853968 TTTTATATTA
*
12853978 AAAAAAATA-TATT-TTTTGTTTTTT
1 AAAAAAATATTATTATTTTATTTTTT
12854002 AAATAAAATATTATTATTTTATTTTT
1 AAA-AAAATATTATTATTTTATTTTT
12854028 ATTAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 6 0.27
26 4 0.18
27 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
AAAAAAATATTATTATTTTATTTTTT
Found at i:12854028 original size:26 final size:25
Alignment explanation
Indices: 12853975--12854038 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
12853965 TTTTTTTATA
*
12853975 TTAAAAAAAATATATTTTTTGTTTT
1 TTAAAAAAAATATATTTTTTGATTT
*
12854000 TTAAATAAAATATTATTATTTT-ATTT
1 TTAAAAAAAATA-TATT-TTTTGATTT
**
12854026 TTATTAAAAATAT
1 TTAAAAAAAATAT
12854039 TTAAATTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 12 0.38
26 16 0.50
27 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAAAAAAAATATATTTTTTGATTT
Found at i:12854032 original size:29 final size:26
Alignment explanation
Indices: 12853965--12854035 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
12853955 GCGCAACACC
*
12853965 TTTTTTTATATTAAAAAAAATATATT
1 TTTTTTTTTATTAAAAAAAATATATT
* *
12853991 TTTTGTTTT-TTAAATAAAATATTATT
1 TTTTTTTTTATTAAAAAAAATA-TATT
12854017 ATTTTATTTTTATTAAAAA
1 -TTTT-TTTTTATTAAAAA
12854036 TATTTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 11 0.31
26 11 0.31
27 4 0.11
28 4 0.11
29 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (26 bp):
TTTTTTTTTATTAAAAAAAATATATT
Found at i:12854349 original size:4 final size:4
Alignment explanation
Indices: 12854337--12854401 Score: 60
Period size: 4 Copynumber: 15.5 Consensus size: 4
12854327 CACCCACCGG
* * *
12854337 AAGA GAGA AAGAA AAGA AAGA AATGA GAAGA AAAA AAGA AAAA GAAGA
1 AAGA AAGA AAG-A AAGA AAGA AA-GA -AAGA AAGA AAGA AAGA -AAGA
12854385 AAGA AAGA AA-A AAGA AA
1 AAGA AAGA AAGA AAGA AA
12854402 TTTATTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
3 3 0.06
4 34 0.68
5 11 0.22
6 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:12854366 original size:27 final size:25
Alignment explanation
Indices: 12854344--12854401 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 25
12854334 CGGAAGAGAG
12854344 AAAG-AAAAGAAAGAAATGAGAAGAAAA
1 AAAGAAAAAG-AAGAAA-GAGAAG-AAA
12854371 AAAGAAAAAGAAGAAAGA-AAGAAA
1 AAAGAAAAAGAAGAAAGAGAAGAAA
12854395 AAAGAAA
1 AAAGAAA
12854402 TTTATTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.33
25 3 0.10
26 2 0.07
27 10 0.33
28 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (25 bp):
AAAGAAAAAGAAGAAAGAGAAGAAA
Found at i:12854384 original size:17 final size:17
Alignment explanation
Indices: 12854345--12854396 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
12854335 GGAAGAGAGA
*
12854345 AAGAAAAGAAAGAAATGAG
1 AAGAAAA-AAAGAAA-AAG
12854364 AAGAAAAAAAGAAAAAG
1 AAGAAAAAAAGAAAAAG
*
12854381 AAGAAAGAAAGAAAAA
1 AAGAAAAAAAGAAAAA
12854397 AGAAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 17 0.55
18 7 0.23
19 7 0.23
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAAGAAAAAG
Found at i:12854627 original size:60 final size:60
Alignment explanation
Indices: 12854557--12854670 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
12854547 TATTTTTTGT
* * *
12854557 AATTATTTTAAAATTAATTTGTTAGTAATTTAGGATAATGTTATAAATTTTTGTATTTTA
1 AATTATTTTAAAATTAATTTATTAGTAATTTAGAATAATGTTATAAATTGTTGTATTTTA
*
12854617 AATTATTTTAAAATTAATTTATTAGTAATTTAGAATTATGTTATAAATTGTTGT
1 AATTATTTTAAAATTAATTTATTAGTAATTTAGAATAATGTTATAAATTGTTGT
12854671 GTTTACTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (60 bp):
AATTATTTTAAAATTAATTTATTAGTAATTTAGAATAATGTTATAAATTGTTGTATTTTA
Found at i:12854654 original size:33 final size:32
Alignment explanation
Indices: 12854557--12854665 Score: 102
Period size: 33 Copynumber: 3.5 Consensus size: 32
12854547 TATTTTTTGT
*
12854557 AATTATTTTAAAATTAATTTGTTAGTAATTTAG
1 AATTATGTTAAAATTAATTT-TTAGTAATTTAG
* * * *
12854590 GATAATGTT---ATAAATTTTT-GTATTTTA-
1 AATTATGTTAAAATTAATTTTTAGTAATTTAG
*
12854617 AATTATTTTAAAATTAATTTATTAGTAATTTAG
1 AATTATGTTAAAATTAATTT-TTAGTAATTTAG
12854650 AATTATGTTATAAATT
1 AATTATGTTA-AAATT
12854666 GTTGTGTTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
27 6 0.10
28 7 0.12
29 2 0.03
30 14 0.24
31 2 0.03
32 7 0.12
33 15 0.26
34 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.52
Consensus pattern (32 bp):
AATTATGTTAAAATTAATTTTTAGTAATTTAG
Found at i:12856891 original size:24 final size:24
Alignment explanation
Indices: 12856862--12856907 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
12856852 TTCTGTTCTG
*
12856862 CTAAATTTTGTGTCTGTTGCTCTA
1 CTAAATTTTGTGTCTATTGCTCTA
12856886 CTAAATTTTGTGTCTATTGCTC
1 CTAAATTTTGTGTCTATTGCTC
12856908 ATTTGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (24 bp):
CTAAATTTTGTGTCTATTGCTCTA
Found at i:12856983 original size:22 final size:22
Alignment explanation
Indices: 12856955--12857006 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
12856945 AAGCACCAAA
* *
12856955 CGCGTCTGTAGGCCCTATCAGT
1 CGCGTCTATAGGCCCTACCAGT
12856977 CGCGTCTATAGGCCCTACCAGT
1 CGCGTCTATAGGCCCTACCAGT
12856999 CGCGTCTA
1 CGCGTCTA
12857007 GCAGATAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (22 bp):
CGCGTCTATAGGCCCTACCAGT
Found at i:12859418 original size:24 final size:24
Alignment explanation
Indices: 12859378--12859446 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
12859368 TTCTTCGTCT
* * *
12859378 TCATCTTCACCTTCACCCTCGTAC
1 TCATCTTCATCTCCACCCTCATAC
* **
12859402 TCATCTTCATCTCCACCATCATTT
1 TCATCTTCATCTCCACCCTCATAC
*
12859426 TCATCTTTATCTCCACCCTCA
1 TCATCTTCATCTCCACCCTCA
12859447 GCTTCGTCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.19, C:0.42, G:0.01, T:0.38
Consensus pattern (24 bp):
TCATCTTCATCTCCACCCTCATAC
Found at i:12859456 original size:24 final size:24
Alignment explanation
Indices: 12859402--12859462 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
12859392 ACCCTCGTAC
**
12859402 TCATCTTCATCTCCACCATCATTT
1 TCATCTTCATCTCCACCATCAGCT
* *
12859426 TCATCTTTATCTCCACCCTCAGCT
1 TCATCTTCATCTCCACCATCAGCT
* *
12859450 TCGTCTTCGTCTC
1 TCATCTTCATCTC
12859463 TATCGCTCTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.15, C:0.39, G:0.05, T:0.41
Consensus pattern (24 bp):
TCATCTTCATCTCCACCATCAGCT
Found at i:12863469 original size:19 final size:21
Alignment explanation
Indices: 12863441--12863484 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
12863431 CATGTGAGCA
*
12863441 TTTAATAAATT-TTTTAA-AT
1 TTTAAAAAATTCTTTTAATAT
12863460 TTTAAAAAATTCTTTTAATAT
1 TTTAAAAAATTCTTTTAATAT
12863481 TTTA
1 TTTA
12863485 TAATATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 6 0.27
21 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAAAAATTCTTTTAATAT
Found at i:12864424 original size:28 final size:27
Alignment explanation
Indices: 12864367--12864425 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
12864357 AAATTTTCCC
*
12864367 TTTTTTTTCTAAATAGATACTTAAAATT
1 TTTTTTTTCTAAATAGAAAC-TAAAATT
*
12864395 TTTTTTTTCTCAAATAGAAAC-AAACTT
1 TTTTTTTTCT-AAATAGAAACTAAAATT
12864422 TTTT
1 TTTT
12864426 AGGTCCAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.32
28 10 0.36
29 9 0.32
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (27 bp):
TTTTTTTTCTAAATAGAAACTAAAATT
Found at i:12867014 original size:2 final size:2
Alignment explanation
Indices: 12867007--12867038 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
12866997 AATTCATGAG
*
12867007 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12867039 AAATCTCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:12867969 original size:32 final size:32
Alignment explanation
Indices: 12867933--12867993 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
12867923 TAGTGTGATG
12867933 AGCTTGTCTGACAGTCCCCGAGCTTGTAGATA
1 AGCTTGTCTGACAGTCCCCGAGCTTGTAGATA
12867965 AGCTTGTCTGACAGTCCCCGAGCTTGTAG
1 AGCTTGTCTGACAGTCCCCGAGCTTGTAG
12867994 CTTGACTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (32 bp):
AGCTTGTCTGACAGTCCCCGAGCTTGTAGATA
Found at i:12872020 original size:29 final size:29
Alignment explanation
Indices: 12871987--12872073 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
12871977 AATTGTTAAC
*
12871987 GCCACATGGTCATGTGCCAGGCCGTGTAA
1 GCCACATGGTCATGTGCCAGGCCATGTAA
*
12872016 GCCACAGGGTCATGTGCCAGGCCATGTAA
1 GCCACATGGTCATGTGCCAGGCCATGTAA
* *
12872045 GCCACATGGCCATGTGTCAGGCCATGTAA
1 GCCACATGGTCATGTGCCAGGCCATGTAA
12872074 CTCACTATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.20
Consensus pattern (29 bp):
GCCACATGGTCATGTGCCAGGCCATGTAA
Found at i:12873528 original size:42 final size:42
Alignment explanation
Indices: 12873469--12873578 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
12873459 ATGCCAAAAA
* *
12873469 CCCAGCTATGGTCTTACACGAAGTCTCTTATCGATGTCATAT
1 CCCAGATATGGTCTTACACGAAGTCTCATATCGATGTCATAT
* *
12873511 CTCAGATATGGTCTTACACGAAGTCTCATATTGATGTCATAT
1 CCCAGATATGGTCTTACACGAAGTCTCATATCGATGTCATAT
*
12873553 CCCAGATATGGTCTTACACGTAGTCT
1 CCCAGATATGGTCTTACACGAAGTCT
12873579 TAGTAACCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAAGTCTCATATCGATGTCATAT
Found at i:12874274 original size:17 final size:18
Alignment explanation
Indices: 12874252--12874285 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12874242 AGATCGAGTG
*
12874252 ATAAAG-ACTTTAAAAAT
1 ATAAAGAACATTAAAAAT
12874269 ATAAAGAACATTAAAAA
1 ATAAAGAACATTAAAAA
12874286 CGGGGCAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (18 bp):
ATAAAGAACATTAAAAAT
Found at i:12881098 original size:42 final size:42
Alignment explanation
Indices: 12880993--12881101 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 42
12880983 TTACCAATGT
* * *
12880993 CATATCCCAAATATGGTCATACATGAGATTCTCGTATCTATGC
1 CATATCCC-AATATGGTCTTACATGAGAGTCTCATATCTATGC
*
12881036 CAATAGCCCAACTATGGTCTTACATGA-AGTCTCATA-CTGATGC
1 C-ATATCCCAA-TATGGTCTTACATGAGAGTCTCATATCT-ATGC
12881079 CATATCCCAGATATGGTCTTACA
1 CATATCCCA-ATATGGTCTTACA
12881102 CGTAGTCTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
42 21 0.37
43 16 0.28
44 20 0.35
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
CATATCCCAATATGGTCTTACATGAGAGTCTCATATCTATGC
Found at i:12882851 original size:93 final size:93
Alignment explanation
Indices: 12882744--12882914 Score: 324
Period size: 93 Copynumber: 1.8 Consensus size: 93
12882734 GCCCCTAAGT
*
12882744 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12882809 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
12882837 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12882902 CGAGTTCGGATGC
66 CGAGTTCGGATGC
12882915 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:12882911 original size:46 final size:46
Alignment explanation
Indices: 12882739--12882911 Score: 228
Period size: 46 Copynumber: 3.7 Consensus size: 46
12882729 AACTCGCCCC
* *
12882739 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
12882785 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
12882833 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
12882878 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12882912 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:12883368 original size:30 final size:30
Alignment explanation
Indices: 12883334--12883393 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
12883324 ATTTAATACG
12883334 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
12883364 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
12883394 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:12886593 original size:50 final size:49
Alignment explanation
Indices: 12886472--12886658 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
12886462 TGAGGTCGCA
* * * *
12886472 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
12886523 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
12886573 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
12886622 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
12886659 TAGCTTCGGC
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 39 0.33
50 42 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:12890668 original size:31 final size:31
Alignment explanation
Indices: 12890617--12890680 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
12890607 ATTAACCTTC
*
12890617 TTCTTCTTAAAAATAAAATTTAATTCTTATA
1 TTCTTCTTAAAAATAAAATTTAATTCATATA
** * *
12890648 TTCTTCTTAAATTTAGAATTTAGTTCATATA
1 TTCTTCTTAAAAATAAAATTTAATTCATATA
12890679 TT
1 TT
12890681 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (31 bp):
TTCTTCTTAAAAATAAAATTTAATTCATATA
Done.