Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 152 of 226
Found at i:47602630 original size:15 final size:15
Alignment explanation
Indices: 47602606--47602638 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47602596 TGTATACTTG
47602606 TATATATGTGTTAGA
1 TATATATGTGTTAGA
*
47602621 TATATGTGTGTTAGA
1 TATATATGTGTTAGA
47602636 TAT
1 TAT
47602639 GTTTGCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TATATATGTGTTAGA
Found at i:47606193 original size:20 final size:20
Alignment explanation
Indices: 47606160--47606199 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47606150 TTCACCTCAT
47606160 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
* *
47606180 GCATCGCATTATATGCATTA
1 GCATCACATCATATGCATTA
47606200 AAGACCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:47614449 original size:90 final size:88
Alignment explanation
Indices: 47614186--47614641 Score: 653
Period size: 89 Copynumber: 5.1 Consensus size: 88
47614176 GATCGAATAT
* *
47614186 ACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTA
1 ACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCAAAAAAA-CAGATCTTGTCTTCATGTA
*
47614251 CTGGCGTGAAGTAGATCAAA-GAA
65 CTGGCGTGAAGTAGATCAAAGGTA
* *
47614274 ACCAGATCTTGTGTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGT
1 A-CAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCAAA-AAAACAGATCTTGTCTTCATGT
47614339 ACTGGCGTGAAGTAGATCAAAGGTA
64 ACTGGCGTGAAGTAGATCAAAGGTA
* * * *
47614364 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGA-TCAAAAAAA-CAGATCTTGTCTTCATGT
* *
47614429 ACTAGCGTGAAGTAGATCAAAGATA
64 ACTGGCGTGAAGTAGATCAAAGGTA
* * *
47614454 CCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGGAAACAGATCTTGTCTTCATGTA
1 ACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCAAA-AAAACAGATCTTGTCTTCATGTA
47614519 CTGGCGTGAAGTAGATCAAAGGTA
65 CTGGCGTGAAGTAGATCAAAGGTA
* * * *
47614543 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAACAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGA-TCAA-AAAAACAGATCTTGTCTTCATGT
*
47614608 ACTGGCGTGAAGTAGATCAAAGATA
64 ACTGGCGTGAAGTAGATCAAAGGTA
*
47614633 CCAGATCTT
1 ACAGATCTT
47614642 TGTAACACCC
Statistics
Matches: 329, Mismatches: 31, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
88 1 0.00
89 185 0.56
90 142 0.43
91 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (88 bp):
ACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCAAAAAAACAGATCTTGTCTTCATGTAC
TGGCGTGAAGTAGATCAAAGGTA
Found at i:47614485 original size:179 final size:179
Alignment explanation
Indices: 47614186--47614641 Score: 799
Period size: 179 Copynumber: 2.6 Consensus size: 179
47614176 GATCGAATAT
** * * * *
47614186 ACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGA-TCAAAAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
* *
47614250 ACTGGCGTGAAGTAGATCAAAGAAACCAGATCTTGTGTTCCCATACTGGTGGCGAAGCAGATCAA
66 ACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAA
47614315 AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
131 AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
47614364 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
*
47614429 ACTAGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAA
66 ACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAA
*
47614494 AGGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
131 AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
47614543 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAA-CAGATCTTGTCTTCATG
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAA-AAAAAGCAGATCTTGTCTTCATG
47614607 TACTGGCGTGAAGTAGATCAAAGATACCAGATCTT
65 TACTGGCGTGAAGTAGATCAAAGATACCAGATCTT
47614642 TGTAACACCC
Statistics
Matches: 265, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
178 31 0.12
179 229 0.86
180 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (179 bp):
ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
ACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAA
AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
Found at i:47616234 original size:28 final size:29
Alignment explanation
Indices: 47616173--47616238 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
47616163 AATCAACCAT
47616173 GCACACTTAGTGCCATGCACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
47616202 ACACACTTAGTG-CATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
47616230 GCACACTTA
1 GCACACTTA
47616239 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.09
28 18 0.56
29 11 0.34
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:47616357 original size:173 final size:174
Alignment explanation
Indices: 47616060--47616387 Score: 543
Period size: 173 Copynumber: 1.9 Consensus size: 174
47616050 AACTCAAGGT
* *
47616060 ACTTACCTTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTTA
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
* * *
47616125 TAGAAAATATATATTGGGTTGCACACATAACGTTTAGTAATCAACCATGCACACTTAGTGCCATG
66 TAGAAAATATATATTGGGTTGCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
47616190 CACTTTAAACTCACACACTTAGTGCATGCATTTCAAGTTCGCAC
131 CACTTTAAACTCACACACTTAGTGCATGCATTTCAAGTTCGCAC
47616234 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAA-TTTA
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
** *
47616297 TAGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCAT
66 TAGAAAATATATATTGGGTT-GCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCAT
* *
47616362 GTACTTTAAACTCGCACACTTAGTGC
130 GCACTTTAAACTCACACACTTAGTGC
47616388 TGTACAATTT
Statistics
Matches: 143, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
172 24 0.17
173 112 0.78
174 7 0.05
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (174 bp):
ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
TAGAAAATATATATTGGGTTGCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
CACTTTAAACTCACACACTTAGTGCATGCATTTCAAGTTCGCAC
Found at i:47616379 original size:29 final size:30
Alignment explanation
Indices: 47616340--47616418 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
47616330 CTTAATAATC
47616340 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
47616370 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
47616399 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
47616419 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:47618120 original size:90 final size:90
Alignment explanation
Indices: 47617996--47618214 Score: 332
Period size: 90 Copynumber: 2.4 Consensus size: 90
47617986 GGCTGTTACA
*
47617996 ATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGTA-CT
1 ATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGTATC-
* * *
47618060 AGCGTGAAATAGATCAAAGATACCAG
65 AGCATGAAATAGATCAAAGACAACAG
*
47618086 ATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGTATCG
1 ATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGTATCA
* *
47618151 GCATGAAGTAGATCAAATACAACAG
66 GCATGAAATAGATCAAAGACAACAG
* **
47618176 ATATTGTCTCCCCATACTGGTGGTGGAATAGATTGAAGA
1 ATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGA
47618215 TTACAGATCT
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
90 117 0.99
91 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (90 bp):
ATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGTATCA
GCATGAAATAGATCAAAGACAACAG
Found at i:47618478 original size:132 final size:132
Alignment explanation
Indices: 47618198--47618471 Score: 487
Period size: 132 Copynumber: 2.1 Consensus size: 132
47618188 CATACTGGTG
*
47618198 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGT
1 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
* * *
47618263 GGATTTTACCTCCCTGATGTTGCAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
66 GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
47618328 CA
131 CA
47618330 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
1 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
*
47618395 GGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCT-CCTGGGGCA
66 GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGGCA
47618459 ACA
130 ACA
47618462 GTGGAATAGA
1 GTGGAATAGA
47618472 CAGAAGAAAT
Statistics
Matches: 136, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
131 3 0.02
132 133 0.98
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
CA
Found at i:47618507 original size:132 final size:131
Alignment explanation
Indices: 47618198--47618511 Score: 436
Period size: 132 Copynumber: 2.4 Consensus size: 131
47618188 CATACTGGTG
** * *
47618198 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGT
1 GTGGAATAGACAGAAGATTA-AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
* * *
47618263 GGATTTTACCTCCCTGATGTTGCAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
65 GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
47618328 CA
130 CA
** *
47618330 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
1 GTGGAATAGACAGAAGATTA-AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
*
47618395 GGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCT-CCTGGGGCA
65 GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGGCA
47618459 ACA
129 ACA
**
47618462 GTGGAATAGACAGAAGAAATT-A-ATCCTATCTCCCTGAAGTTGTAGTGGAG
1 GTGGAATAGACAGAAG--ATTAAGATCCTATCTCCCT-AAGCAGTAGTGGAG
47618512 TGGATTAAAA
Statistics
Matches: 168, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
131 15 0.09
132 150 0.89
134 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (131 bp):
GTGGAATAGACAGAAGATTAAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTG
GATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
A
Found at i:47620433 original size:13 final size:13
Alignment explanation
Indices: 47620415--47620444 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
47620405 GTATACTTGT
47620415 ATATATGTGTTAG
1 ATATATGTGTTAG
47620428 ATATATGTGTTAG
1 ATATATGTGTTAG
47620441 ATAT
1 ATAT
47620445 GTTTGCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (13 bp):
ATATATGTGTTAG
Found at i:47620488 original size:14 final size:14
Alignment explanation
Indices: 47620469--47620507 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
47620459 TGTTATATTG
47620469 TATTTGTATATATA
1 TATTTGTATATATA
* *
47620483 TATTTGTAAATATT
1 TATTTGTATATATA
*
47620497 TATTCGTATAT
1 TATTTGTATAT
47620508 GTTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:47620635 original size:19 final size:20
Alignment explanation
Indices: 47620594--47620635 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
47620584 ACCATTCATC
* *
47620594 AAGGTTATTTTCTTGATTCA
1 AAGGTTATTTTCTTGAATAA
*
47620614 AAGGTT-TTTTTTTGAATAA
1 AAGGTTATTTTCTTGAATAA
47620633 AAG
1 AAG
47620636 CATTATTGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:47621675 original size:124 final size:125
Alignment explanation
Indices: 47621502--47621878 Score: 603
Period size: 124 Copynumber: 3.0 Consensus size: 125
47621492 CCCAAACATG
* *
47621502 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
47621567 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * *
47621627 CTACT-TTGTAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
47621691 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * * *
47621751 CTACTGTAGCAAAAGCGCGTCTACGAGGGCGTGATTTCACAAAATCTTATCAAACAGCATTCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
47621816 TAGAAGCGATTTTGTACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
47621876 CTA
1 CTA
47621879 AAAACCCTAA
Statistics
Matches: 232, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
124 118 0.51
125 114 0.49
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:47622702 original size:23 final size:21
Alignment explanation
Indices: 47622669--47622719 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
47622659 GAATGATTAA
* * *
47622669 AATATTTAATTTCAAAAATTT
1 AATAATTAAATTCAAAAAATT
*
47622690 AAGTAATTAAATTGAAAAAATT
1 AA-TAATTAAATTCAAAAAATT
47622712 AATAATTA
1 AATAATTA
47622720 GATGACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (21 bp):
AATAATTAAATTCAAAAAATT
Found at i:47627624 original size:44 final size:46
Alignment explanation
Indices: 47627559--47627646 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 46
47627549 ATCGATAAAA
47627559 TTACATATAAA-TTTATCTTTTTCATTT-TTTACCAAATAAAATTT
1 TTACATATAAATTTTATCTTTTTCATTTGTTTACCAAATAAAATTT
* *
47627603 TTACATATAAACTCTTT-TTTTTTTCATTTGTTTATCAAATAAAA
1 TTACATATAAA-T-TTTATCTTTTTCATTTGTTTACCAAATAAAA
47627647 ATTCATTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
44 11 0.29
46 11 0.29
47 16 0.42
ACGTcount: A:0.35, C:0.11, G:0.01, T:0.52
Consensus pattern (46 bp):
TTACATATAAATTTTATCTTTTTCATTTGTTTACCAAATAAAATTT
Found at i:47634372 original size:22 final size:20
Alignment explanation
Indices: 47634321--47634372 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 20
47634311 TTTTACAATA
47634321 TTTATTTAAAACTTGTTTAT
1 TTTATTTAAAACTTGTTTAT
47634341 TATTATTTTAAAA-TTGTTCTACAT
1 T-TTA-TTTAAAACTTGTT-T--AT
47634365 TTTATTTA
1 TTTATTTA
47634373 TTTTAATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
20 1 0.04
21 8 0.30
22 12 0.44
23 3 0.11
24 3 0.11
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATTTAAAACTTGTTTAT
Found at i:47638268 original size:5 final size:5
Alignment explanation
Indices: 47638258--47638287 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
47638248 TTCATGCATC
47638258 TACAT TACAT TACAT TACAT TACAT TACAT
1 TACAT TACAT TACAT TACAT TACAT TACAT
47638288 GCATTAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TACAT
Found at i:47642475 original size:22 final size:20
Alignment explanation
Indices: 47642424--47642475 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 20
47642414 TTTTACAATA
47642424 TTTATTTAAAACTTGTTTAT
1 TTTATTTAAAACTTGTTTAT
47642444 TATTATTTTAAAA-TTGTTCTACAT
1 T-TTA-TTTAAAACTTGTT-T--AT
47642468 TTTATTTA
1 TTTATTTA
47642476 TTTTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
20 1 0.04
21 8 0.30
22 12 0.44
23 3 0.11
24 3 0.11
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATTTAAAACTTGTTTAT
Found at i:47644622 original size:18 final size:19
Alignment explanation
Indices: 47644599--47644634 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47644589 GATCATTCTG
47644599 ATTTG-TTTCGTTATTTTA
1 ATTTGTTTTCGTTATTTTA
*
47644617 ATTTGTTTTCTTTATTTT
1 ATTTGTTTTCGTTATTTT
47644635 CTGAATTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (19 bp):
ATTTGTTTTCGTTATTTTA
Found at i:47647917 original size:15 final size:15
Alignment explanation
Indices: 47647897--47647925 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47647887 TCGAGAAGAA
47647897 AGAAACAAGTCAGAT
1 AGAAACAAGTCAGAT
47647912 AGAAACAAGTCAGA
1 AGAAACAAGTCAGA
47647926 CAGATAGGAA
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:0.55, C:0.14, G:0.21, T:0.10
Consensus pattern (15 bp):
AGAAACAAGTCAGAT
Found at i:47657218 original size:169 final size:168
Alignment explanation
Indices: 47656984--47657976 Score: 1391
Period size: 169 Copynumber: 5.9 Consensus size: 168
47656974 AGTAGATTAA
* * * * *
47656984 AGCTGAAGTGGAACGAATTAAAGATGTGGGTAGCGAATCCTATCTCTTTGGCATTACCCTGGAAC
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* *
47657049 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGTGCTGCAGTGGAGCAGATTAAAGCTGAG
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGCG-TGCAGCGGAGCAGATTAAAGCTGAG
* *
47657114 GGTAGCGAATCTTATCTCCCTGGCGTTAAGACTTGCAAT
130 GGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
* * * *
47657153 AGCTGAAATGGAGCGGATTAAAGCTGTCGGCAGTGAATCCTATCTCTTTGGCATTATCGTGGAAC
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* * *
47657218 AGATTAAAGCTAAAGGTAGCGAATCTTATTTCAC-GAGCGCTGCAGTGGAGCAGATTAAAGCTGA
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTC-CTGGGCG-TGCAGCGGAGCAGATTAAAGCTGA
**
47657282 GGGCAGCGAATCTTATCTCCCTAACGTTAAGACTTGGAAT
129 GGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
*
47657322 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAT
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
**
47657387 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCAGGCGTTGCAGCGGAGCAGATTAAAGCTGAG
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGCG-TGCAGCGGAGCAGATTAAAGCTGAG
* *
47657452 GGTAACGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
130 GGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
*
47657491 AGCTGAAGTGGAGTGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* * * * ** *
47657556 AAATTAAAGCTAAAGATAGCGAATCTTGTTTCCCGGGCGTTACAATGGAGCAGATTAAAACTG-G
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGCG-TGCAGCGGAGCAGATTAAAGCTGAG
*
47657620 GGACAGCGAATCTTATCTCTCTGGCGTTAAGACTTGGAAT
130 GG-CAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
** * * * *
47657660 AGCTGAAGCAGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTTTTTGGCATTACTGTGAAAA
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* * * *
47657725 ATATTAAAGCTAAAGGTGGCGAGTCTTGTTTTCCT-GGCGTTGCAGCAGAGCAGATTAAAGCTGA
66 AGATTAAAGCTAAAGGTAGCGAATCTTG-TTTCCTGGGCG-TGCAGCGGAGCAGATTAAAGCTGA
* *
47657789 GGGCAGCAAATCTTATCTCCCTCGCGTTAAGACTTGGAAT
129 GGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
* * *
47657829 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCGTTACAGTAGAAC
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* * * *
47657894 AGATTAAGGCTAAAGGTAGCGAATCTGGTTTCCCT-GGCGTGGTAGCGGAGTAGATTAAAGCTGA
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTT-CCTGGGCGT-GCAGCGGAGCAGATTAAAGCTGA
* *
47657958 AGGCAGCGAATCTCATCTC
129 GGGCAGCGAATCTTATCTC
47657977 TCCAGCATTA
Statistics
Matches: 736, Mismatches: 81, Indels: 14
0.89 0.10 0.02
Matches are distributed among these distances:
168 8 0.01
169 719 0.98
170 9 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (168 bp):
AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGCGTGCAGCGGAGCAGATTAAAGCTGAGG
GCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
Found at i:47657646 original size:51 final size:51
Alignment explanation
Indices: 47657506--47657648 Score: 126
Period size: 51 Copynumber: 2.8 Consensus size: 51
47657496 AAGTGGAGTG
* * * **
47657506 GATTAAAGCTGTGGG-CAGCGAATCCTATCTCTTTGGCATTACCGTGGAACA
1 GATTAAAGCTG-GGGACAGCGAATCTTATCTCTCTGGCGTTACAATGGAACA
* *** * * * * * *
47657557 AATTAAAGCTAAAGATAGCGAATCTTGTTTCCCGGGCGTTACAATGGAGCA
1 GATTAAAGCTGGGGACAGCGAATCTTATCTCTCTGGCGTTACAATGGAACA
*
47657608 GATTAAAACTGGGGACAGCGAATCTTATCTCTCTGGCGTTA
1 GATTAAAGCTGGGGACAGCGAATCTTATCTCTCTGGCGTTA
47657649 AGACTTGGAA
Statistics
Matches: 66, Mismatches: 25, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
50 1 0.02
51 65 0.98
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (51 bp):
GATTAAAGCTGGGGACAGCGAATCTTATCTCTCTGGCGTTACAATGGAACA
Found at i:47659508 original size:3 final size:3
Alignment explanation
Indices: 47659500--47659578 Score: 58
Period size: 3 Copynumber: 26.3 Consensus size: 3
47659490 AGCTTGCTAC
*
47659500 TAT TAT TAT TAT TAT TAT TACT CTAT TGT TAT TAT T-T TCAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT T-AT TAT TAT
* * *
47659546 TA- TAT T-T TAC TAT TAT TCT TAG TAT TAT ATAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T
47659579 TGTTTATATT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
2 8 0.13
3 43 0.72
4 7 0.12
5 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:47662840 original size:13 final size:13
Alignment explanation
Indices: 47662822--47662847 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47662812 ACTAGAGAGT
47662822 CAATTTTTTTATA
1 CAATTTTTTTATA
47662835 CAATTTTTTTATA
1 CAATTTTTTTATA
47662848 AATATATAAT
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:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
CAATTTTTTTATA
Found at i:47665716 original size:82 final size:81
Alignment explanation
Indices: 47665576--47665732 Score: 244
Period size: 82 Copynumber: 1.9 Consensus size: 81
47665566 TTTAGATTTG
** * * *
47665576 ATGAATTCATCAAGTCTGTCTCAATAGGACCACCCAAACTTTGGGCTATGAACTCATTAAGAGTA
1 ATGAATTCATCAAGTCCATCTCAATAGGACCACCCAAAATCTAGGCTATGAACTCATTAAGAGTA
47665641 ATAAACTCAACAAGTCA
66 AT-AACTCAACAAGTCA
47665658 ATGAATTCATCAAGTCCATCTCAATAGGACCACCCAAAATCTAGGCTATGAA-TCCATTAAGAGT
1 ATGAATTCATCAAGTCCATCTCAATAGGACCACCCAAAATCTAGGCTATGAACT-CATTAAGAGT
47665722 AATAACTCAAC
65 AATAACTCAAC
47665733 CTTATGCATG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 9 0.13
82 60 0.87
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (81 bp):
ATGAATTCATCAAGTCCATCTCAATAGGACCACCCAAAATCTAGGCTATGAACTCATTAAGAGTA
ATAACTCAACAAGTCA
Found at i:47666386 original size:35 final size:35
Alignment explanation
Indices: 47666343--47666552 Score: 289
Period size: 35 Copynumber: 6.1 Consensus size: 35
47666333 GCAGGGAATA
*
47666343 TTTGTTGCAGGGAATCTCTTCTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
*
47666378 TTTGTTGCAGGGAATCTCTCCTATTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
* *
47666413 TTTGTTGCAGAGAATCTTTCCTG-TCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
* * * * *
47666447 TTTGTTGCAAGGAATCTTTCTTGTTCACACATCA-
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
*
47666481 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
* * *
47666516 TTTGTTGCAAGGAATCTCTCCTGTTCATGTATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
47666551 TT
1 TT
47666553 CTTTTTAGAC
Statistics
Matches: 153, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
34 59 0.39
35 94 0.61
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (35 bp):
TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
Found at i:47666508 original size:103 final size:104
Alignment explanation
Indices: 47666343--47666539 Score: 301
Period size: 103 Copynumber: 1.9 Consensus size: 104
47666333 GCAGGGAATA
* * * *
47666343 TTTGTTGCAGGGAATCTCTTCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACGC
1 TTTGTTGCAAGGAATCTCTTCTGTTCACACATCATTTTCTTGCAGGGAATCTCTCCTATTCACGC
*
47666408 ATTATTTTGTTGC-AGAGAATCTTTCCTGTCACGCATTAT
66 ATTATTTTGTTGCAAG-GAATCTCTCCTGTCACGCATTAT
*
47666447 TTTGTTGCAAGGAATCT-TTCTTGTTCACACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
1 TTTGTTGCAAGGAATCTCTTC-TGTTCACACATCATTTTCTTGCAGGGAATCTCTCCTATTCACG
47666510 CATTATTTTGTTGCAAGGAATCTCTCCTGT
65 CATTATTTTGTTGCAAGGAATCTCTCCTGT
47666540 TCATGTATTA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
103 56 0.66
104 29 0.34
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (104 bp):
TTTGTTGCAAGGAATCTCTTCTGTTCACACATCATTTTCTTGCAGGGAATCTCTCCTATTCACGC
ATTATTTTGTTGCAAGGAATCTCTCCTGTCACGCATTAT
Found at i:47666553 original size:69 final size:69
Alignment explanation
Indices: 47666341--47666555 Score: 297
Period size: 69 Copynumber: 3.1 Consensus size: 69
47666331 TTGCAGGGAA
* * * *
47666341 TATTTGTTGCAGGGAATCTCTTCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCAC
1 TATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCAC
47666406 GCAT
66 GCAT
* * * * *
47666410 TATTTTGTTGCAGAGAATCTTTCCTG-TCACGCATTATTTTGTTGCAAGGAATCTTTCTTGTTCA
1 TA-TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCA
*
47666474 CACAT
65 CGCAT
* *
47666479 CATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCAT
1 TATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCAC
*
47666544 GTAT
66 GCAT
47666548 TATTTCTT
1 TATTTCTT
47666556 TTTAGACCTG
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
68 20 0.16
69 86 0.68
70 20 0.16
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.43
Consensus pattern (69 bp):
TATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCAC
GCAT
Found at i:47669374 original size:20 final size:22
Alignment explanation
Indices: 47669337--47669380 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
47669327 GAGCAAATTG
47669337 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
47669358 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
47669379 TT
1 TT
47669381 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:47687847 original size:18 final size:17
Alignment explanation
Indices: 47687820--47687880 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
47687810 AAATTTATTT
47687820 AAAATTAAAA-AACATTA
1 AAAATTAAAAGAA-ATTA
*
47687837 AAAATTCAAAAGAAATTT
1 AAAATT-AAAAGAAATTA
* *
47687855 AAAATTATAA-AAACTA
1 AAAATTAAAAGAAATTA
*
47687871 AAAACTAAAA
1 AAAATTAAAA
47687881 ATATGTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
16 12 0.33
17 9 0.25
18 13 0.36
19 2 0.06
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAATTAAAAGAAATTA
Found at i:47688301 original size:20 final size:20
Alignment explanation
Indices: 47688264--47688303 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47688254 AAATAATAGA
* *
47688264 TTAAGAATTTTTTTAGTTTT
1 TTAAGAATTTTATGAGTTTT
*
47688284 TTAATAATTTTATGAGTTTT
1 TTAAGAATTTTATGAGTTTT
47688304 AAAATATTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (20 bp):
TTAAGAATTTTATGAGTTTT
Found at i:47690766 original size:26 final size:26
Alignment explanation
Indices: 47690737--47690788 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47690727 CCATAAACTA
47690737 ACATGGGATTTCAAGTGGAAGGATGT
1 ACATGGGATTTCAAGTGGAAGGATGT
47690763 ACATGGGATTTCAAGTGGAAGGATGT
1 ACATGGGATTTCAAGTGGAAGGATGT
47690789 TGTCTTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.35, T:0.27
Consensus pattern (26 bp):
ACATGGGATTTCAAGTGGAAGGATGT
Found at i:47691598 original size:9 final size:9
Alignment explanation
Indices: 47691584--47691611 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
47691574 AATATTGAAT
47691584 AAATTAAAA
1 AAATTAAAA
47691593 AAATTAAAA
1 AAATTAAAA
47691602 AAATTAAAA
1 AAATTAAAA
47691611 A
1 A
47691612 TATATTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATTAAAA
Found at i:47691651 original size:32 final size:31
Alignment explanation
Indices: 47691610--47691672 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
47691600 AAAAATTAAA
* *
47691610 AATATATTTACATTTATTTTAATTTAATATTG
1 AATAAATTTACATATATTTT-ATTTAATATTG
* *
47691642 AATAAATTTATATATATTTTATTTATTATTG
1 AATAAATTTACATATATTTTATTTAATATTG
47691673 TTTTATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (31 bp):
AATAAATTTACATATATTTTATTTAATATTG
Found at i:47693770 original size:10 final size:10
Alignment explanation
Indices: 47693755--47693810 Score: 67
Period size: 10 Copynumber: 5.2 Consensus size: 10
47693745 TAATTAATAA
47693755 TTATTTTATT
1 TTATTTTATT
47693765 TTATTTTATT
1 TTATTTTATT
47693775 TATATTTATATT
1 T-TATTT-TATT
47693787 TATATTTATATT
1 T-TATTT-TATT
*
47693799 TTTTTTTATT
1 TTATTTTATT
47693809 TT
1 TT
47693811 TTGTAACTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
10 17 0.40
11 9 0.21
12 17 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTTTATT
Found at i:47693782 original size:6 final size:6
Alignment explanation
Indices: 47693756--47693799 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
47693746 AATTAATAAT
47693756 TATTT- TATTT- TATTT- TATTTA TATTTA TATTTA TATTTA TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
47693800 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.39
6 23 0.61
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (6 bp):
TATTTA
Found at i:47693788 original size:12 final size:11
Alignment explanation
Indices: 47693756--47693809 Score: 67
Period size: 12 Copynumber: 4.9 Consensus size: 11
47693746 AATTAATAAT
47693756 TATTTTATTT-
1 TATTTTATTTA
47693766 TATTTTATTTA
1 TATTTTATTTA
47693777 TATTTATATTTA
1 TATTT-TATTTA
47693789 TATTTATATTT-
1 TATTT-TATTTA
*
47693800 TTTTTTATTT
1 TATTTTATTT
47693810 TTTGTAACTT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
10 15 0.37
11 9 0.22
12 17 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTATTTA
Found at i:47698156 original size:42 final size:42
Alignment explanation
Indices: 47698077--47698156 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
47698067 CCGAAAAGAG
* *
47698077 CAGTTCAAATATTGATCAGCATGGGGCATAAGGTGATCAGAA
1 CAGTTCAAATATTAATCAGCATGGGGCATAAGATGATCAGAA
* *
47698119 CAGTTCAAATTTTAATCAG-ATAGGGGCATATGATGATC
1 CAGTTCAAATATTAATCAGCAT-GGGGCATAAGATGATC
47698157 TTGCTATACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (42 bp):
CAGTTCAAATATTAATCAGCATGGGGCATAAGATGATCAGAA
Found at i:47699225 original size:44 final size:44
Alignment explanation
Indices: 47699175--47699489 Score: 156
Period size: 44 Copynumber: 7.2 Consensus size: 44
47699165 AATAGCAGAT
* *
47699175 CTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
*** ** * * * * *
47699219 CTTGCC-TCCTTGGGTTG-CAGC-AGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTTCC-TGCACTGACAGCGA-AGCAGATTGAAGACACCAG-C
* *
47699263 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCATC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
* *** * * * * * * *
47699307 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATTGAAGACACCAG-C
* *
47699351 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
* * * * * * * * * *
47699395 CTTGCCTCCCTGGATTG-CAGC-AGATCAGGTTAAAAATATCAGAT
1 CTTGCCTTCCTGCACTGACAGCGA-AGCAGATTGAAGACACCAG-C
* * ** *
47699439 CTTTCCTTCTTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
47699483 CTTGCCT
1 CTTGCCT
47699490 CTCTGGGTTG
Statistics
Matches: 181, Mismatches: 78, Indels: 24
0.64 0.28 0.08
Matches are distributed among these distances:
42 2 0.01
43 52 0.29
44 73 0.40
45 52 0.29
46 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (44 bp):
CTTGCCTTCCTGCACTGACAGCGAAGCAGATTGAAGACACCAGC
Found at i:47699310 original size:88 final size:88
Alignment explanation
Indices: 47699161--47699560 Score: 647
Period size: 88 Copynumber: 4.5 Consensus size: 88
47699151 AACAGATCGG
* *
47699161 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
47699226 CCTTGGGTTGCAGCAGAGCAGGC
66 CCCTGGGTTGCAGCAGAGCAGGT
* *
47699249 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCATCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
47699314 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCAGAGCAGGT
47699337 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
47699402 CCCTGGATTGCAGCAGATCAGGT
66 CCCTGGGTTGCAGCAGAGCAGGT
* * * *
47699425 TAAAAATATCAGATCTTTCCTTCTTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
47699490 CTCTGGGTTGCAGCGGAGTAGGT
66 CCCTGGGTTGCAGCAGAGCAGGT
*
47699513 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGA
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
47699561 TGACCCTAAC
Statistics
Matches: 286, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 286 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCAGAGCAGGT
Found at i:47699621 original size:38 final size:39
Alignment explanation
Indices: 47699569--47699811 Score: 202
Period size: 44 Copynumber: 5.9 Consensus size: 39
47699559 GATGACCCTA
* *
47699569 ACCCTATCTCCCTGGTCAGCATTGGAATAGATTAAAGAG
1 ACCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGAG
* *
47699608 -CCCTATCTCCCTGGTTAGCAGTGAAATAGGTTAAAGATTGTG
1 ACCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGA----G
* * *
47699650 AATCTTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAG
1 -ACCCTATCTCCCTGGTCAGCAGTGGAATAGGTT-AA-A--GAG
** * *
47699694 AATGCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAG
1 -ACCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGAG
*
47699734 -CCCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTG
1 ACCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGA----G
* * *
47699776 AATCCTATCTCCCTGGACAGTAGTGGAATAGGTTAA
1 -ACCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAA
47699812 TGATGGCAAA
Statistics
Matches: 167, Mismatches: 21, Indels: 27
0.78 0.10 0.13
Matches are distributed among these distances:
38 65 0.39
40 3 0.02
42 3 0.02
43 2 0.01
44 89 0.53
45 2 0.01
46 1 0.01
48 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (39 bp):
ACCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGAG
Found at i:47699661 original size:44 final size:44
Alignment explanation
Indices: 47699609--47699834 Score: 248
Period size: 44 Copynumber: 5.3 Consensus size: 44
47699599 ATTAAAGAGC
* *
47699609 CCTATCTCCCTGGTTAGCAGTGAAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
47699653 CTTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
47699697 GCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGA----G--C
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
47699735 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * **
47699779 CCTATCTCCCTGGACAGTAGTGGAATAGGTTAATGATGGCAAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
47699823 CTTATCTCCCTG
1 CCTATCTCCCTG
47699835 AAGTTGCAGT
Statistics
Matches: 152, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
38 32 0.21
40 1 0.01
42 1 0.01
44 118 0.78
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:47699737 original size:126 final size:126
Alignment explanation
Indices: 47699572--47699809 Score: 413
Period size: 126 Copynumber: 1.9 Consensus size: 126
47699562 GACCCTAACC
* * *
47699572 CTATCTCCCTGGTCAGCATTGGAATAGATTAAAGAGCCCTATCTCCCTGGTTAGCAGTGAAATAG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGCCCTATCTCCCTGGTCAGCAGTGAAATAG
* *
47699637 GTTAAAGATTGTGAATCTTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAATG
66 GTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGAGAATG
* *
47699698 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGCCCTATCTCCCTGGTCAGTAGTGGAATAG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGCCCTATCTCCCTGGTCAGCAGTGAAATAG
47699763 GTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGGAATAGGTT
66 GTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGGAATAGGTT
47699810 AATGATGGCA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 105 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (126 bp):
CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGCCCTATCTCCCTGGTCAGCAGTGAAATAG
GTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGAGAATG
Found at i:47699743 original size:82 final size:82
Alignment explanation
Indices: 47699655--47699811 Score: 260
Period size: 82 Copynumber: 1.9 Consensus size: 82
47699645 TTGTGAATCT
* * *
47699655 TATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAATGCTATCTCCCTGGGCAGCAGTGG
1 TATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGACAGCAGTGG
47699720 AATAGATTAAAGAGCCC
66 AATAGATTAAAGAGCCC
* *
47699737 TATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGG
1 TATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGACAGCAGTGG
*
47699802 AATAGGTTAA
66 AATAGATTAA
47699812 TGATGGCAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (82 bp):
TATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGACAGCAGTGG
AATAGATTAAAGAGCCC
Found at i:47699999 original size:45 final size:45
Alignment explanation
Indices: 47699906--47700066 Score: 148
Period size: 45 Copynumber: 3.6 Consensus size: 45
47699896 ATCACATCGG
* * * *
47699906 GTCTTATTTTCCTGAAGTTGTAGTGGAGTAGACCCAA-GAAAGCGA
1 GTCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTCAATG-AAGCAA
* *
47699951 GTCTTATTTCCCTGAAGTTGTAGTGGACCAGACTCAATGAAGTAA
1 GTCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTCAATGAAGCAA
* * * * * *
47699996 GTCTTA-TCCCCTGAAATTGCAGTGGGGCAGACTAAAT-AAACAA
1 GTCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTCAATGAAGCAA
* * * *
47700039 ATCCTATCTCCCTAAAGTTGTAGTGGAG
1 GTCTTATTTCCCTGAAGTTGTAGTGGAG
47700067 TGGATTAGAA
Statistics
Matches: 92, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
43 8 0.09
44 40 0.43
45 43 0.47
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
GTCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTCAATGAAGCAA
Found at i:47700566 original size:58 final size:58
Alignment explanation
Indices: 47700500--47700691 Score: 341
Period size: 58 Copynumber: 3.3 Consensus size: 58
47700490 AAAGTTTCAT
* *
47700500 TAGAGTAGATCGCATCAAGTCTTACCT-CTCTGAGGTTACAGTGGAGCAGACTGAAGAA
1 TAGAGTAGATCGCATCAAGTCTTATCTCCT-TGAGTTTACAGTGGAGCAGACTGAAGAA
47700558 TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
1 TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
47700616 TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
1 TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
*
47700674 TAGAGTAGATCGTATCAA
1 TAGAGTAGATCGCATCAA
47700692 ATTCATCTTT
Statistics
Matches: 130, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
58 128 0.98
59 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (58 bp):
TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
Found at i:47702134 original size:16 final size:16
Alignment explanation
Indices: 47702103--47702139 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
47702093 AATTAATAAT
47702103 TATTTTATTTTATTTA
1 TATTTTATTTTATTTA
47702119 TATTTATATTTT-TTTA
1 TATTT-TATTTTATTTA
47702135 T-TTTT
1 TATTTT
47702140 TGTAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 3 0.15
16 10 0.50
17 6 0.30
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTATTTTATTTA
Found at i:47704097 original size:29 final size:29
Alignment explanation
Indices: 47704052--47704107 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
47704042 TTTGTTTCTT
*
47704052 TTTAATAATATAAGGACTAAATTGATCCA
1 TTTAACAATATAAGGACTAAATTGATCCA
*
47704081 TTTAACAATA-AAGGGACTAATTTGATC
1 TTTAACAATATAA-GGACTAAATTGATC
47704108 AAATCCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (29 bp):
TTTAACAATATAAGGACTAAATTGATCCA
Found at i:47705476 original size:114 final size:119
Alignment explanation
Indices: 47705348--47705567 Score: 315
Period size: 122 Copynumber: 1.9 Consensus size: 119
47705338 TAGTCATTGC
*
47705348 ATATTTAGCCGATTTGTTTTAGGGTTCATAAGAAATT-G-TGTGATT-T-TTTTTAT-TTTTTTA
1 ATATTTAGCCGATTTGTTTTAGGCTTCATAAGAAATTAGATGTGATTATATTTTTATATTTTTTA
* *
47705408 ATTGGATATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGAGTAAGT
66 ATTCGATATTGATGAAACATTCCTTTCCCATGCGTGAAATGTATTCGAGTAAGT
* **
47705462 ATATTTAGCCGATTTGTTTTAGGCTTCATAAGAAATTAGAGATTTTTTTATAGTTTTTATATTTT
1 ATATTTAGCCGATTTGTTTTAGGCTTCATAAGAAATT--AGATGTGATTATA-TTTTTATATTTT
*
47705527 TTAATTCGATATTGATGAAACATTCCTTTCCCATGTGTGAA
63 TTAATTCGATATTGATGAAACATTCCTTTCCCATGCGTGAA
47705568 TATTAGAGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
114 36 0.40
117 1 0.01
118 4 0.04
119 1 0.01
121 7 0.08
122 42 0.46
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (119 bp):
ATATTTAGCCGATTTGTTTTAGGCTTCATAAGAAATTAGATGTGATTATATTTTTATATTTTTTA
ATTCGATATTGATGAAACATTCCTTTCCCATGCGTGAAATGTATTCGAGTAAGT
Found at i:47706981 original size:69 final size:69
Alignment explanation
Indices: 47706899--47707047 Score: 235
Period size: 69 Copynumber: 2.2 Consensus size: 69
47706889 TCTTTCAACA
* *
47706899 AATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAACAGTAAAATGTT
1 AATCATTTCAAAAAACAAACAAAATATGCTATACTAACAAAATGATCCTATAACAATAAAATGTT
47706964 AACC
66 AACC
* * *
47706968 AATCATTTCAAAAAACAAACAAAATATGCTATGCTAACAAAATGATCCTATAGCAATAAGATGTT
1 AATCATTTCAAAAAACAAACAAAATATGCTATACTAACAAAATGATCCTATAACAATAAAATGTT
*
47707033 GACC
66 AACC
*
47707037 AACCATTTCAA
1 AATCATTTCAA
47707048 CAAATCATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (69 bp):
AATCATTTCAAAAAACAAACAAAATATGCTATACTAACAAAATGATCCTATAACAATAAAATGTT
AACC
Found at i:47707481 original size:161 final size:158
Alignment explanation
Indices: 47707157--47707605 Score: 412
Period size: 162 Copynumber: 2.8 Consensus size: 158
47707147 TATGCCATCC
* * * * * * *
47707157 TTTTTT-GGCTTCTAGTTCTCATGCTTATACCAGACT--GAGAACAAAAATCAGAACCCCAAATT
1 TTTTTTGGGCTTCTAGTTTTCGTACTCATACAAGACTAAGAAAAAAAAAATCAGAA-CCCAAATT
* * * *
47707219 AGATTTAAATAATTTGGAATTGACATTAAAAAAGTATTTACGATATACTTGTGATCCAATTGTGT
65 AGA-TTAAATAATTTGAAATTGACATTAAAAAAGTATATACGATATACCTGTGATCCAATTGTAT
*
47707284 TAGGCAGAATGCATAGTGTCATGTTGTTC-
129 TAGACAGAATGCATAGTGTCATGTTGTTCA
* * *
47707313 TTTTTTTGGCTTCTAGTTTGT-GTACTCATACCAGGCTAAGATTAAAAAAAAATCAGAACCTCAA
1 TTTTTTGGGCTTCTAGTTT-TCGTACTCATACAAGACTAAGA--AAAAAAAAATCAGAACC-CAA
* * * * *
47707377 ATTAGATTAAATTATTGTTAAATTGACATTAAAAATAGTGTATACGATATACCTGTGATCTAGTT
62 ATTAGATTAAATAATT-TGAAATTGACATTAAAAA-AGTATATACGATATACCTGTGATCCAATT
* * * *
47707442 GTATTAGACTGAATGCTTGGTGTTATGTTGTT-A
125 GTATTAGACAGAATGCATAGTGTCATGTTGTTCA
* ** *
47707475 TTTTTTGGGCTTCTAGTTTTCGTACTCGTACAAGACTAAGACCAAAAAACTCAGAACCCAAATTA
1 TTTTTTGGGCTTCTAGTTTTCGTACTCATACAAGACTAAGAAAAAAAAAATCAGAACCCAAATTA
* * * * * * * *
47707540 GATTTTAATATTTTGGAATTGACAATGAAAAAATGT-T-TACG-TATACTTGTGTTCCCATTGTG
66 GA-TTAAATAATTTGAAATTGAC-ATTAAAAAA-GTATATACGATATACCTGTGATCCAATTGTA
47707602 TTAG
128 TTAG
47707606 GTTGAATGCA
Statistics
Matches: 239, Mismatches: 40, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
156 6 0.03
157 42 0.18
158 5 0.02
159 21 0.09
160 41 0.17
161 39 0.16
162 85 0.36
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (158 bp):
TTTTTTGGGCTTCTAGTTTTCGTACTCATACAAGACTAAGAAAAAAAAAATCAGAACCCAAATTA
GATTAAATAATTTGAAATTGACATTAAAAAAGTATATACGATATACCTGTGATCCAATTGTATTA
GACAGAATGCATAGTGTCATGTTGTTCA
Found at i:47719108 original size:26 final size:26
Alignment explanation
Indices: 47719053--47719108 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
47719043 ATATTTTCTC
* * *
47719053 AAAATTTTACCAGGGACAAAATCTTC
1 AAAATTTTACCAGAGACAAAATCGTA
*
47719079 AAAATTTTACCA-AGAGTAAAATCGTA
1 AAAATTTTACCAGAGA-CAAAATCGTA
47719105 AAAA
1 AAAA
47719109 AAAATTGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (26 bp):
AAAATTTTACCAGAGACAAAATCGTA
Found at i:47720946 original size:21 final size:21
Alignment explanation
Indices: 47720908--47720947 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47720898 CGTGTGGGAG
**
47720908 GAGGCACATGGTCGTATGGAT
1 GAGGCACATGCCCGTATGGAT
*
47720929 GAGGCACATGCCCTTATGG
1 GAGGCACATGCCCGTATGG
47720948 GCTAGGGACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (21 bp):
GAGGCACATGCCCGTATGGAT
Found at i:47727488 original size:6 final size:6
Alignment explanation
Indices: 47727477--47727510 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
47727467 TAGGTTTCCA
47727477 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
47727511 ATTGCAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:47727690 original size:26 final size:26
Alignment explanation
Indices: 47727654--47727712 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
47727644 TATTTTCTCG
*
47727654 AAATTTTACT-AGTGGCAAAATCTTCA
1 AAATTTTACTAAG-GGCAAAATCGTCA
*
47727680 AAATTTTACTAAGGGTAAAATCGTCA
1 AAATTTTACTAAGGGCAAAATCGTCA
47727706 AAATTTT
1 AAATTTT
47727713 GTTGGGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (26 bp):
AAATTTTACTAAGGGCAAAATCGTCA
Found at i:47728480 original size:28 final size:28
Alignment explanation
Indices: 47728440--47728495 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
47728430 TTTCCAACAA
47728440 TAGCAATTACAAAAATAATATGGATAAC
1 TAGCAATTACAAAAATAATATGGATAAC
47728468 TAGCAATTACAAAAATAATATGGATAAC
1 TAGCAATTACAAAAATAATATGGATAAC
47728496 CGAGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (28 bp):
TAGCAATTACAAAAATAATATGGATAAC
Found at i:47730421 original size:12 final size:12
Alignment explanation
Indices: 47730392--47730439 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
47730382 CATATCTTTG
47730392 ATTTATATATAT
1 ATTTATATATAT
*
47730404 ACTTATATATAT
1 ATTTATATATAT
*
47730416 TTTTATACT-TAT
1 ATTTATA-TATAT
47730428 AATTTATATATA
1 -ATTTATATATA
47730440 CATACATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 20 0.69
13 9 0.31
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTATATATAT
Found at i:47730438 original size:39 final size:39
Alignment explanation
Indices: 47730395--47730500 Score: 115
Period size: 39 Copynumber: 2.7 Consensus size: 39
47730385 ATCTTTGATT
* * * *
47730395 TATATATATACTTATATATATTTTTATACT-TATAATTTA
1 TATATACATACATATATATATTTTTATAATATAT-ATATA
* * *
47730434 TATATACATACATACATACATTTTTGTAATATATATATA
1 TATATACATACATATATATATTTTTATAATATATATATA
* *
47730473 CATATACATACCTATATATATTTTTATA
1 TATATACATACATATATATATTTTTATA
47730501 TTTCTTAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
39 51 0.94
40 3 0.06
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (39 bp):
TATATACATACATATATATATTTTTATAATATATATATA
Found at i:47730675 original size:41 final size:40
Alignment explanation
Indices: 47730615--47730692 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
47730605 ATATATGTTC
*
47730615 TTTATATTTTATGATTTACATA-TATCTATGTATATACTT
1 TTTATATTTTATGATTTACATACTATATATGTATATACTT
47730654 TTTATATTTTATGATAGTTACATACGTATATATGTATAT
1 TTTATATTTTATGAT--TTACATAC-TATATATGTATAT
47730693 GTTTACTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 15 0.44
41 7 0.21
43 12 0.35
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.54
Consensus pattern (40 bp):
TTTATATTTTATGATTTACATACTATATATGTATATACTT
Found at i:47731423 original size:109 final size:109
Alignment explanation
Indices: 47731225--47731637 Score: 548
Period size: 109 Copynumber: 3.8 Consensus size: 109
47731215 ATAAGTAATG
* *
47731225 CAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGATTCGATTTTTCTTGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTTGATTTTTCTTGT
*
47731290 TCAACCAAATAGCCAAATACCCTTTCAAAAATTTCAAAATAAGGA
66 TCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAATAA-GA
* *
47731335 -AATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGATTTAATTTTTCTTGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTTGATTTTTCTTGT
* * *
47731399 TCAACCAAATAGCGAAACATCCTTTCAAAAACTTCAAAATAAGA
66 TCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAATAAGA
* * * * **
47731443 CAATGTTTTGCGTTTGAAAATTTGAGAAAGCGTGCCCTAATTTGCTGGG-TTTCGATTTTTCTCA
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTT-GATTTTTCTTG
** * *
47731507 TTCGTCCAAATAGCCAAATATCTTTTCAAAAATTTTAAAATAAGA
65 TTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAATAAGA
* * * *
47731552 CAATGTTTTGCGTTTGGAAACTCGAGAAAACATGCCCTAATGTGCT-GGTTTTCGATTCTTC--G
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTT-GATTTTTCTTG
**
47731614 TTGGACCAAATAGCCAAATATCCT
65 TTCAACCAAATAGCCAAATATCCT
47731638 ATTATATCTT
Statistics
Matches: 266, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
107 21 0.08
108 7 0.03
109 238 0.89
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (109 bp):
CAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTTGATTTTTCTTGT
TCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAATAAGA
Found at i:47735565 original size:23 final size:23
Alignment explanation
Indices: 47735541--47735620 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
47735531 AAATGTTCAA
*
47735541 AAAAAAAC--AAAAAAAGGAAAG
1 AAAAAAACAAAAAAAAAGAAAAG
47735562 AAAAAAACAAAAAAAAAGAAAAG
1 AAAAAAACAAAAAAAAAGAAAAG
** *
47735585 AAAAAAGGAAAAGAAAAGAAAAG
1 AAAAAAACAAAAAAAAAGAAAAG
*
47735608 AAGAAAAAGAAAA
1 AA-AAAAACAAAA
47735621 GGAAAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
21 8 0.16
23 34 0.67
24 9 0.18
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAAAAAAAAGAAAAG
Found at i:47735573 original size:5 final size:5
Alignment explanation
Indices: 47735552--47735626 Score: 63
Period size: 5 Copynumber: 15.8 Consensus size: 5
47735542 AAAAAACAAA
* *
47735552 AAAAG GAAAG AAAA- AAACA- AAAA- AAAAG AAAAG -AAA- AAAGG AAAAG
1 AAAAG AAAAG AAAAG AAA-AG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
*
47735598 AAAAG AAAAG AAGA- AAAAG AAAAGG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAA
47735627 AAGAGAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
4 16 0.28
5 37 0.64
6 5 0.09
ACGTcount: A:0.80, C:0.01, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:47735573 original size:18 final size:17
Alignment explanation
Indices: 47735544--47735620 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 17
47735534 TGTTCAAAAA
47735544 AAAACAAAAAAAGGAAAG
1 AAAA-AAAAAAAGGAAAG
**
47735562 AAAAAAACAAAAAAAAAG
1 AAAAAAA-AAAAGGAAAG
*
47735580 AAAAGAAAAAAGGAAAAG
1 AAAAAAAAAAAGG-AAAG
* *
47735598 AAAAGAAAAGAAGAAAAAG
1 AAAA-AAAAAAAG-GAAAG
47735617 AAAA
1 AAAA
47735621 GGAAAAAAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
17 7 0.15
18 26 0.55
19 14 0.30
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGGAAAG
Found at i:47735589 original size:13 final size:13
Alignment explanation
Indices: 47735539--47735630 Score: 81
Period size: 13 Copynumber: 7.5 Consensus size: 13
47735529 AAAAATGTTC
*
47735539 AAAAA-AAAACAA
1 AAAAAGAAAAGAA
*
47735551 AAAAAGGAAAG-A
1 AAAAAGAAAAGAA
*
47735563 AAAAA-ACAA-AA
1 AAAAAGAAAAGAA
47735574 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
*
47735587 AAAAGGAAAAG--
1 AAAAAGAAAAGAA
47735598 -AAAAGAAAAGAA
1 AAAAAGAAAAGAA
*
47735610 GAAAAAGAAAAGGA
1 -AAAAAGAAAAGAA
47735624 AAAAAGA
1 AAAAAGA
47735631 GAGTCCAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
10 9 0.14
11 8 0.12
12 14 0.22
13 22 0.34
14 11 0.17
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:47735615 original size:19 final size:18
Alignment explanation
Indices: 47735558--47735630 Score: 94
Period size: 18 Copynumber: 3.9 Consensus size: 18
47735548 CAAAAAAAGG
*
47735558 AAAGAAAA-AAACAAAAAA
1 AAAGAAAAGAAA-AAAGAA
*
47735576 AAAGAAAAGAAAAAAGGA
1 AAAGAAAAGAAAAAAGAA
47735594 AAAGAAAAGAAAAGAAGAA
1 AAAGAAAAGAAAA-AAGAA
47735613 AAAGAAAAGGAAAAAAGA
1 AAAGAAAA-GAAAAAAGA
47735631 GAGTCCAAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
18 25 0.51
19 19 0.39
20 5 0.10
ACGTcount: A:0.81, C:0.01, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGAAAAAAGAA
Found at i:47736077 original size:97 final size:97
Alignment explanation
Indices: 47735911--47736198 Score: 452
Period size: 97 Copynumber: 3.0 Consensus size: 97
47735901 ATTCTTTTCG
* * *
47735911 TATCTTAGCAAAATTTGCTATCTTAATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
* * *
47735976 CATCTTATCCATTATGATAATCTTTTTTATTT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
47736008 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
47736073 CATCTTATCCATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
* * *
47736105 TATCTTAGCAAAATTTTCTATCTGGATTAATTTATTCCA-TGCGAGCTTTGTTCTCAATAAAATT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATT-CATTTCGAGCTTTGTTCTCAATAAAATT
* * *
47736169 TCATCTTGTCCATTGTGATAACCTTATTCA
65 TCATCTTATCCATTGTGATAATCTTTTTCA
47736199 AGCATTTTTC
Statistics
Matches: 178, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
97 176 0.99
98 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (97 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATCT
Found at i:47737229 original size:87 final size:86
Alignment explanation
Indices: 47737048--47737410 Score: 354
Period size: 86 Copynumber: 4.2 Consensus size: 86
47737038 ACTACAAGCA
* * * * * * * *
47737048 GCAGATCTTGTCTTACTGTACCGACAGCGAAGCAGATCGAAGACACCAGT-CTGACCTCCCTGAG
1 GCAGATCTTGTCTTACTATACTGGCAGTGAAGCAGAT--AAAAAACTAGTCCT-ATCTCCCTGAG
** ** *
47737112 TTTGCAGTGGAGTAGACTAAAGATAT
63 -CAGCAGTGGAGTAGGTTGAAGAT-T
* * * *
47737138 -CAGATCTTATCTTACTGTACTGGCAGTGAAGTAGATAAAAAAACTAGTCCTATCTCCCTAAGCA
1 GCAGATCTTGTCTTACTATACTGGCAGTGAAGCAGAT-AAAAAACTAGTCCTATCTCCCTGAGCA
47737202 GCAGTGGAGTAGGTTGAAGATT
65 GCAGTGGAGTAGGTTGAAGATT
* * *
47737224 GCAGATCTTGTCTTCCTATACTGGCAGTGAAACAGATAAAAAACTAGTCCTATCTCCTTGAGCAG
1 GCAGATCTTGTCTTACTATACTGGCAGTGAAGCAGATAAAAAACTAGTCCTATCTCCCTGAGCAG
*
47737289 CAGTGGAGTAGGTCGAAGATT
66 CAGTGGAGTAGGTTGAAGATT
** * * * *
47737310 ATAGATCTTGTCTTTCTATACTGGCAGTGAAGCAGATCGAAAACACCAG-CCTTATCTCTCTGAG
1 GCAGATCTTGTCTTACTATACTGGCAGTGAAGCAGAT--AAAAAACTAGTCC-TATCTCCCTGAG
* *
47737374 CAGCAGCGGAGTAAGTTGAAGATT
63 CAGCAGTGGAGTAGGTTGAAGATT
*
47737398 GCAGATCCTGTCT
1 GCAGATCTTGTCT
47737411 CCCTAAGCAG
Statistics
Matches: 230, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
86 80 0.35
87 51 0.22
88 66 0.29
89 33 0.14
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (86 bp):
GCAGATCTTGTCTTACTATACTGGCAGTGAAGCAGATAAAAAACTAGTCCTATCTCCCTGAGCAG
CAGTGGAGTAGGTTGAAGATT
Found at i:47737461 original size:44 final size:44
Alignment explanation
Indices: 47737413--47737498 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 44
47737403 TCCTGTCTCC
47737413 CTAA-GCAGTAGTGG-AGAAAATTGAAGACAGCAAATCTTATCTTT
1 CTAAGGCAGTAG-GGAAGAAAATTGAAGACA-CAAATCTTATCTTT
* * * *
47737457 CTAAGGTAGTAGGGAAGAAAATTTAAGCCACAAGTCTTATCT
1 CTAAGGCAGTAGGGAAGAAAATTGAAGACACAAATCTTATCT
47737499 CCCTAAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 17 0.47
45 19 0.53
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (44 bp):
CTAAGGCAGTAGGGAAGAAAATTGAAGACACAAATCTTATCTTT
Found at i:47737641 original size:44 final size:44
Alignment explanation
Indices: 47737577--47737666 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
47737567 TTAAAGCAAT
*
47737577 AAATTACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
*
47737621 AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
47737665 AA
1 AA
47737667 GTTACTAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
Found at i:47737690 original size:44 final size:44
Alignment explanation
Indices: 47737577--47737697 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
47737567 TTAAAGCAAT
* *
47737577 AAATTACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCCCTCTGAAGTTGCAGTAGAGTAGGTTG
* *
47737621 AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCCCTCTGAAGTTGCAGTAGAGTAGGTTG
* * *
47737665 AAGTTACTAAA-CTTATCCC-CTTGAAGTTCCAGT
1 AAATAAC-AAACCTTATCCCTC-TGAAGTTGCAGT
47737698 GGGGCAAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.01
44 64 0.94
45 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AAATAACAAACCTTATCCCTCTGAAGTTGCAGTAGAGTAGGTTG
Found at i:47737934 original size:147 final size:147
Alignment explanation
Indices: 47737694--47737960 Score: 408
Period size: 147 Copynumber: 1.8 Consensus size: 147
47737684 CTTGAAGTTC
* *
47737694 CAGTGGGGCAAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTCAAAACGA
1 CAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGA
* *
47737759 TGGATCTTATCTCTCTAAAGTTGCAGTAGAATGGATCACATCAAACTTTATTGAAAATTACAAGT
66 TGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAATTACAAGT
47737824 CTTATCCTCTAAATTTG
131 CTTATCCTCTAAATTTG
* * * * * *
47737841 CAGTGGGGCAAGTTGAAGATACGAGTCCTATTTTCCTGAAGTTGCAGTGGAATGGGTCAAAATGA
1 CAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGA
* * * *
47737906 TGGATCTTATCTTTCTGAAGTTATAGTAGAATAGATCGCATCAAACTTTATTGAA
66 TGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAA
47737961 GCTACAGGTC
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
147 106 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (147 bp):
CAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGA
TGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAATTACAAGT
CTTATCCTCTAAATTTG
Found at i:47737989 original size:147 final size:147
Alignment explanation
Indices: 47737688--47737991 Score: 394
Period size: 147 Copynumber: 2.1 Consensus size: 147
47737678 TATCCCCTTG
* * *
47737688 AAGTTCCAGTGGGGCAAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTCA
1 AAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCA
* * *
47737753 AAACGATGGATCTTATCTCTCTAAAGTTGCAGTAGAATGGATCACATCAAACTTTATTGAAAATT
66 AAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACT
*
47737818 ACAAGTCTTATCCTCTA
131 ACAAGTCTTATCCACTA
* * * * * *
47737835 AATTTGCAGTGGGGCAAGTTGAAGATACGAGTCCTATTTTCCTGAAGTTGCAGTGGAATGGGTCA
1 AAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCA
* * * * * *
47737900 AAATGATGGATCTTATCTTTCTGAAGTTATAGTAGAATAGATCGCATCAAACTTTATTG-AAGCT
66 AAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACT
* *
47737964 ACAGGTCTTATCTCACTG
131 ACAAGTCTTATC-CACTA
*
47737982 AGGTTGCAGT
1 AAGTTGCAGT
47737992 AGAATAGATT
Statistics
Matches: 133, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
146 14 0.11
147 119 0.89
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (147 bp):
AAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCA
AAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACT
ACAAGTCTTATCCACTA
Found at i:47738004 original size:147 final size:146
Alignment explanation
Indices: 47737703--47738036 Score: 359
Period size: 147 Copynumber: 2.3 Consensus size: 146
47737693 CCAGTGGGGC
* ** *
47737703 AAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTCAAAACGATGGATCTTA
1 AAGTTGAAGATACGAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGATGGATCTTA
* * * *
47737768 TCTCTCTAAAGTTGCAGTAGAATGGATCACATCAAACTTTATTGAAAATTACAAGTCTTATCCTC
66 TCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACTACAAGTCTTATCCAC
* * *
47737833 TAAATTTGCAGTGGGGC
131 TAAAGTTGCAGT-GAGA
* * * *
47737850 AAGTTGAAGATACGAGTCCTATTTTCCTGAAGTTGCAGTGGAATGGGTCAAAATGATGGATCTTA
1 AAGTTGAAGATACGAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGATGGATCTTA
* * * * * *
47737915 TCTTTCTGAAGTTATAGTAGAATAGATCGCATCAAACTTTATTG-AAGCTACAGGTCTTATCTCA
66 TCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACTACAAGTCTTATC-CA
* *
47737979 CTGAGGTTGCAGT-AGA
130 CTAAAGTTGCAGTGAGA
** *
47737995 ATAGATTGAAGATA-GCAGATATTATCTCTCTGAAGTTGCAGT
1 A-AG-TTGAAGATACG-AG-TCCTATCTCCCTGAAGTTGCAGT
47738037 AGAGTAGACC
Statistics
Matches: 154, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
145 2 0.01
146 17 0.11
147 117 0.76
148 18 0.12
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (146 bp):
AAGTTGAAGATACGAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGATGGATCTTA
TCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACTACAAGTCTTATCCAC
TAAAGTTGCAGTGAGA
Found at i:47738267 original size:44 final size:44
Alignment explanation
Indices: 47738148--47738300 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 44
47738138 CATGACAAGC
* * **
47738148 CTTATCTCCCTAAAGTTGTGGTGGAGCAGGTTGAAGATATAAGT
1 CTTATCTCCCTAAAGTTGTAGAGGAGCAGACTGAAGATATAAGT
* * * * * * * *
47738192 TTTATTTCCATGAAGTTGCAGTA-GAGTAGACTAAAGATATGAGT
1 CTTATCTCCCTAAAGTTGTAG-AGGAGCAGACTGAAGATATAAGT
* *
47738236 CTTATCTCCCTGAAGTTGTAGAGGAGCAGACTGAAGCTACTAAG-
1 CTTATCTCCCTAAAGTTGTAGAGGAGCAGACTGAAGATA-TAAGT
*
47738280 CTCATCTCCCTAAAGTTGTAG
1 CTTATCTCCCTAAAGTTGTAG
47738301 TGTAACAGAC
Statistics
Matches: 84, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
43 1 0.01
44 80 0.95
45 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGTAGAGGAGCAGACTGAAGATATAAGT
Found at i:47739961 original size:41 final size:40
Alignment explanation
Indices: 47739916--47740046 Score: 113
Period size: 41 Copynumber: 3.2 Consensus size: 40
47739906 CATACCTTTG
* *
47739916 ATTTATATATATACATACTTATATAGATTTTTATACTTATA
1 ATTTATATATATACATACATATATACATTTTTATA-TTATA
* * *
47739957 ATTTATATATAT--ATACATACATACATTTTTGTAATATA
1 ATTTATATATATACATACATATATACATTTTTATATTATA
* * * * *
47739995 TATATATACATATACGTACCTATATATATTTTTATATTTCATA
1 -ATTTATATATATACATACATATATACATTTTTATA-TT-ATA
*
47740038 ATTTTTATA
1 ATTTATATA
47740047 CATATCTATA
Statistics
Matches: 69, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
38 4 0.06
39 27 0.39
41 28 0.41
42 7 0.10
43 3 0.04
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.50
Consensus pattern (40 bp):
ATTTATATATATACATACATATATACATTTTTATATTATA
Found at i:47740947 original size:109 final size:108
Alignment explanation
Indices: 47740750--47741164 Score: 582
Period size: 109 Copynumber: 3.8 Consensus size: 108
47740740 AAAAAATAAG
** * *
47740750 TAAGGCAATGTTTTGCGTTTGGAAATTGGAGAAAACAAGCCCTAATGTGTTGGGATTTGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATT-GAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
* *
47740815 CTTGTTCAACCAAATAGCCAAATACCCTCTCAAAAATTTCAAAA
65 CTTGTTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAA
* *
47740859 TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTCAATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATT-GAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
* ** *
47740924 CTTATTCAACCAAATAGTGAAATATCCTTTCAAAAAATTCAAAA
65 CTTGTTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAA
* *
47740968 TAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAA-TTGAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
* * *
47741033 CTCGTTCGACCAAATAGCCAAATATCCTTTCAAAAATTTTAAAA
65 CTTGTTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAA
* * *
47741077 TAAGGCAATGTTTTGCGTTTGGAAACTTGAGAAAACGTGCCCTAATGCGCTGGGTTTCGATTCTT
1 TAAGGCAATGTTTTGCGTTTGGAAA-TTGAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
**
47741142 C--GTTGGACCAAATAGCCAAATAT
65 CTTGTTCAACCAAATAGCCAAATAT
47741165 TCTCTTATAT
Statistics
Matches: 276, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
107 21 0.08
109 253 0.92
110 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (108 bp):
TAAGGCAATGTTTTGCGTTTGGAAATTGAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTTC
TTGTTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAA
Found at i:47743556 original size:62 final size:61
Alignment explanation
Indices: 47743473--47743600 Score: 186
Period size: 62 Copynumber: 2.1 Consensus size: 61
47743463 GCCACTAAAG
* * *
47743473 CACCAACTAAAGCTTCTTTAGAAAGCCAAGAAACGTACCAAAAAATATCAATGGAAAGAAGA
1 CACCAACTAAAGCTTCCTTAGAAAGCCAAGAAACATACCAAAAAAAATCAATGGAAAGAA-A
* *
47743535 CACCAACTAAAG-TTGCCTTAGAAAGCCAAGGAACATGCCAAAAAAAATCAATGGAAAGAAA
1 CACCAACTAAAGCTT-CCTTAGAAAGCCAAGAAACATACCAAAAAAAATCAATGGAAAGAAA
47743596 CACCA
1 CACCA
47743601 CCAACACTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
61 8 0.13
62 52 0.87
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.14
Consensus pattern (61 bp):
CACCAACTAAAGCTTCCTTAGAAAGCCAAGAAACATACCAAAAAAAATCAATGGAAAGAAA
Found at i:47744896 original size:29 final size:29
Alignment explanation
Indices: 47744862--47744919 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
47744852 CTCTCTTCAT
*
47744862 CTTCTTCACTTTATTTCATTACTCTGTAA
1 CTTCTTCACTTTATTCCATTACTCTGTAA
47744891 CTTCTTCACTTTATTCCATTACTCTGTAA
1 CTTCTTCACTTTATTCCATTACTCTGTAA
47744920 ACATATCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.03, T:0.50
Consensus pattern (29 bp):
CTTCTTCACTTTATTCCATTACTCTGTAA
Found at i:47746447 original size:24 final size:25
Alignment explanation
Indices: 47746415--47746465 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
47746405 AGGCATATAT
* *
47746415 ATGTGTATTTATA-AAAAATTAAAA
1 ATGTATATTGATATAAAAATTAAAA
* *
47746439 ATGTATATTGATATATATATTAAAA
1 ATGTATATTGATATAAAAATTAAAA
47746464 AT
1 AT
47746466 ATATGTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (25 bp):
ATGTATATTGATATAAAAATTAAAA
Found at i:47751596 original size:21 final size:20
Alignment explanation
Indices: 47751559--47751610 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
47751549 TCTGTTAATT
*
47751559 TAATTTTTTATAGAATTTA-
1 TAATTTTTTATAAAATTTAG
47751578 TAATTTTTTATAATAAATTTAG
1 TAATTTTTTAT-A-AAATTTAG
47751600 TAATATTTTTA
1 TAAT-TTTTTA
47751611 GTTTAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 1 0.04
21 6 0.21
22 4 0.14
23 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TAATTTTTTATAAAATTTAG
Found at i:47754514 original size:26 final size:26
Alignment explanation
Indices: 47754479--47754529 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
47754469 ATGTGAAAAG
*
47754479 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
47754505 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
47754530 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:47754535 original size:104 final size:104
Alignment explanation
Indices: 47754400--47754666 Score: 439
Period size: 104 Copynumber: 2.6 Consensus size: 104
47754390 TTGTATATAA
** *
47754400 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47754465 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
47754504 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47754568 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
47754608 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
47754667 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
103 24 0.16
104 127 0.84
105 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47756808 original size:14 final size:14
Alignment explanation
Indices: 47756789--47756817 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47756779 TGAGTAGAGA
47756789 AAAGAGAAGGGCAG
1 AAAGAGAAGGGCAG
47756803 AAAGAGAAGGGCAG
1 AAAGAGAAGGGCAG
47756817 A
1 A
47756818 GATGGAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.41, T:0.00
Consensus pattern (14 bp):
AAAGAGAAGGGCAG
Found at i:47762086 original size:103 final size:103
Alignment explanation
Indices: 47761887--47762137 Score: 422
Period size: 102 Copynumber: 2.5 Consensus size: 103
47761877 AAGGGGTTGT
*
47761887 GTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAA
47761951 AAGGGGGGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 AAGGGGGGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
47761990 GTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTG-AA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
47762053 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 AGGGGG--GCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
*
47762093 GTGCTGATTCCCCGATTCA--GGTGGTGCTAAGTGCGAGATCCACCA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
47762138 ATAACGGTTA
Statistics
Matches: 142, Mismatches: 2, Indels: 9
0.93 0.01 0.06
Matches are distributed among these distances:
101 8 0.06
102 69 0.49
103 61 0.43
104 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (103 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
AGGGGGGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:47767373 original size:45 final size:45
Alignment explanation
Indices: 47767305--47767390 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
47767295 CTAGTAAGGC
47767305 CAATGTCTGATTTGAAGGCGATGTTTGCTCGCCTAAGTTTGAGGG
1 CAATGTCTGATTTGAAGGCGATGTTTGCTCGCCTAAGTTTGAGGG
* *
47767350 CAATGTCTGATTTGAGGGTGATGTTTGCTCGCCTAAGTTTG
1 CAATGTCTGATTTGAAGGCGATGTTTGCTCGCCTAAGTTTG
47767391 TTTGATGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (45 bp):
CAATGTCTGATTTGAAGGCGATGTTTGCTCGCCTAAGTTTGAGGG
Found at i:47768029 original size:37 final size:37
Alignment explanation
Indices: 47767988--47768064 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
47767978 CTTCATGGGG
47767988 TACCAATTTCAATTATTTTAGGTAGAGATCCTCGCTT
1 TACCAATTTCAATTATTTTAGGTAGAGATCCTCGCTT
47768025 TACCAATTTCAATTATTTTAGGTAGAGATCCTCGCTT
1 TACCAATTTCAATTATTTTAGGTAGAGATCCTCGCTT
47768062 TAC
1 TAC
47768065 TTCTCGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (37 bp):
TACCAATTTCAATTATTTTAGGTAGAGATCCTCGCTT
Found at i:47768852 original size:5 final size:5
Alignment explanation
Indices: 47768842--47768866 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47768832 ATTTTTCTTA
47768842 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
47768867 GTTTCCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:47771658 original size:19 final size:19
Alignment explanation
Indices: 47771630--47771669 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47771620 AGAAAAGTTG
47771630 ATGTTATTTTGACAT-TTTT
1 ATGTTATTTT-ACATGTTTT
*
47771649 ATGTTGTTTTACATGTTTT
1 ATGTTATTTTACATGTTTT
47771668 AT
1 AT
47771670 TTTCTTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.20, C:0.05, G:0.12, T:0.62
Consensus pattern (19 bp):
ATGTTATTTTACATGTTTT
Found at i:47771670 original size:86 final size:86
Alignment explanation
Indices: 47771525--47771689 Score: 312
Period size: 86 Copynumber: 1.9 Consensus size: 86
47771515 GATTCCTTTG
*
47771525 AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACGTGTTTTATTTTCTT
1 AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACATGTTTTATTTTCTT
*
47771590 ACGTAAAGAATAATATAATTA
66 ACATAAAGAATAATATAATTA
47771611 AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACATGTTTTATTTTCTT
1 AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACATGTTTTATTTTCTT
47771676 ACATAAAGAATAAT
66 ACATAAAGAATAAT
47771690 TTATATATTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (86 bp):
AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACATGTTTTATTTTCTT
ACATAAAGAATAATATAATTA
Found at i:47777159 original size:3 final size:3
Alignment explanation
Indices: 47777151--47777221 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
47777141 AATTCATCAC
47777151 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47777199 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
47777222 AATTCCTGTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47777813 original size:29 final size:31
Alignment explanation
Indices: 47777770--47777828 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
47777760 CGAAAAATTT
* *
47777770 AATGACTAAACTAGAA-AAAT-TAATAGTTC
1 AATGACTAAAATAGAATAAATGGAATAGTTC
*
47777799 AATGCCTAAAATAGAATAAATGGAATAGTT
1 AATGACTAAAATAGAATAAATGGAATAGTT
47777829 TAGTCACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.56
30 4 0.16
31 7 0.28
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (31 bp):
AATGACTAAAATAGAATAAATGGAATAGTTC
Found at i:47782855 original size:27 final size:27
Alignment explanation
Indices: 47782796--47782861 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
47782786 CCCAAAATGA
*
47782796 TATAAAATGACTGTTATGCCCCCACCT
1 TATAAAATGACTGTCATGCCCCCACCT
** * **
47782823 GGTAAAATGACTGTCATGCCCCTATGT
1 TATAAAATGACTGTCATGCCCCCACCT
47782850 TATAAAATGACT
1 TATAAAATGACT
47782862 ATATGCTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (27 bp):
TATAAAATGACTGTCATGCCCCCACCT
Found at i:47791064 original size:18 final size:18
Alignment explanation
Indices: 47791041--47791077 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47791031 GACTTACATT
47791041 TATATGCCCTTAAGAGAA
1 TATATGCCCTTAAGAGAA
47791059 TATATGCCCTTAAGAGAA
1 TATATGCCCTTAAGAGAA
47791077 T
1 T
47791078 CTTTACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (18 bp):
TATATGCCCTTAAGAGAA
Found at i:47797686 original size:49 final size:48
Alignment explanation
Indices: 47797633--47797820 Score: 150
Period size: 50 Copynumber: 3.8 Consensus size: 48
47797623 CATGCATTTG
* * *
47797633 GGAGCAGGGTCA-TCTTATTACTTTTCGTAAGCCTCCTTCCATGCGTTTA
1 GGAGCAGGGTCACT-TTATTACTTTTCATAAGCCTCC-CCCATACGTTTA
** * *
47797682 GGAGCAATGTCACTTTATTATAATTTTCTATAAGCCTTCCCCCATACGTTCA
1 GGAGCAGGGTCACTTTA-T-TACTTTTC-ATAAGCC-TCCCCCATACGTTTA
* * *
47797734 GGAGCAGGG-C-TTTTATTACTACATTCCATAAGCCCCCTCCCATACGTTTA
1 GGAGCAGGGTCACTTTATTACT---TTTCATAAGCCTCC-CCCATACGTTTA
*
47797784 GGAGCAGGGTCACTTTATTAC-CTTCTATAAGCCTCCC
1 GGAGCAGGGTCACTTTATTACTTTTC-ATAAGCCTCCC
47797821 TTCATGCATT
Statistics
Matches: 109, Mismatches: 18, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
48 6 0.06
49 25 0.23
50 33 0.30
51 12 0.11
52 30 0.28
53 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (48 bp):
GGAGCAGGGTCACTTTATTACTTTTCATAAGCCTCCCCCATACGTTTA
Found at i:47805426 original size:21 final size:21
Alignment explanation
Indices: 47805402--47805450 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
47805392 CACATCACAG
*
47805402 ATAATATGCAGTCAAGCTGCC
1 ATAATATGCAGTCAAGCTACC
47805423 ATAATATGCAGTCAAGCTACC
1 ATAATATGCAGTCAAGCTACC
*
47805444 AGAATAT
1 ATAATAT
47805451 AGGCAAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (21 bp):
ATAATATGCAGTCAAGCTACC
Found at i:47808273 original size:17 final size:17
Alignment explanation
Indices: 47808251--47808287 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
47808241 AATATAATAC
47808251 TGTTAATAATGAATTTA
1 TGTTAATAATGAATTTA
47808268 TGTTAATAATGAATTTA
1 TGTTAATAATGAATTTA
47808285 TGT
1 TGT
47808288 CACGGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (17 bp):
TGTTAATAATGAATTTA
Found at i:47809786 original size:5 final size:5
Alignment explanation
Indices: 47809776--47809814 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
47809766 AAAGACTGGT
47809776 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
47809815 CTTCGGCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:47810387 original size:20 final size:19
Alignment explanation
Indices: 47810349--47810387 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
47810339 CATGTTATTA
**
47810349 TTTTTTTTCTTCCCCTTTT
1 TTTTTTTTCTTCCAATTTT
47810368 TTTTTCTTTCTTCCAATTTT
1 TTTTT-TTTCTTCCAATTTT
47810388 CGAAATTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTTTCTTCCAATTTT
Found at i:47812873 original size:13 final size:12
Alignment explanation
Indices: 47812841--47812872 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
47812831 AATTTAAAAA
47812841 TTTAAAAACTAT
1 TTTAAAAACTAT
47812853 TTTAAAAACTAT
1 TTTAAAAACTAT
47812865 TTTAAAAA
1 TTTAAAAA
47812873 ATTAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTAAAAACTAT
Found at i:47812909 original size:21 final size:22
Alignment explanation
Indices: 47812875--47812934 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
47812865 TTTAAAAAAT
*
47812875 TAAAA-TTATTAAAATTA-TTA
1 TAAAATTTTTTAAAATTATTTA
* *
47812895 TAAAATTTTTTAAAAATATTTT
1 TAAAATTTTTTAAAATTATTTA
**
47812917 TAAAATTTTAAAAAATTA
1 TAAAATTTTTTAAAATTA
47812935 ATTAAATGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 5 0.16
21 10 0.31
22 17 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAAATTTTTTAAAATTATTTA
Found at i:47812939 original size:20 final size:20
Alignment explanation
Indices: 47812872--47812940 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 20
47812862 TATTTTAAAA
47812872 AATTAAAATTATT--AAAATT
1 AATTAAAATT-TTAAAAAATT
*
47812891 ATTATAAAATTTTTTAAAAATATT
1 AAT-TAAAA--TTTTAAAAA-ATT
*
47812915 -TTTAAAATTTTAAAAAATT
1 AATTAAAATTTTAAAAAATT
47812934 AATTAAA
1 AATTAAA
47812941 TGTGGATGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
19 5 0.12
20 19 0.46
21 2 0.05
22 7 0.17
23 5 0.12
24 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTAAAATTTTAAAAAATT
Found at i:47818306 original size:17 final size:15
Alignment explanation
Indices: 47818272--47818302 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47818262 CATCCCTAAC
47818272 AAAGTAGGATTTTAT
1 AAAGTAGGATTTTAT
47818287 AAAGTAGGATTTTAT
1 AAAGTAGGATTTTAT
47818302 A
1 A
47818303 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (15 bp):
AAAGTAGGATTTTAT
Found at i:47820395 original size:58 final size:58
Alignment explanation
Indices: 47820235--47820395 Score: 304
Period size: 58 Copynumber: 2.8 Consensus size: 58
47820225 TCCTTTTTAC
*
47820235 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAACACCACATGATAGT
1 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAATACCACATGATAGT
47820293 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAATACCACATGATAGT
1 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAATACCACATGATAGT
*
47820351 TTAATTAACTATTGAAATGATAAAATTTTCCAACAAAACTTTAAT
1 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAAT
47820396 TAAACTCTGT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 101 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (58 bp):
TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAATACCACATGATAGT
Found at i:47846441 original size:40 final size:39
Alignment explanation
Indices: 47846397--47846531 Score: 119
Period size: 40 Copynumber: 3.4 Consensus size: 39
47846387 GTTTGGAACA
* *
47846397 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCC
1 AAAGCGCCGCAAAAAAT-GAGCATTAGCGGCGATTTACCC
* ** *
47846437 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGCGATTT-CCC
1 AAAGCGCCGCAAAAAAT-GAGCATTAGCGGCGATTTACCC
* * * * ***
47846476 AGAAGCGCCGCTAAAAATAAGAATTAGCGGCGTTTTATAT
1 A-AAGCGCCGCAAAAAATGAGCATTAGCGGCGATTTACCC
47846516 AAAGCGCCGCAAAAAA
1 AAAGCGCCGCAAAAAA
47846532 CCTAAGACCA
Statistics
Matches: 76, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
39 31 0.41
40 45 0.59
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (39 bp):
AAAGCGCCGCAAAAAATGAGCATTAGCGGCGATTTACCC
Found at i:47846605 original size:41 final size:41
Alignment explanation
Indices: 47846560--47846796 Score: 237
Period size: 41 Copynumber: 5.8 Consensus size: 41
47846550 TTTTTAAACC
*
47846560 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG-CA
* * * *
47846601 TTTAGTGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
* * *
47846642 GTTAGCGGCGTTCTTATCTAAGCGCCGCTAATGCTC-GGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG-CA
* * * * *
47846683 TTTAGCGGCATTTTTATCTGAGCGCCACTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
* * ** *
47846724 TTTAGCGGCGCTTGTATCTAAGCGCCGCTAATGCAT-TTACC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCTGGCA
** *
47846765 TTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
47846797 AGTAACAAAA
Statistics
Matches: 159, Mismatches: 33, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
40 2 0.01
41 152 0.96
42 5 0.03
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
Found at i:47846788 original size:123 final size:123
Alignment explanation
Indices: 47846560--47846796 Score: 280
Period size: 123 Copynumber: 1.9 Consensus size: 123
47846550 TTTTTAAACC
* * * * * * *
47846560 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGTGGCGTTTTTATCTGAGCG
1 TTTAGCGGCATTTTTATCTAAGCGCCACTAATGCTCGGACATTTAGCGGCGCTTGTATCTAAGCG
* * * *
47846625 CCGCTAATTCTCTGGCCGTTAGCGGCGTTCTTATCTAAGCGCCGCTAATGCTCGGATA
66 CCGCTAATGCTCTGACCGTTAGCGGCGTTCTTACCGAAGCGCCGCTAATGCTCGGATA
* * *
47846683 TTTAGCGGCATTTTTATCTGAGCGCCACTAATTCTCTGG-CCTTTAGCGGCGCTTGTATCTAAGC
1 TTTAGCGGCATTTTTATCTAAGCGCCACTAATGCTC-GGACATTTAGCGGCGCTTGTATCTAAGC
* * * *
47846747 GCCGCTAATGCAT-TTACCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
65 GCCGCTAATGC-TCTGACCGTTAGCGGCGTTCTTACCGAAGCGCCGCTAAT
47846797 AGTAACAAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
123 91 0.97
124 3 0.03
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (123 bp):
TTTAGCGGCATTTTTATCTAAGCGCCACTAATGCTCGGACATTTAGCGGCGCTTGTATCTAAGCG
CCGCTAATGCTCTGACCGTTAGCGGCGTTCTTACCGAAGCGCCGCTAATGCTCGGATA
Found at i:47846796 original size:82 final size:81
Alignment explanation
Indices: 47846558--47846757 Score: 328
Period size: 82 Copynumber: 2.4 Consensus size: 81
47846548 ATTTTTTAAA
*
47846558 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCGTTTTTATCTGAG
47846623 CGCCGCTAATTCTCTGG
65 CGCCGCTAATTCTCTGG
* *
47846640 CCGTTAGCGGCGTTCTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCATTTTTATCTGAG
1 CCTTTAGCGGCGTT-TTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCGTTTTTATCTGAG
*
47846705 CGCCACTAATTCTCTGG
65 CGCCGCTAATTCTCTGG
*
47846722 CCTTTAGCGGCGCTTGTATCTAAGCGCCGCTAATGC
1 CCTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGC
47846758 ATTTACCTTT
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
81 2 0.02
82 106 0.96
83 2 0.02
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.34
Consensus pattern (81 bp):
CCTTTAGCGGCGTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCGTTTTTATCTGAGC
GCCGCTAATTCTCTGG
Found at i:47847344 original size:15 final size:15
Alignment explanation
Indices: 47847310--47847344 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47847300 TTTAAGGTTA
47847310 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
47847325 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
47847340 ATTTA
1 ATTTA
47847345 AGGTTTCAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:47849519 original size:12 final size:10
Alignment explanation
Indices: 47849501--47849531 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
47849491 GATATGTTTT
47849501 TTGATATATA
1 TTGATATATA
*
47849511 TGGATATATA
1 TTGATATATA
47849521 TTGATATATA
1 TTGATATATA
47849531 T
1 T
47849532 GTAGTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (10 bp):
TTGATATATA
Found at i:47851994 original size:21 final size:21
Alignment explanation
Indices: 47851965--47852017 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
47851955 ATCTTTTATA
*
47851965 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TACAATTT
47851987 TA-ATATATTTATTACAATTT
1 TATATATATTTATTACAATTT
47852007 TATATATATTT
1 TATATATATTT
47852018 GAAAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTACAATTT
Found at i:47852114 original size:37 final size:37
Alignment explanation
Indices: 47852061--47852187 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 37
47852051 CATAACATGT
47852061 ATAAATTTATATATAAACTTACACAACACATAACTTAC
1 ATAAA-TTATATATAAACTTACACAACACATAACTTAC
* * * *
47852099 ATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAA
1 ATAAATTATATATAAAC---T-TA-CAC--A-ACACATAACTTAC
47852144 ATCCAAATATATATATAAACTTACACAACACATAACTTAC
1 AT--AAAT-TATATATAAACTTACACAACACATAACTTAC
47852184 ATAA
1 ATAA
47852188 TAACTTACAT
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
37 12 0.17
38 6 0.09
40 14 0.20
41 3 0.04
42 2 0.03
43 2 0.03
44 3 0.04
45 14 0.20
47 3 0.04
48 11 0.16
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (37 bp):
ATAAATTATATATAAACTTACACAACACATAACTTAC
Found at i:47852127 original size:32 final size:31
Alignment explanation
Indices: 47852090--47852230 Score: 103
Period size: 32 Copynumber: 4.4 Consensus size: 31
47852080 TACACAACAC
47852090 ATAACTTACATAAGTTATATATAAACTTATAT
1 ATAACTTACATAA-TTATATATAAACTTATAT
* *
47852122 ATAACTTACATACATAACTTAAATCCAAA-TATATAT
1 ATAACTTACATA-ATTA--TATAT--AAACT-TATAT
* * * *
47852158 ATAAACTTACA-CA--ACACAT-AACTTACAT
1 AT-AACTTACATAATTATATATAAACTTATAT
47852186 AATAACTTACATAAGTTATATATAAACTTATAT
1 -ATAACTTACATAA-TTATATATAAACTTATAT
47852219 ATAACTTACATA
1 ATAACTTACATA
47852231 CATAACTTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
28 14 0.16
29 4 0.05
31 3 0.04
32 30 0.35
33 10 0.12
34 4 0.05
35 2 0.02
36 10 0.12
37 8 0.09
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (31 bp):
ATAACTTACATAATTATATATAAACTTATAT
Found at i:47852158 original size:48 final size:46
Alignment explanation
Indices: 47852060--47852263 Score: 198
Period size: 48 Copynumber: 4.2 Consensus size: 46
47852050 ACATAACATG
* * * *
47852060 TATAAATTTATATATAAACTTACACAACACATAACTTACAT-AAGTTATA
1 TATAAACTTATATAT-AACTT--AC-ATACATAACTTAAATCAAATTATA
47852109 TATAAACTTATATATAACTTACATACATAACTTAAATCCAAATATATA
1 TATAAACTTATATATAACTTACATACATAACTTAAAT-CAAAT-TATA
* * * *
47852157 TATAAACTTACACAACACATAACTTACATA-ATAACTTACAT-AAGTTATA
1 TATAAACTT-----ATATATAACTTACATACATAACTTAAATCAAATTATA
47852206 TATAAACTTATATATAACTTACATACATAACTTAAATCAAATTTTATA
1 TATAAACTTATATATAACTTACATACATAACTTAAATCAAA--TTATA
47852254 TATAAACTTA
1 TATAAACTTA
47852264 CACAACACAT
Statistics
Matches: 131, Mismatches: 12, Indels: 25
0.78 0.07 0.15
Matches are distributed among these distances:
44 14 0.11
45 23 0.18
46 4 0.03
47 3 0.02
48 33 0.25
49 27 0.21
50 3 0.02
52 10 0.08
53 14 0.11
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (46 bp):
TATAAACTTATATATAACTTACATACATAACTTAAATCAAATTATA
Found at i:47852191 original size:97 final size:97
Alignment explanation
Indices: 47852090--47852338 Score: 362
Period size: 97 Copynumber: 2.5 Consensus size: 97
47852080 TACACAACAC
47852090 ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAATCCAAA-TAT
1 ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAAT-CAAATTAT
47852154 ATATATAAACTTACACAACACATAACTTACATA
65 ATATATAAACTTACACAACACATAACTTACATA
*
47852187 ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAATCAAATTTTA
1 ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAATCAAATTATA
*
47852252 TATATAAACTTACACAACACATAACTTATATA
66 TATATAAACTTACACAACACATAACTTACATA
* * * *
47852284 AT-ACATAATACATAACTTACATA-ATAACTTACATAATATCTTACATA-ATAACTTA
1 ATAAC-T--TACATAAGTTATATATA-AACTTATAT-ATAACTTACATACATAACTTA
47852339 CATAATAATA
Statistics
Matches: 140, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
96 6 0.04
97 93 0.66
98 1 0.01
99 29 0.21
100 11 0.08
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.35
Consensus pattern (97 bp):
ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAATCAAATTATA
TATATAAACTTACACAACACATAACTTACATA
Found at i:47852192 original size:12 final size:12
Alignment explanation
Indices: 47852175--47852346 Score: 101
Period size: 12 Copynumber: 14.3 Consensus size: 12
47852165 TACACAACAC
47852175 ATAACTTACATA
1 ATAACTTACATA
47852187 ATAACTTAC---
1 ATAACTTACATA
* *
47852196 ATAAGTTATAT-
1 ATAACTTACATA
*
47852207 ATAAACTTATAT-
1 AT-AACTTACATA
47852219 ATAACTTACATA
1 ATAACTTACATA
* *
47852231 CATAACTTAAATC
1 -ATAACTTACATA
**
47852244 A-AA-TTTTATA
1 ATAACTTACATA
*
47852254 TATAAACTTACACAACA
1 -AT-AACTT--AC-ATA
*
47852271 CATAACTTATATA
1 -ATAACTTACATA
*
47852284 AT-ACATA-ATA
1 ATAACTTACATA
47852294 CATAACTTACATA
1 -ATAACTTACATA
47852307 ATAACTTACATA
1 ATAACTTACATA
*
47852319 ATATCTTACATA
1 ATAACTTACATA
47852331 ATAACTTACATA
1 ATAACTTACATA
47852343 ATAA
1 ATAA
47852347 TACATACCCT
Statistics
Matches: 126, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
9 7 0.06
10 7 0.06
11 19 0.15
12 64 0.51
13 17 0.13
14 3 0.02
16 5 0.04
17 4 0.03
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:47852199 original size:21 final size:21
Alignment explanation
Indices: 47852173--47852239 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
47852163 CTTACACAAC
47852173 ACATAACTTACATAATAACTT
1 ACATAACTTACATAATAACTT
* *
47852194 ACATAAGTTATAT-ATAAACTTAT
1 ACATAACTTACATAAT-AAC-T-T
*
47852217 ATATAACTTACATACATAACTT
1 ACATAACTTACATA-ATAACTT
47852239 A
1 A
47852240 AATCAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 3 0.08
23 12 0.33
24 3 0.08
25 2 0.06
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (21 bp):
ACATAACTTACATAATAACTT
Found at i:47852304 original size:16 final size:17
Alignment explanation
Indices: 47852285--47852754 Score: 185
Period size: 16 Copynumber: 27.5 Consensus size: 17
47852275 ACTTATATAA
47852285 TACATAA-TACATAACT
1 TACATAATTACATAACT
* * *
47852301 TACATAATAAC-TTACA
1 TACATAATTACATAACT
*
47852317 TA-ATATCTTACATAATAACT
1 TACATA-ATTAC--A-TAACT
* *
47852337 TACATAATAATACATACCC
1 TACATAAT--TACATAACT
* *
47852356 TACATAAATTAAATAAGT
1 TACAT-AATTACATAACT
* *
47852374 TACATAA-TACACAA-A
1 TACATAATTACATAACT
* *
47852389 AACAAAAACTTACATAACT
1 TAC-ATAA-TTACATAACT
47852408 TACATAA-TACATAACT
1 TACATAATTACATAACT
* *
47852424 TACATAACCTACTTAA--
1 TACATAA-TTACATAACT
*
47852440 TACATAACTTGCATAACT
1 TACATAA-TTACATAACT
* *
47852458 TACATAA-TACACAGCT
1 TACATAATTACATAACT
* *
47852474 TACAT-GTGTAAATAA--
1 TACATAAT-TACATAACT
*
47852489 TACACAACTTACATAACT
1 TACATAA-TTACATAACT
** *
47852507 TACATACCCTACATAAAT
1 TACATA-ATTACATAACT
*
47852525 TAAATAAGTTACATAA-T
1 TACATAA-TTACATAACT
** *
47852542 AATACATACCCTACATAAAT
1 --TACATA-ATTACATAACT
*
47852562 TAAATAAGTTACATAA--
1 TACATAA-TTACATAACT
* ** *
47852578 TACACAAAAACAAAACT
1 TACATAATTACATAACT
47852595 TACATAACTTACATAA--
1 TACATAA-TTACATAACT
*
47852611 TACACAACTTACATAACT
1 TACATAA-TTACATAACT
* *
47852629 TATATAA-TACACAACT
1 TACATAATTACATAACT
47852645 TACATAACTTACATAA--
1 TACATAA-TTACATAACT
47852661 TACATAATTTACATAACT
1 TACATAA-TTACATAACT
*
47852679 TACATAA-GACATAACT
1 TACATAATTACATAACT
* *
47852695 TACACAAGTTTCATAA--
1 TACATAA-TTACATAACT
* *
47852711 TACACAACTTACACAACT
1 TACATAA-TTACATAACT
47852729 TACATAACTTACATAACT
1 TACATAA-TTACATAACT
47852747 TACATAAT
1 TACATAAT
47852755 GTATAACTTA
Statistics
Matches: 335, Mismatches: 75, Indels: 87
0.67 0.15 0.18
Matches are distributed among these distances:
15 14 0.04
16 145 0.43
17 17 0.05
18 120 0.36
19 22 0.07
20 11 0.03
21 3 0.01
22 3 0.01
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (17 bp):
TACATAATTACATAACT
Found at i:47852306 original size:9 final size:9
Alignment explanation
Indices: 47852258--47852753 Score: 232
Period size: 9 Copynumber: 57.2 Consensus size: 9
47852248 TTTATATATA
*
47852258 AACTTACAC
1 AACTTACAT
47852267 AAC--ACAT
1 AACTTACAT
*
47852274 AACTTATAT
1 AACTTACAT
47852283 AA--TACAT
1 AACTTACAT
47852290 AA--TACAT
1 AACTTACAT
47852297 AACTTACATAAT
1 AACTTAC---AT
47852309 AACTTACAT
1 AACTTACAT
47852318 AATATCTTACATAAT
1 -A-A-CTTAC---AT
47852333 AACTTACAT
1 AACTTACAT
47852342 AA-TAATACAT
1 AACT--TACAT
* *
47852352 ACCCTACAT
1 AACTTACAT
* *
47852361 AAATTAAAT
1 AACTTACAT
*
47852370 AAGTTACAT
1 AACTTACAT
*
47852379 AA--TACAC
1 AACTTACAT
** *
47852386 AA-AAACAA
1 AACTTACAT
47852394 AAACTTACAT
1 AA-CTTACAT
47852404 AACTTACAT
1 AACTTACAT
47852413 AA--TACAT
1 AACTTACAT
47852420 AACTTACAT
1 AACTTACAT
* *
47852429 AACCTACTT
1 AACTTACAT
47852438 AA--TACAT
1 AACTTACAT
*
47852445 AACTTGCAT
1 AACTTACAT
47852454 AACTTACAT
1 AACTTACAT
*
47852463 AA--TACAC
1 AACTTACAT
*
47852470 AGCTTACAT
1 AACTTACAT
* *
47852479 --GTGTAAAT
1 AACT-TACAT
*
47852487 AA--TACAC
1 AACTTACAT
47852494 AACTTACAT
1 AACTTACAT
47852503 AACTTACAT
1 AACTTACAT
* *
47852512 ACCCTACAT
1 AACTTACAT
* *
47852521 AAATTAAAT
1 AACTTACAT
*
47852530 AAGTTACAT
1 AACTTACAT
47852539 AA-TAATACAT
1 AACT--TACAT
* *
47852549 ACCCTACAT
1 AACTTACAT
* *
47852558 AAATTAAAT
1 AACTTACAT
*
47852567 AAGTTACAT
1 AACTTACAT
*
47852576 AA--TACAC
1 AACTTACAT
** *
47852583 AA-AAACAA
1 AACTTACAT
47852591 AACTTACAT
1 AACTTACAT
47852600 AACTTACAT
1 AACTTACAT
*
47852609 AA--TACAC
1 AACTTACAT
47852616 AACTTACAT
1 AACTTACAT
*
47852625 AACTTATAT
1 AACTTACAT
*
47852634 AA--TACAC
1 AACTTACAT
47852641 AACTTACAT
1 AACTTACAT
47852650 AACTTACAT
1 AACTTACAT
47852659 AA--TACAT
1 AACTTACAT
*
47852666 AATTTACAT
1 AACTTACAT
47852675 AACTTACAT
1 AACTTACAT
*
47852684 AA--GACAT
1 AACTTACAT
*
47852691 AACTTACAC
1 AACTTACAT
* *
47852700 AAGTTTCAT
1 AACTTACAT
*
47852709 AA--TACAC
1 AACTTACAT
*
47852716 AACTTACAC
1 AACTTACAT
47852725 AACTTACAT
1 AACTTACAT
47852734 AACTTACAT
1 AACTTACAT
47852743 AACTTACAT
1 AACTTACAT
47852752 AA
1 AA
47852754 TGTATAACTT
Statistics
Matches: 374, Mismatches: 68, Indels: 90
0.70 0.13 0.17
Matches are distributed among these distances:
7 84 0.22
8 16 0.04
9 232 0.62
10 18 0.05
11 1 0.00
12 19 0.05
13 1 0.00
14 1 0.00
15 2 0.01
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:47852449 original size:50 final size:50
Alignment explanation
Indices: 47852258--47852753 Score: 330
Period size: 50 Copynumber: 10.0 Consensus size: 50
47852248 TTTATATATA
* * *
47852258 AACTTACACAACACATAACTTATATAA--TACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACATAATACATAACTTACAT
* * * * *
47852306 AA-TAACTTACATA-ATATCTTACATAA-TAACTTACATA-ATAA--TACAT
1 AACTTACATA-ATACATAACTTACATAACTTACATA-ATACATAACTTACAT
* * * * * * *
47852352 ACCCTACATAAATTAAATAAGTTACATAA--TACACAAAAACAAAAACTTACAT
1 AACTTACAT-AA-TACATAACTTACATAACTTACA-TAATAC-ATAACTTACAT
* * *
47852404 AACTTACATAATACATAACTTACATAACCTACTTAATACATAACTTGCAT
1 AACTTACATAATACATAACTTACATAACTTACATAATACATAACTTACAT
* * * * *
47852454 AACTTACATAATACACAGCTTACAT--GTGTAAATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACATAACT-TACATAATACATAACTTACAT
* * * *
47852503 AACTTACATACCCTACATAAATTAAATAAGTTAC---ATA-ATAA--TACAT
1 AACTTACATA--ATACATAACTTACATAACTTACATAATACATAACTTACAT
* * * * * * *
47852549 ACCCTACATAAATTAAATAAGTTACATAA--TACACAAAAACAAAACTTACAT
1 AACTTACAT-AA-TACATAACTTACATAACTTACA-TAATACATAACTTACAT
* * *
47852600 AACTTACATAATACACAACTTACATAACTTATATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACATAATACATAACTTACAT
* * *
47852650 AACTTACATAATACATAATTTACATAACTTACATAAGACATAACTTACAC
1 AACTTACATAATACATAACTTACATAACTTACATAATACATAACTTACAT
* * * *
47852700 AAGTTTCATAATACACAACTTACACAACTTACATAACTTACATAACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACATAA--TACATAACTTACAT
47852752 AA
1 AA
47852754 TGTATAACTT
Statistics
Matches: 343, Mismatches: 73, Indels: 60
0.72 0.15 0.13
Matches are distributed among these distances:
44 3 0.01
46 31 0.09
47 20 0.06
48 24 0.07
49 61 0.18
50 140 0.41
51 31 0.09
52 31 0.09
53 2 0.01
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (50 bp):
AACTTACATAATACATAACTTACATAACTTACATAATACATAACTTACAT
Done.