Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 53 of 59
Found at i:19237168 original size:16 final size:15
Alignment explanation
Indices: 19237147--19237176 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19237137 CCAACCACCA
19237147 AAAAGAAATAAAAAAT
1 AAAAGAAA-AAAAAAT
19237163 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
19237177 GGGGACGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAAAAAT
Found at i:19239361 original size:44 final size:43
Alignment explanation
Indices: 19239284--19239383 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
19239274 TTGCCTTTGG
19239284 GTACATCTTCAAATCCTCCTGGTACTATCTTCAA-ATCCTCTGA
1 GTACATCTTCAAATCCTCCTGGTACTATCTTCAATA-CCTCTGA
*
19239327 GTACAATCTTCAAATCCTCC-GAGTA-TAATTTTCAATACCTCTGA
1 GTAC-ATCTTCAAATCCTCCTG-GTACT-ATCTTCAATACCTCTGA
* *
19239371 ATTCATCTTCAAA
1 GTACATCTTCAAA
19239384 ATCTCTAGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
43 15 0.30
44 34 0.68
45 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (43 bp):
GTACATCTTCAAATCCTCCTGGTACTATCTTCAATACCTCTGA
Found at i:19239367 original size:22 final size:22
Alignment explanation
Indices: 19239284--19239361 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
19239274 TTGCCTTTGG
19239284 GTAC-ATCTTCAAATCCTCCTG-
1 GTACAATCTTCAAATCCTCC-GA
* *
19239305 GTACTATCTTCAAATCCTCTGA
1 GTACAATCTTCAAATCCTCCGA
19239327 GTACAATCTTCAAATCCTCCGA
1 GTACAATCTTCAAATCCTCCGA
* *
19239349 GTATAATTTTCAA
1 GTACAATCTTCAA
19239362 TACCTCTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.10
22 45 0.90
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (22 bp):
GTACAATCTTCAAATCCTCCGA
Found at i:19239615 original size:21 final size:20
Alignment explanation
Indices: 19239573--19239618 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
19239563 TTTAATCTTG
* *
19239573 AAAACCTCCGGTACATCTTT
1 AAAACCTCAGGTACATCCTT
*
19239593 AAAACCTCTAGGTACCTCCTT
1 AAAACCTC-AGGTACATCCTT
19239614 AAAAC
1 AAAAC
19239619 TTTCGGGTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (20 bp):
AAAACCTCAGGTACATCCTT
Found at i:19242792 original size:13 final size:13
Alignment explanation
Indices: 19242768--19242815 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
19242758 GTATTCTTAA
19242768 GTTTCA-TAAAAG
1 GTTTCATTAAAAG
19242780 GTTTCATTAAAAG
1 GTTTCATTAAAAG
*
19242793 GTTGTCAATAAAAG
1 GTT-TCATTAAAAG
19242807 GTTTTCATT
1 G-TTTCATT
19242816 TGCTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 6 0.19
13 9 0.29
14 14 0.45
15 2 0.06
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (13 bp):
GTTTCATTAAAAG
Found at i:19244344 original size:7 final size:8
Alignment explanation
Indices: 19244325--19244361 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
19244315 AACTTATTTA
19244325 AAAATATT
1 AAAATATT
19244333 AAAATA-T
1 AAAATATT
19244340 AAAATATT
1 AAAATATT
19244348 AAAAT-TT
1 AAAATATT
19244355 AATAATA
1 AA-AATA
19244362 AATTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATATT
Found at i:19247482 original size:9 final size:9
Alignment explanation
Indices: 19247468--19247495 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
19247458 ATTAAAAAAC
19247468 TTATTTTAA
1 TTATTTTAA
19247477 TTATTTTAA
1 TTATTTTAA
19247486 TTATTTTAA
1 TTATTTTAA
19247495 T
1 T
19247496 AGGTTTATTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTTAA
Found at i:19250351 original size:2 final size:2
Alignment explanation
Indices: 19250344--19250381 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
19250334 AGGTGGAGGA
19250344 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19250382 TCATACACGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19256420 original size:27 final size:26
Alignment explanation
Indices: 19256365--19256421 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
19256355 CCCTACTTTA
* *
19256365 TTTTTTAATCTTATTTGATAATTTGAT
1 TTTTTTAATCTTATTT-ATAAATTAAT
19256392 TTTTTTAAGTCTTATATT-TAAATTAAT
1 TTTTTTAA-TCTTAT-TTATAAATTAAT
19256419 TTT
1 TTT
19256422 GTTAGCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 18 0.69
28 6 0.23
29 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (26 bp):
TTTTTTAATCTTATTTATAAATTAAT
Found at i:19258433 original size:18 final size:20
Alignment explanation
Indices: 19258401--19258438 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
19258391 ATTTATTACA
*
19258401 TTAACTATAATAATT-TTAT
1 TTAACTATAAAAATTATTAT
19258420 TTAA-TATAAAAATTATTAT
1 TTAACTATAAAAATTATTAT
19258439 AAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAACTATAAAAATTATTAT
Found at i:19261915 original size:20 final size:20
Alignment explanation
Indices: 19261869--19261916 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
19261859 CTCTCCACCC
* *
19261869 TTTTTTTCATTTTTTCTTTA
1 TTTTTTTCATTTTTTATTCA
19261889 TTATTTTT-ATTTTTTAATTCA
1 TT-TTTTTCATTTTTT-ATTCA
19261910 TTTTTTT
1 TTTTTTT
19261917 GTTTATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTCATTTTTTATTCA
Found at i:19283892 original size:2 final size:2
Alignment explanation
Indices: 19283887--19283917 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19283877 TCTCTCTCTC
19283887 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19283918 TTGTGGTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19287779 original size:16 final size:15
Alignment explanation
Indices: 19287739--19287779 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
19287729 TTTTTCTGAC
*
19287739 GAAA-AATTTCGTTG
1 GAAATAATTTCGTAG
19287753 GAAATAATTTCGTAG
1 GAAATAATTTCGTAG
19287768 GAAATGAATTTC
1 GAAAT-AATTTC
19287780 CAACGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (15 bp):
GAAATAATTTCGTAG
Found at i:19290994 original size:12 final size:11
Alignment explanation
Indices: 19290977--19291016 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
19290967 AAGCCACAAT
19290977 AAAAAAATACCA
1 AAAAAAATA-CA
19290989 AAAAAAATACA
1 AAAAAAATACA
*
19291000 AAAACAAAAACA
1 AAAA-AAATACA
19291012 AAAAA
1 AAAAA
19291017 TACAATGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.05
Consensus pattern (11 bp):
AAAAAAATACA
Found at i:19291330 original size:11 final size:12
Alignment explanation
Indices: 19291291--19291345 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
19291281 GCCGGTGGGG
*
19291291 GAAGAGAGGGAA
1 GAAGAGAGAGAA
* *
19291303 GAA-AGAAAAAA
1 GAAGAGAGAGAA
19291314 GAA-AGAGAGAGA
1 GAAGAGAGAGA-A
19291326 GAAGAGA-AGAA
1 GAAGAGAGAGAA
19291337 GAAGAGAGA
1 GAAGAGAGA
19291346 CATCGACGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 21 0.60
12 11 0.31
13 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAGAA
Found at i:19291333 original size:24 final size:22
Alignment explanation
Indices: 19291291--19291345 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
19291281 GCCGGTGGGG
*
19291291 GAAGAGAGGGAAGAAAGAAAAAA
1 GAAGAGAGAGAAGAAAG-AAAAA
*
19291314 GAA-AGAGAGAGAGAAGAGAAGAA
1 GAAGAGAGAGA-AGAA-AGAAAAA
19291337 GAAGAGAGA
1 GAAGAGAGA
19291346 CATCGACGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.22
23 14 0.52
24 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (22 bp):
GAAGAGAGAGAAGAAAGAAAAA
Found at i:19291564 original size:14 final size:15
Alignment explanation
Indices: 19291541--19291570 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19291531 TTAAAAATTC
19291541 AAAACAAACCAAAAA
1 AAAACAAACCAAAAA
19291556 AAAAC-AACCAAAAA
1 AAAACAAACCAAAAA
19291570 A
1 A
19291571 TAATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAACAAACCAAAAA
Found at i:19291917 original size:10 final size:10
Alignment explanation
Indices: 19291902--19291926 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19291892 ACATTAGGAA
19291902 AAATAATAAT
1 AAATAATAAT
19291912 AAATAATAAT
1 AAATAATAAT
19291922 AAATA
1 AAATA
19291927 TATGAACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATAATAAT
Found at i:19292071 original size:24 final size:24
Alignment explanation
Indices: 19292039--19292085 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
19292029 ATCCTATCAC
19292039 AGCATGCCATGTTTATCTTGTTAT
1 AGCATGCCATGTTTATCTTGTTAT
*
19292063 AGCATGCCATGTTTATTTTGTTA
1 AGCATGCCATGTTTATCTTGTTA
19292086 ATGGGGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (24 bp):
AGCATGCCATGTTTATCTTGTTAT
Found at i:19293270 original size:2 final size:2
Alignment explanation
Indices: 19293265--19293290 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19293255 TACATATATA
19293265 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
19293291 AATGTATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:19294012 original size:6 final size:6
Alignment explanation
Indices: 19294001--19294032 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
19293991 CAGATGAGAG
*
19294001 TGGAAC TGGAAC TGGAAC TGGAAC TGAAAC TG
1 TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC TG
19294033 AAACAGGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (6 bp):
TGGAAC
Found at i:19294046 original size:18 final size:19
Alignment explanation
Indices: 19294002--19294057 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 19
19293992 AGATGAGAGT
* * *
19294002 GGAACTGGAACTGGAAC-T
1 GGAACTGAAACTGAAACAG
19294020 GGAACTGAAACTGAAACAG
1 GGAACTGAAACTGAAACAG
19294039 GGAA-TGAAACTGAAACAG
1 GGAACTGAAACTGAAACAG
19294057 G
1 G
19294058 AGATCAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 30 0.88
19 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.30, T:0.12
Consensus pattern (19 bp):
GGAACTGAAACTGAAACAG
Found at i:19294779 original size:14 final size:14
Alignment explanation
Indices: 19294760--19294786 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19294750 GTTTGTATGG
19294760 TATATACTTGACTA
1 TATATACTTGACTA
19294774 TATATACTTGACT
1 TATATACTTGACT
19294787 TGGGTATGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (14 bp):
TATATACTTGACTA
Found at i:19315469 original size:28 final size:28
Alignment explanation
Indices: 19315414--19315470 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
19315404 CAACATAGGT
*
19315414 TTGATGAATATTAATATTTTTTTGAAAA
1 TTGATGAATATTAATATTTATTTGAAAA
*
19315442 TTGATGAATATTAATATTTAATTTAAAAA
1 TTGATGAATATTAATATTT-ATTTGAAAA
19315471 ATTAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (28 bp):
TTGATGAATATTAATATTTATTTGAAAA
Found at i:19320836 original size:242 final size:242
Alignment explanation
Indices: 19320509--19320991 Score: 664
Period size: 242 Copynumber: 2.0 Consensus size: 242
19320499 CAACTAGAAG
** * * *
19320509 TAGAATTTTATTTTGACATGGACCTATAATACGATAAATGGGACCCTTAGGCTTAGTTATGACAC
1 TAGAATTTTATTAGGACATGGACCTACAATACGACAAATAGGACCCTTAGGCTTAGTTATGACAC
* * * *
19320574 ATTGAAGTTGAGAGTTAATAAAGAATATTTTCTTAAGCATGAGTGCTTA-TTTCTCTATACTCTT
66 AATGAAGTTGAGAGTTAATAAAGAATATTTTCTTAAGCAGGAGTACTTATTTTCTCTAGACTCTT
** * * * *
19320638 TTTACAAGAGTAAGAGGCTTTTAGTATCTTTGGCCTAGACAACCAAAGTGGGATTTCAGCTATGT
131 TGCAAAAGAGTAAAACGCTTTTAGTATCTTTGGCCTAGACAACCAAAGTGAGATTTCAGCTAT-T
* *
19320703 TTTCACCTTAGTTGGATTTTC-AACCTTGCCAAGATTGGTGATTCACCA
195 TTTCACCTTAGTGGGATTTTCTAACCTCGCCAAGATTGGTG-TTCACCA
* * * *
19320751 TAGAGTTTTATTAGGACATGGGCCTACAATACTACAAATAGGACCCTTGGGCTTAGTTATGACAC
1 TAGAATTTTATTAGGACATGGACCTACAATACGACAAATAGGACCCTTAGGCTTAGTTATGACAC
**
19320816 AATGAAGTTGAGAGTTAATAAAGAATATTTTCTTAAGCAGGAGTACTTATTTTCTCTAGGTTCTT
66 AATGAAGTTGAGAGTTAATAAAGAATATTTTCTTAAGCAGGAGTACTTATTTTCTCTAGACTCTT
* * **
19320881 TGCAAAAGAGTAAAACGTTTTTAGTATCTTTGGCCTAGTCAACCAAAGTGAGATTTTGGCTATTT
131 TGCAAAAGAGTAAAACGCTTTTAGTATCTTTGGCCTAGACAACCAAAGTGAGATTTCAGCTATTT
* * *
19320946 TTCACCTTAGTGGGGTTTTCTAACCTCGTCAAGTTTGGTGTTCACC
196 TTCACCTTAGTGGGATTTTCTAACCTCGCCAAGATTGGTGTTCACC
19320992 TTAATGTGGT
Statistics
Matches: 209, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
242 128 0.61
243 81 0.39
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (242 bp):
TAGAATTTTATTAGGACATGGACCTACAATACGACAAATAGGACCCTTAGGCTTAGTTATGACAC
AATGAAGTTGAGAGTTAATAAAGAATATTTTCTTAAGCAGGAGTACTTATTTTCTCTAGACTCTT
TGCAAAAGAGTAAAACGCTTTTAGTATCTTTGGCCTAGACAACCAAAGTGAGATTTCAGCTATTT
TTCACCTTAGTGGGATTTTCTAACCTCGCCAAGATTGGTGTTCACCA
Found at i:19321023 original size:39 final size:40
Alignment explanation
Indices: 19320946--19321026 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
19320936 TTGGCTATTT
* ** *
19320946 TTCACCTTAGTGGGGTTTTCTAACCTCGTCAAGTTTGGTG
1 TTCACCTTAATGGGGTTTTCTAACCTCACCAAGATTGGTG
* *
19320986 TTCACCTTAATGTGG-TTTCTAACCTCACCACGATTGGTG
1 TTCACCTTAATGGGGTTTTCTAACCTCACCAAGATTGGTG
19321025 TT
1 TT
19321027 TTCAGAATGC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
39 22 0.63
40 13 0.37
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (40 bp):
TTCACCTTAATGGGGTTTTCTAACCTCACCAAGATTGGTG
Found at i:19327341 original size:22 final size:23
Alignment explanation
Indices: 19327302--19327345 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19327292 TTCTTCTGTA
* *
19327302 AATTAATTTTTATTTTTATTTAC
1 AATTAATTTGTATATTTATTTAC
19327325 AATT-ATTTGTATATTTATTTA
1 AATTAATTTGTATATTTATTTA
19327346 ATATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
AATTAATTTGTATATTTATTTAC
Found at i:19331087 original size:2 final size:2
Alignment explanation
Indices: 19331080--19331115 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19331070 AGTAGACAAC
19331080 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19331116 GGATATGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19333299 original size:22 final size:21
Alignment explanation
Indices: 19333270--19333518 Score: 214
Period size: 22 Copynumber: 11.5 Consensus size: 21
19333260 ACTACCCTAG
19333270 CACTTGAAATATAAAAACATAA
1 CACTTGAAA-ATAAAAACATAA
* *
19333292 CATTTGAAAATTAAAAGCATAA
1 CACTTGAAAA-TAAAAACATAA
*
19333314 CACTTGGAAATAAAAACATAA
1 CACTTGAAAATAAAAACATAA
*
19333335 CACTTGAAAATTAAAACA-AA
1 CACTTGAAAATAAAAACATAA
* * * *
19333355 GCACTTGAAAGTTAAGAGCACAA
1 -CACTTGAAA-ATAAAAACATAA
*
19333378 CACTTGGAAATAAAAACATAA
1 CACTTGAAAATAAAAACATAA
*
19333399 CACTTGAAAATTAAAACA-AA
1 CACTTGAAAATAAAAACATAA
* * * *
19333419 GCACTTGAAAGTTAAGAGCACAA
1 -CACTTGAAA-ATAAAAACATAA
*
19333442 CACTTGACAATTAAAAACATAA
1 CACTTGA-AAATAAAAACATAA
* *
19333464 CACTTGAAATTCAAAAGCATAA
1 CACTTGAAAAT-AAAAACATAA
* * * *
19333486 CACTTGAAAGTTAAGAGCACAA
1 CACTTGAAA-ATAAAAACATAA
19333508 CACTTGAAAAT
1 CACTTGAAAAT
19333519 TATTTCAGCC
Statistics
Matches: 188, Mismatches: 29, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.02
21 74 0.39
22 102 0.54
23 8 0.04
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (21 bp):
CACTTGAAAATAAAAACATAA
Found at i:19333332 original size:43 final size:43
Alignment explanation
Indices: 19333270--19333520 Score: 221
Period size: 43 Copynumber: 5.8 Consensus size: 43
19333260 ACTACCCTAG
* *
19333270 CACTTGAAATATAAAAACATAACATTTGAAAATTAAAAGCATAA
1 CACTTGGAA-ATAAAAACATAACACTTGAAAATTAAAAGCATAA
19333314 CACTTGGAAATAAAAACATAACACTTGAAAATTAAAA-CA-AA
1 CACTTGGAAATAAAAACATAACACTTGAAAATTAAAAGCATAA
* * * * *
19333355 GCACTT-GAAAGTTAAGAGCACAACACTTGGAAA-TAAAAACATAA
1 -CACTTGGAAA--TAAAAACATAACACTTGAAAATTAAAAGCATAA
* * * * *
19333399 CACTTGAAAATTAAAACA-AAGCACTTGAAAGTTAAGAGCACAA
1 CACTTGGAAATAAAAACATAA-CACTTGAAAATTAAAAGCATAA
19333442 CACTT-GACAATTAAAAACATAACACTTG-AAATTCAAAAGCATAA
1 CACTTGGA-AA-TAAAAACATAACACTTGAAAATT-AAAAGCATAA
* * *
19333486 CACTT-GAAAGTTAAGAGCACAACACTTGAAAATTA
1 CACTTGGAAA--TAAAAACATAACACTTGAAAATTA
19333521 TTTCAGCCAG
Statistics
Matches: 170, Mismatches: 23, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
41 8 0.05
42 26 0.15
43 72 0.42
44 57 0.34
45 7 0.04
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (43 bp):
CACTTGGAAATAAAAACATAACACTTGAAAATTAAAAGCATAA
Found at i:19333380 original size:64 final size:64
Alignment explanation
Indices: 19333270--19333518 Score: 353
Period size: 64 Copynumber: 3.8 Consensus size: 64
19333260 ACTACCCTAG
* * * * *
19333270 CACTTGAAATATAAAAACATAACATTTGAAAATTAAAAGCATAACACTTGGAAATAAAAACATAA
1 CACTTGAAA-ATTAAAACATAACACTTGAAAGTTAAGAGCACAACACTTGGAAATAAAAACATAA
19333335 CACTTGAAAATTAAAACA-AAGCACTTGAAAGTTAAGAGCACAACACTTGGAAATAAAAACATAA
1 CACTTGAAAATTAAAACATAA-CACTTGAAAGTTAAGAGCACAACACTTGGAAATAAAAACATAA
19333399 CACTTGAAAATTAAAACA-AAGCACTTGAAAGTTAAGAGCACAACACTT-GACAATTAAAAACAT
1 CACTTGAAAATTAAAACATAA-CACTTGAAAGTTAAGAGCACAACACTTGGA-AA-TAAAAACAT
19333462 AA
63 AA
*
19333464 CACTTG-AAATTCAAAAGCATAACACTTGAAAGTTAAGAGCACAACACTTGAAAAT
1 CACTTGAAAATT-AAAA-CATAACACTTGAAAGTTAAGAGCACAACACTTGGAAAT
19333519 TATTTCAGCC
Statistics
Matches: 171, Mismatches: 6, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
63 4 0.02
64 102 0.60
65 31 0.18
66 31 0.18
67 3 0.02
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (64 bp):
CACTTGAAAATTAAAACATAACACTTGAAAGTTAAGAGCACAACACTTGGAAATAAAAACATAA
Found at i:19352457 original size:22 final size:23
Alignment explanation
Indices: 19352418--19352461 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19352408 ATCTTCTGTA
* *
19352418 AATTAATTTTTATTTTTATTTAT
1 AATTAATTTGTATATTTATTTAT
19352441 AATT-ATTTGTATATTTATTTA
1 AATTAATTTGTATATTTATTTA
19352462 ATATATAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
AATTAATTTGTATATTTATTTAT
Found at i:19353803 original size:20 final size:20
Alignment explanation
Indices: 19353765--19353803 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19353755 TTGTCAACGA
*
19353765 TTTCATCGGTAATTAATGAT
1 TTTCATCGGTAATGAATGAT
* *
19353785 TTTCATCGTTAATGGATGA
1 TTTCATCGGTAATGAATGA
19353804 AATCTGTTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (20 bp):
TTTCATCGGTAATGAATGAT
Found at i:19357277 original size:16 final size:17
Alignment explanation
Indices: 19357243--19357321 Score: 58
Period size: 17 Copynumber: 4.6 Consensus size: 17
19357233 AAATGGAATG
* *
19357243 AAAAGAAAATAGAGAGA
1 AAAAGAAAAAAAAGAGA
19357260 AAAAGAAAAAAAAG-GA
1 AAAAGAAAAAAAAGAGA
19357276 AAAAGGAGAAAAACAAGAGA
1 AAAA-GA-AAAAA-AAGAGA
*
19357296 GAAGAAG-AAGAAAAGA-A
1 -AA-AAGAAAAAAAAGAGA
19357313 AAAA-AAAAA
1 AAAAGAAAAA
19357322 CAAAAACAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
15 5 0.10
16 8 0.16
17 15 0.29
18 9 0.18
19 7 0.14
20 2 0.04
21 3 0.06
22 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.01
Consensus pattern (17 bp):
AAAAGAAAAAAAAGAGA
Found at i:19357304 original size:19 final size:19
Alignment explanation
Indices: 19357248--19357309 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
19357238 GAATGAAAAG
* *
19357248 AAAATAGAGAGAAAAAGAA
1 AAAAAAGAGAGAAGAAGAA
* *
19357267 AAAAAAG-GAAAAAGGAGAA
1 AAAAAAGAG-AGAAGAAGAA
*
19357286 AAACAAGAGAGAAGAAGAA
1 AAAAAAGAGAGAAGAAGAA
19357305 GAAAA
1 -AAAA
19357310 GAAAAAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.03
19 27 0.84
20 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (19 bp):
AAAAAAGAGAGAAGAAGAA
Found at i:19358978 original size:17 final size:18
Alignment explanation
Indices: 19358956--19358990 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19358946 ATTATTATCT
19358956 AAATAT-ATTATTTTATA
1 AAATATAATTATTTTATA
*
19358973 AAATATAATTTTTTTATA
1 AAATATAATTATTTTATA
19358991 GTTAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATAATTATTTTATA
Found at i:19359817 original size:22 final size:22
Alignment explanation
Indices: 19359789--19360122 Score: 270
Period size: 22 Copynumber: 15.4 Consensus size: 22
19359779 AAAAACTACT
* *
19359789 AAAAATAAAAGCATAGCACTTG
1 AAAATTAAAAGCATAACACTTG
* * *
19359811 AAAAATAAAAACATAACATTTG
1 AAAATTAAAAGCATAACACTTG
*
19359833 AAAATTAGAAGCATAACACTTG
1 AAAATTAAAAGCATAACACTTG
*
19359855 GAAA-TAAAA-CATAACACTTG
1 AAAATTAAAAGCATAACACTTG
*
19359875 AAAATT-AAACCA-AAGCACTTG
1 AAAATTAAAAGCATAA-CACTTG
* ** *
19359896 AAAGTTAAGTGCACAACACTTG
1 AAAATTAAAAGCATAACACTTG
** *
19359918 ACGATTAAAAACATAACACTTG
1 AAAATTAAAAGCATAACACTTG
* *
19359940 -AAATTCAAATGCATAACACTCG
1 AAAATT-AAAAGCATAACACTTG
* * *
19359962 AAAGTTAAGAGCACAACACTTG
1 AAAATTAAAAGCATAACACTTG
** *
19359984 ACGATTAAAAACATAACACTTG
1 AAAATTAAAAGCATAACACTTG
*
19360006 -AAATTCAAAAGCATAGCACTTG
1 AAAATT-AAAAGCATAACACTTG
* * *
19360028 AAAGTTAAGAGCACAACACTTG
1 AAAATTAAAAGCATAACACTTG
* * *
19360050 ACAATTAAAAACTTAACACTTG
1 AAAATTAAAAGCATAACACTTG
19360072 -AAATTCAAAAGCATAACACTTG
1 AAAATT-AAAAGCATAACACTTG
* * * *
19360094 AAAGTTAAGAGCACAACACTAG
1 AAAATTAAAAGCATAACACTTG
19360116 -AAATTAA
1 AAAATTAA
19360123 TTCAGCCAGC
Statistics
Matches: 242, Mismatches: 59, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.08
21 34 0.14
22 175 0.72
23 14 0.06
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (22 bp):
AAAATTAAAAGCATAACACTTG
Found at i:19359979 original size:66 final size:66
Alignment explanation
Indices: 19359860--19360113 Score: 406
Period size: 66 Copynumber: 3.9 Consensus size: 66
19359850 ACTTGGAAAT
* *
19359860 AAAACATAACACTTGAAAATT--AAACCA-AAGCACTTGAAAGTTAAGTGCACAACACTTGACGA
1 AAAACATAACACTTG-AAATTCAAAAGCATAA-CACTTGAAAGTTAAGAGCACAACACTTGACGA
19359922 TTA
64 TTA
* *
19359925 AAAACATAACACTTGAAATTCAAATGCATAACACTCGAAAGTTAAGAGCACAACACTTGACGATT
1 AAAACATAACACTTGAAATTCAAAAGCATAACACTTGAAAGTTAAGAGCACAACACTTGACGATT
19359990 A
66 A
* *
19359991 AAAACATAACACTTGAAATTCAAAAGCATAGCACTTGAAAGTTAAGAGCACAACACTTGACAATT
1 AAAACATAACACTTGAAATTCAAAAGCATAACACTTGAAAGTTAAGAGCACAACACTTGACGATT
19360056 A
66 A
*
19360057 AAAACTTAACACTTGAAATTCAAAAGCATAACACTTGAAAGTTAAGAGCACAACACT
1 AAAACATAACACTTGAAATTCAAAAGCATAACACTTGAAAGTTAAGAGCACAACACT
19360114 AGAAATTAAT
Statistics
Matches: 176, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
64 5 0.03
65 15 0.09
66 154 0.88
67 2 0.01
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (66 bp):
AAAACATAACACTTGAAATTCAAAAGCATAACACTTGAAAGTTAAGAGCACAACACTTGACGATT
A
Found at i:19361637 original size:24 final size:24
Alignment explanation
Indices: 19361592--19361640 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
19361582 GAAAATCATT
*
19361592 TAAAAACAAGAAAAAATTAGAAAA
1 TAAAAACAAGAAAAAATCAGAAAA
*
19361616 TAAAAATAAGAAACAAA-CAGAAAA
1 TAAAAACAAGAAA-AAATCAGAAAA
19361640 T
1 T
19361641 TGAGGTGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.12
Consensus pattern (24 bp):
TAAAAACAAGAAAAAATCAGAAAA
Found at i:19362324 original size:17 final size:18
Alignment explanation
Indices: 19362269--19362325 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 18
19362259 TTTAAAATTG
19362269 ATAAATATTAATATTTAA
1 ATAAATATTAATATTTAA
* * **
19362287 CTTAAATTATTAAAAAATAA
1 -ATAAA-TATTAATATTTAA
19362307 AT-AATATTAATATTTAA
1 ATAAATATTAATATTTAA
19362324 AT
1 AT
19362326 TTAAAAATTC
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
19 5 0.17
20 10 0.34
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATATTAATATTTAA
Found at i:19363161 original size:20 final size:20
Alignment explanation
Indices: 19363136--19363207 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
19363126 AGATTTGATG
19363136 AATATTAATATTTAATTTAA
1 AATATTAATATTTAATTTAA
* *
19363156 AATATTAA-A--AAATTAAA
1 AATATTAATATTTAATTTAA
19363173 AATATTAATATTTAACTTT-A
1 AATATTAATATTTAA-TTTAA
*
19363193 ATTATTAATATTTAA
1 AATATTAATATTTAA
19363208 ATTATTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 14 0.33
18 1 0.02
19 1 0.02
20 25 0.58
21 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATTAATATTTAATTTAA
Found at i:19384621 original size:2 final size:2
Alignment explanation
Indices: 19384616--19384691 Score: 73
Period size: 2 Copynumber: 43.0 Consensus size: 2
19384606 TCTTTCTCTT
19384616 TA TA TA TA TA TA TA TA TA -A TA TA -A TA -A TA T- TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
19384653 TA -A TA TA TA TA -A TA T- TA -A TA TA TA TA TA -A TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19384690 TA
1 TA
19384692 GAATCCTAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
1 10 0.16
2 52 0.84
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:19384637 original size:93 final size:93
Alignment explanation
Indices: 19384463--19384629 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
19384453 ATTAATCGAC
19384463 CTCATTAATTGAATTAACCAAACCAATTTAATGGAAACTTGCCCTCTCTCTCTATCTCTCTTTAT
1 CTCATTAATTGAATTAACCAAACCAATTTAATGGAAACTTGCCCTCTCTCTCTATCTCTCTTTAT
19384528 ATATATATATAAAATATTTATATATATA
66 ATATATATATAAAATATTTATATATATA
**
19384556 CTCATTAATTGAATTAACCAAACTGATTTAATGGAAACTTGCCCTCTCTCTCT-T-TCTCTTTAT
1 CTCATTAATTGAATTAACCAAACCAATTTAATGGAAACTTGCCCTCTCTCTCTATCTCTCTTTAT
19384619 ATATATATATA
66 ATATATATATA
19384630 TATAATATAA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 20 0.28
92 1 0.01
93 51 0.71
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.41
Consensus pattern (93 bp):
CTCATTAATTGAATTAACCAAACCAATTTAATGGAAACTTGCCCTCTCTCTCTATCTCTCTTTAT
ATATATATATAAAATATTTATATATATA
Found at i:19384645 original size:15 final size:14
Alignment explanation
Indices: 19384616--19384683 Score: 88
Period size: 15 Copynumber: 4.9 Consensus size: 14
19384606 TCTTTCTCTT
19384616 TATATATAT-AT-A
1 TATATATATAATAA
19384628 TATATAATATAATAA
1 TATAT-ATATAATAA
19384643 TAT-TATATAATAA
1 TATATATATAATAA
*
19384656 TATATATAATATTAA
1 TATATAT-ATAATAA
19384671 TATATATATAATA
1 TATATATATAATA
19384684 TGTATATAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.10
13 16 0.33
14 11 0.22
15 17 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATATATATAATAA
Found at i:19384645 original size:17 final size:16
Alignment explanation
Indices: 19384617--19384684 Score: 88
Period size: 17 Copynumber: 4.2 Consensus size: 16
19384607 CTTTCTCTTT
19384617 ATATATATATATATATA
1 ATATA-ATATATATATA
19384634 ATATAATA-ATAT-T-
1 ATATAATATATATATA
19384647 ATATAATAATATATATA
1 ATATAAT-ATATATATA
19384664 ATATTAATATATATATA
1 ATA-TAATATATATATA
19384681 ATAT
1 ATAT
19384685 GTATATAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.15
14 2 0.04
15 8 0.17
16 5 0.11
17 20 0.43
18 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATATATATATA
Found at i:19384651 original size:30 final size:28
Alignment explanation
Indices: 19384615--19384691 Score: 95
Period size: 30 Copynumber: 2.7 Consensus size: 28
19384605 CTCTTTCTCT
19384615 TTATATATATATATATATAATATAATAATA
1 TTATATATATATATATATAATAT--TAATA
19384645 TTATATA-ATAATATATATAATATTAATA
1 TTATATATAT-ATATATATAATATTAATA
*
19384673 -TATATATAATATGTATATA
1 TTATATAT-ATATATATATA
19384692 GAATCCTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
27 6 0.14
28 13 0.30
29 4 0.09
30 20 0.47
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (28 bp):
TTATATATATATATATATAATATTAATA
Found at i:19384689 original size:15 final size:15
Alignment explanation
Indices: 19384616--19384691 Score: 83
Period size: 13 Copynumber: 5.4 Consensus size: 15
19384606 TCTTTCTCTT
19384616 TATATATAT-ATATA
1 TATATATATAATATA
19384630 TATA-ATATAATA-A
1 TATATATATAATATA
19384643 TAT-TATATAATA-A
1 TATATATATAATATA
*
19384656 TATATATAATATTA-A
1 TATATAT-ATAATATA
*
19384671 TATATATATAATATG
1 TATATATATAATATA
19384686 TATATA
1 TATATA
19384692 GAATCCTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
13 20 0.37
14 15 0.28
15 19 0.35
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
TATATATATAATATA
Found at i:19384869 original size:22 final size:22
Alignment explanation
Indices: 19384839--19385022 Score: 173
Period size: 22 Copynumber: 8.5 Consensus size: 22
19384829 AACTCTACTC
* **
19384839 AAAAATAAAAGCATAGGACTTG
1 AAAATTAAAAGCATAACACTTG
*
19384861 AAAATTAAAAGCATAATACTTG
1 AAAATTAAAAGCATAACACTTG
*
19384883 -AAATTAAAAACATAACACTTG
1 AAAATTAAAAGCATAACACTTG
*
19384904 AAAATTAAAAGCATAACTCTTG
1 AAAATTAAAAGCATAACACTTG
** * *
19384926 AATGTTAAGAGAAATAACACTTG
1 AAAATTAAAAG-CATAACACTTG
19384949 AAAATTAAAAGCAT-A-A--TG
1 AAAATTAAAAGCATAACACTTG
** *
19384967 AATGTGAACAA-CAATAACACTTG
1 AAAATTAA-AAGC-ATAACACTTG
*
19384990 AAAATTAAAAGCATAACACTTC
1 AAAATTAAAAGCATAACACTTG
19385012 AAAATTAAAAG
1 AAAATTAAAAG
19385023 GCCTAAAGTT
Statistics
Matches: 130, Mismatches: 23, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
18 8 0.06
19 4 0.03
20 2 0.02
21 21 0.16
22 70 0.54
23 25 0.19
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (22 bp):
AAAATTAAAAGCATAACACTTG
Found at i:19384983 original size:41 final size:41
Alignment explanation
Indices: 19384856--19385006 Score: 166
Period size: 41 Copynumber: 3.5 Consensus size: 41
19384846 AAAGCATAGG
19384856 ACTTGAAAATTAAAAGCATAATACTTGAAAT-TAAAAAC-ATAAC
1 ACTTGAAAATTAAAAGCAT-A-AC-TG-AATGTAAAAACAATAAC
*
19384899 ACTTGAAAATTAAAAGCATAACTCTTGAATGTTAAGAGA-AATAAC
1 ACTTGAAAATTAAAAGCATAA--C-TGAATG-TAA-AAACAATAAC
*
19384944 ACTTGAAAATTAAAAGCATAA-TGAATGTGAACAACAATAAC
1 ACTTGAAAATTAAAAGCATAACTGAATGT-AAAAACAATAAC
19384985 ACTTGAAAATTAAAAGCATAAC
1 ACTTGAAAATTAAAAGCATAAC
19385007 ACTTCAAAAT
Statistics
Matches: 96, Mismatches: 3, Indels: 19
0.81 0.03 0.16
Matches are distributed among these distances:
40 2 0.02
41 36 0.38
42 4 0.04
43 23 0.24
44 3 0.03
45 28 0.29
ACGTcount: A:0.53, C:0.12, G:0.11, T:0.25
Consensus pattern (41 bp):
ACTTGAAAATTAAAAGCATAACTGAATGTAAAAACAATAAC
Found at i:19391857 original size:16 final size:18
Alignment explanation
Indices: 19391816--19391855 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
19391806 AAAGTCAGAC
19391816 TTTTCTTTCTTCTCAAAAT
1 TTTTC-TTCTTCTCAAAAT
19391835 TTCTTCTTCTTCTC-AAAT
1 TT-TTCTTCTTCTCAAAAT
19391853 TTT
1 TTT
19391856 CTGACAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.05
18 6 0.30
19 10 0.50
20 3 0.15
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTCTTCTTCTCAAAAT
Found at i:19392828 original size:82 final size:82
Alignment explanation
Indices: 19392671--19393048 Score: 492
Period size: 82 Copynumber: 4.6 Consensus size: 82
19392661 CAGTTCTATG
* * * * *
19392671 ATTAGAACTAAGAAGAGCACATATGGGGTTGCACACTTACATTATTTTAAAGGTATTCAATTGTT
1 ATTAGAACTGAGAAGAGCACACATGGGGTTGCACACTTGCATTATCTTAAAGGTATTCAATTGTA
* *
19392736 CAATTTGAAAATGACAA
66 CAATTCGAAAATGACGA
* * * *
19392753 AATATAAATGAGAAGAGCACACATGGGGTTGCACAGTTGCATTATCTTAAAGGTATTCAATTGTA
1 ATTAGAACTGAGAAGAGCACACATGGGGTTGCACACTTGCATTATCTTAAAGGTATTCAATTGTA
*
19392818 GAATTCGAAAATGACGA
66 CAATTCGAAAATGACGA
* * * *
19392835 ATTACAACTGAGAAGAGCACACATGGGGTTGCACACTTGCATCATCTTAAAGATATTCAATTGTC
1 ATTAGAACTGAGAAGAGCACACATGGGGTTGCACACTTGCATTATCTTAAAGGTATTCAATTGTA
*
19392900 CAATTCGAAAATGATGA
66 CAATTCGAAAATGACGA
* * *
19392917 ACTAGAACTAAGAAGAGCACACATGGGGTTGCACACTTGCATCATCTTAAAGGTATTCAATTG-A
1 ATTAGAACTGAGAAGAGCACACATGGGGTTGCACACTTGCATTATCTTAAAGGTATTCAATTGTA
* *
19392981 CTAATTC-AAAAGTAATGA
66 C-AATTCGAAAA-TGACGA
* * *
19392999 CTTAGAATTGAGAAGAGC-CACGTGGGGTTGCACACTTGCATTATCTTAAA
1 ATTAGAACTGAGAAGAGCACACATGGGGTTGCACACTTGCATTATCTTAAA
19393049 ATATTCGGTA
Statistics
Matches: 261, Mismatches: 33, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
81 35 0.13
82 226 0.87
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (82 bp):
ATTAGAACTGAGAAGAGCACACATGGGGTTGCACACTTGCATTATCTTAAAGGTATTCAATTGTA
CAATTCGAAAATGACGA
Found at i:19393206 original size:22 final size:22
Alignment explanation
Indices: 19393178--19393253 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
19393168 GTCCAATTCA
19393178 AAAATTAAAAGCATAACACTTG
1 AAAATTAAAAGCATAACACTTG
* *
19393200 AAAATTAAAAACATAACACTTC
1 AAAATTAAAAGCATAACACTTG
* *
19393222 AAAATTGAAAGCATAACAATTG
1 AAAATTAAAAGCATAACACTTG
19393244 -AAATTAAAAG
1 AAAATTAAAAG
19393254 GCCTCAGGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 9 0.19
22 38 0.81
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (22 bp):
AAAATTAAAAGCATAACACTTG
Found at i:19394607 original size:49 final size:49
Alignment explanation
Indices: 19394428--19394599 Score: 290
Period size: 49 Copynumber: 3.5 Consensus size: 49
19394418 CGCAAACTTG
19394428 GACTTAGTCTTGATCACGAACGTACTTGATCTTCGCGTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAAC--ACTTGATCTTCGCGTCAAGGGTCTTCAC
19394479 GACTTAGTCTTGATCACGAACACTTGATCTTCGCGTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACACTTGATCTTCGCGTCAAGGGTCTTCAC
*
19394528 GACTTAGTCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACACTTGATCTTCGCGTCAAGGGTCTTCAC
* * *
19394577 GACTTAATGTTGATCACAAACAC
1 GACTTAGTCTTGATCACGAACAC
19394600 AATATCTTGA
Statistics
Matches: 117, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
49 96 0.82
51 21 0.18
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (49 bp):
GACTTAGTCTTGATCACGAACACTTGATCTTCGCGTCAAGGGTCTTCAC
Found at i:19394687 original size:26 final size:23
Alignment explanation
Indices: 19394630--19394682 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
19394620 CACTTGATAT
19394630 CTTGATCACGAACTTCGTTGCCG
1 CTTGATCACGAACTTCGTTGCCG
**
19394653 CTTGATCACGAACTTCGTTGTTG
1 CTTGATCACGAACTTCGTTGCCG
19394676 CTTGATC
1 CTTGATC
19394683 TTCACTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (23 bp):
CTTGATCACGAACTTCGTTGCCG
Found at i:19394741 original size:17 final size:18
Alignment explanation
Indices: 19394719--19394785 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
19394709 TAGATCTCTG
19394719 AAATG-CTCTCAATCTTC
1 AAATGCCTCTCAATCTTC
* *
19394736 AAATG-CTCCCAATCTTT
1 AAATGCCTCTCAATCTTC
* * *
19394753 GAATGCCTCTGAATTTTC
1 AAATGCCTCTCAATCTTC
*
19394771 GAATGCCTCTCAATC
1 AAATGCCTCTCAATC
19394786 AATCCAAATG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 19 0.47
18 21 0.52
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (18 bp):
AAATGCCTCTCAATCTTC
Found at i:19395157 original size:81 final size:81
Alignment explanation
Indices: 19395030--19395275 Score: 331
Period size: 81 Copynumber: 3.1 Consensus size: 81
19395020 AATTTGACTT
* * * * *
19395030 TTATCTCTAAATT-AATAT-AATTA-TTAGAGATAAATTAAATGGCCAATAATTAAATTTTGATT
1 TTATCTCTAAATTAAAT-TGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATT
*
19395092 GGTCAAAAATATGAATA
65 GGTCAAAAATATAAATA
** *
19395109 TTATCTCTAAATTATCTTGATTTATTTAGAGATAAATTGGATGACCAATAACTAATTTTTGATTG
1 TTATCTCTAAATTAAATTGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTG
19395174 GTCAAAAATATAAATA
66 GTCAAAAATATAAATA
* *
19395190 TTATCTGTAAATTAAATTGATTTATTTATAGATAAATTGAATGACCAATAACTAATTTTTGATTG
1 TTATCTCTAAATTAAATTGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTG
* *
19395255 GTC--CAATCTAAATA
66 GTCAAAAATATAAATA
19395269 TTATCTC
1 TTATCTC
19395276 AAGGGATAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 29 0.20
80 5 0.03
81 113 0.77
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (81 bp):
TTATCTCTAAATTAAATTGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTG
GTCAAAAATATAAATA
Found at i:19395637 original size:28 final size:28
Alignment explanation
Indices: 19395605--19395711 Score: 124
Period size: 28 Copynumber: 3.6 Consensus size: 28
19395595 CATAATCTTG
*
19395605 GAAGATGTATATTGCAATAAAACTATTT
1 GAAGAAGTATATTGCAATAAAACTATTT
*
19395633 GAAGAAGTATATTGCAATAAGACTATAATTTT
1 GAAGAAGTATATTGCAATAAAAC--T-A-TTT
* *
19395665 GAAAGAGGTATATTGTAATAAAACTATTT
1 G-AAGAAGTATATTGCAATAAAACTATTT
*
19395694 AAAGAAGTATATTGCAAT
1 GAAGAAGTATATTGCAAT
19395712 TAGGATTACA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
28 36 0.55
29 3 0.05
30 2 0.03
31 2 0.03
32 4 0.06
33 19 0.29
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.34
Consensus pattern (28 bp):
GAAGAAGTATATTGCAATAAAACTATTT
Found at i:19395691 original size:61 final size:61
Alignment explanation
Indices: 19395596--19395711 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 61
19395586 TAAGAGAATC
* * *
19395596 ATAATCTTGGAAGATGTATATTGCAATAAAACTATTTGAAGAAGTATATTGCAATAAGACT
1 ATAATCTTGAAAGAGGTATATTGCAATAAAACTATTTAAAGAAGTATATTGCAATAAGACT
* *
19395657 ATAATTTTGAAAGAGGTATATTGTAATAAAACTATTTAAAGAAGTATATTGCAAT
1 ATAATCTTGAAAGAGGTATATTGCAATAAAACTATTTAAAGAAGTATATTGCAAT
19395712 TAGGATTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (61 bp):
ATAATCTTGAAAGAGGTATATTGCAATAAAACTATTTAAAGAAGTATATTGCAATAAGACT
Found at i:19396200 original size:36 final size:36
Alignment explanation
Indices: 19396149--19396355 Score: 193
Period size: 36 Copynumber: 5.5 Consensus size: 36
19396139 ATTTAAAGTA
* *
19396149 GTGCTCTTTACAATAGCACTTGTTGATCCTTGGGGG
1 GTGCTCTTTATAATAGCACTTGTTGATCCTTGGAGG
* * *
19396185 GTGCTCTTTAAAATAGCACATAATTTATTATCCTTGGAGG
1 GTGCTCTTTATAATAGCAC-T--TGT-TGATCCTTGGAGG
* * * *
19396225 GTACTCTTTATCATAGCACTTGTTGATCCTTAGACG
1 GTGCTCTTTATAATAGCACTTGTTGATCCTTGGAGG
* * *
19396261 GTGCTCTTTATACTAGCACACAATT-TATTATCCTCGGAGG
1 GTGCTCTTTATAATAG--CAC--TTGT-TGATCCTTGGAGG
19396301 GTGCTCTTTATAATAGCACTTGTTGATCCTTGG-GAG
1 GTGCTCTTTATAATAGCACTTGTTGATCCTTGGAG-G
*
19396337 GTGCTCTTTATACTAGCAC
1 GTGCTCTTTATAATAGCAC
19396356 ACAATTTATC
Statistics
Matches: 138, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
35 1 0.01
36 70 0.51
37 4 0.03
38 6 0.04
39 4 0.03
40 53 0.38
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (36 bp):
GTGCTCTTTATAATAGCACTTGTTGATCCTTGGAGG
Found at i:19396232 original size:40 final size:40
Alignment explanation
Indices: 19396174--19396364 Score: 175
Period size: 40 Copynumber: 5.0 Consensus size: 40
19396164 GCACTTGTTG
* *
19396174 ATCCTTGGGGGGTGCTCTTTAAAATAGCACATAATTTATT
1 ATCCTTGGAGGGTGCTCTTTATAATAGCACATAATTTATT
* * * *
19396214 ATCCTTGGAGGGTACTCTTTATCATAGCAC-T--TGT-TG
1 ATCCTTGGAGGGTGCTCTTTATAATAGCACATAATTTATT
* * * *
19396250 ATCCTTAGACGGTGCTCTTTATACTAGCACACAATTTATT
1 ATCCTTGGAGGGTGCTCTTTATAATAGCACATAATTTATT
* * *
19396290 ATCCTCGGAGGGTGCTCTTTATAATAGCAC-T--TGT-TG
1 ATCCTTGGAGGGTGCTCTTTATAATAGCACATAATTTATT
* *
19396326 ATCCTTGG-GAGGTGCTCTTTATACTAGCACACAATTTAT
1 ATCCTTGGAG-GGTGCTCTTTATAATAGCACATAATTTAT
19396365 CATGGTATAC
Statistics
Matches: 117, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
35 1 0.01
36 53 0.45
37 4 0.03
39 5 0.04
40 54 0.46
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (40 bp):
ATCCTTGGAGGGTGCTCTTTATAATAGCACATAATTTATT
Found at i:19396278 original size:76 final size:75
Alignment explanation
Indices: 19396152--19396364 Score: 311
Period size: 76 Copynumber: 2.8 Consensus size: 75
19396142 TAAAGTAGTG
* * * *
19396152 CTCTTTA-CAATAGCACTTGTTGATCCTTGGGGGGTGCTCTTTAAAATAGCACATAATTTATTAT
1 CTCTTTATC-ATAGCACTTGTTGATCCTT-GGAGGTGCTCTTTATACTAGCACACAATTTATTAT
*
19396216 CCTTGGAGGGTA
64 CCTCGGAGGGTA
*
19396228 CTCTTTATCATAGCACTTGTTGATCCTTAGACGGTGCTCTTTATACTAGCACACAATTTATTATC
1 CTCTTTATCATAGCACTTGTTGATCCTTGGA-GGTGCTCTTTATACTAGCACACAATTTATTATC
*
19396293 CTCGGAGGGTG
65 CTCGGAGGGTA
*
19396304 CTCTTTATAATAGCACTTGTTGATCCTTGGGAGGTGCTCTTTATACTAGCACACAATTTAT
1 CTCTTTATCATAGCACTTGTTGATCCTT-GGAGGTGCTCTTTATACTAGCACACAATTTAT
19396365 CATGGTATAC
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
75 1 0.01
76 121 0.97
77 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (75 bp):
CTCTTTATCATAGCACTTGTTGATCCTTGGAGGTGCTCTTTATACTAGCACACAATTTATTATCC
TCGGAGGGTA
Found at i:19399829 original size:2 final size:2
Alignment explanation
Indices: 19399824--19399862 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19399814 TATNNNNNNN
19399824 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19399863 TTGCCTTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19407406 original size:49 final size:49
Alignment explanation
Indices: 19407080--19407398 Score: 485
Period size: 49 Copynumber: 6.5 Consensus size: 49
19407070 CGTAAACTTG
* * *
19407080 GACTTAGTCTTGATCACGAACGTACATGATCTTCGCGTCAAGGGTCTTCAC
1 GACTTAATCTTGATCACGAAC--ACTTGATCTTCGCTTCAAGGGTCTTCAC
* *
19407131 GACTTAATCTTGATCACGGACACTTGATCTTCACTTCAAGGGTCTTCAC
1 GACTTAATCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
* * * *
19407180 GAATTAGTCTTGATCACGAACACTTGATCTTCGCGTCAAGGGTCTTCTC
1 GACTTAATCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
** *
19407229 GACTTAGCCTTGATCACGAACACTTGATCTTTGCTTCAAGGGTCTTCAC
1 GACTTAATCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
*
19407278 GACTTAATCTTGATCACAAACACTTGATCTTCGCTTCAAGGGTCTTCAC
1 GACTTAATCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
*
19407327 GACTTAATGTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
1 GACTTAATCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
*
19407376 GACTTAATGTTGATCACGAACAC
1 GACTTAATCTTGATCACGAACAC
19407399 AATATCTTGA
Statistics
Matches: 246, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
49 227 0.92
51 19 0.08
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
GACTTAATCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
Found at i:19407528 original size:23 final size:23
Alignment explanation
Indices: 19407404--19407527 Score: 158
Period size: 23 Copynumber: 5.3 Consensus size: 23
19407394 AACACAATAT
**
19407404 CTTGATCACGAACTTCGCTTGATA
1 CTTGATCACGAACTTCG-TTGCCA
19407428 TCTTGATCACGAACTTCGTTGCCA
1 -CTTGATCACGAACTTCGTTGCCA
*
19407452 CTTGATCACGAACTTCGTTGCCG
1 CTTGATCACGAACTTCGTTGCCA
* *
19407475 CTTGATCACGAACTTCGTTGTCG
1 CTTGATCACGAACTTCGTTGCCA
* **
19407498 CTTGATCTCGAACTTCGTTGTTA
1 CTTGATCACGAACTTCGTTGCCA
19407521 CTTGATC
1 CTTGATC
19407528 TTCACTTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
23 71 0.77
24 4 0.04
25 17 0.18
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (23 bp):
CTTGATCACGAACTTCGTTGCCA
Found at i:19407612 original size:18 final size:18
Alignment explanation
Indices: 19407568--19407630 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
19407558 TCTCTAAAAT
*
19407568 GCTCTCAATCTTCAAAT-
1 GCTCTCAATCTTCGAATG
19407585 GCTC-CTAATCTTCGAATG
1 GCTCTC-AATCTTCGAATG
*
19407603 GCTCTGAATCTTCGAATG
1 GCTCTCAATCTTCGAATG
*
19407621 CCTCTCAATC
1 GCTCTCAATC
19407631 AATCCAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
16 1 0.03
17 14 0.36
18 24 0.62
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (18 bp):
GCTCTCAATCTTCGAATG
Found at i:19407998 original size:81 final size:81
Alignment explanation
Indices: 19407875--19408102 Score: 354
Period size: 81 Copynumber: 2.8 Consensus size: 81
19407865 AATTTGACTT
* * * *
19407875 TTATCTCTAAATT-AATAT-AATTA-TTAGAGATAAATTAAATGACCAATAATTAAATTTTGATT
1 TTATCTCTAAATTAAAT-TGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATT
*
19407937 GGTCAAAAATATGAATA
65 GGTCAAAAATATAAATA
** *
19407954 TTATCTCTAAATTATCTTGATTTATTTAGAGATAAATTGGATGACCAATAACTAATTTTTGATTG
1 TTATCTCTAAATTAAATTGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTG
19408019 GTCAAAAATATAAATA
66 GTCAAAAATATAAATA
19408035 TTATCTCTAAATTAAATTGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTG
1 TTATCTCTAAATTAAATTGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTG
19408100 GTC
66 GTC
19408103 CAATTTAAAC
Statistics
Matches: 135, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 14 0.10
80 5 0.04
81 116 0.86
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (81 bp):
TTATCTCTAAATTAAATTGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTG
GTCAAAAATATAAATA
Found at i:19408660 original size:81 final size:82
Alignment explanation
Indices: 19408518--19408673 Score: 244
Period size: 81 Copynumber: 1.9 Consensus size: 82
19408508 GTTCTATGAT
* * *
19408518 TAGAACTGAGAAGAGCACATATGGGGTTGCATACTTGCATTATTTTAAAGGTATTTAATTGTCCA
1 TAGAACTGAGAAGAGCACACATGAGGTTGCACACTTGCATTATTTTAAAGGTATTTAATTGTCCA
*
19408583 ATTTGAAAATAACAAAA
66 ATTTCAAAATAACAAAA
*
19408600 TAGAACTGAGAAGAGCACACAT-AGGTTGCACACTTGCATTATTTTGAAGGTATTCT-ATTGTCC
1 TAGAACTGAGAAGAGCACACATGAGGTTGCACACTTGCATTATTTTAAAGGTATT-TAATTGTCC
19408663 AATTTCAAAAT
65 AATTTCAAAAT
19408674 TATCACACTA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 46 0.68
82 22 0.32
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (82 bp):
TAGAACTGAGAAGAGCACACATGAGGTTGCACACTTGCATTATTTTAAAGGTATTTAATTGTCCA
ATTTCAAAATAACAAAA
Found at i:19408952 original size:82 final size:82
Alignment explanation
Indices: 19408815--19408968 Score: 254
Period size: 82 Copynumber: 1.9 Consensus size: 82
19408805 AGAGGTCTTC
* * *
19408815 GAAAATGACGAATTAGAATTGAGAGGAACACACGTGGGGTTGCACACTTGCATTATCTTAAAGAT
1 GAAAATAACGAATTAGAACTGAGAGGAACACACGTGAGGTTGCACACTTGCATTATCTTAAAGAT
19408880 ATTCAATTGTCTAATTT
66 ATTCAATTGTCTAATTT
* * *
19408897 GAAAATAACGAATTAGAACTGAGATGAGCACATGTGAGGTTGCACACTTGCATTATCTTAAAGAT
1 GAAAATAACGAATTAGAACTGAGAGGAACACACGTGAGGTTGCACACTTGCATTATCTTAAAGAT
19408962 ATTCAAT
66 ATTCAAT
19408969 AAATCTAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (82 bp):
GAAAATAACGAATTAGAACTGAGAGGAACACACGTGAGGTTGCACACTTGCATTATCTTAAAGAT
ATTCAATTGTCTAATTT
Found at i:19417176 original size:21 final size:21
Alignment explanation
Indices: 19417152--19417198 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
19417142 ACTACAACCC
*
19417152 TACTCAAAAATAAAAGCATAG
1 TACTCAAAAATAAAAGCATAA
* *
19417173 TACTTGAAAATTAAAAGCATAA
1 TAC-TCAAAAATAAAAGCATAA
19417195 TACT
1 TACT
19417199 TGAGATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.26
Consensus pattern (21 bp):
TACTCAAAAATAAAAGCATAA
Found at i:19417187 original size:22 final size:22
Alignment explanation
Indices: 19417157--19417265 Score: 112
Period size: 22 Copynumber: 5.0 Consensus size: 22
19417147 AACCCTACTC
* **
19417157 AAAAATAAAAGCATAGTACTTG
1 AAAATTAAAAGCATAACACTTG
*
19417179 AAAATTAAAAGCATAATACTTG
1 AAAATTAAAAGCATAACACTTG
* * ***
19417201 -AGATTAAAATCATAACACCCAA
1 AAAATTAAAAGCATAACA-CTTG
19417223 AAAATTAAAAGCATAACACTTG
1 AAAATTAAAAGCATAACACTTG
*
19417245 AAAATTAAAAACATAACACTT
1 AAAATTAAAAGCATAACACTT
19417266 CAATCAAACC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
21 14 0.20
22 42 0.59
23 15 0.21
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAATTAAAAGCATAACACTTG
Found at i:19417229 original size:44 final size:45
Alignment explanation
Indices: 19417179--19417263 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 45
19417169 ATAGTACTTG
* * *
19417179 AAAATTAAAAGCATAATACTTG-AGATTAAAATCATAACACCCAA
1 AAAATTAAAAGCATAACACTTGAAAATTAAAAACATAACACCCAA
19417223 AAAATTAAAAGCATAACACTTGAAAATTAAAAACATAACAC
1 AAAATTAAAAGCATAACACTTGAAAATTAAAAACATAACAC
19417264 TTCAATCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 21 0.57
45 16 0.43
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (45 bp):
AAAATTAAAAGCATAACACTTGAAAATTAAAAACATAACACCCAA
Found at i:19417930 original size:82 final size:82
Alignment explanation
Indices: 19417785--19418095 Score: 395
Period size: 82 Copynumber: 3.9 Consensus size: 82
19417775 TAAGTCATGA
* * * *
19417785 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAAAACTGAGAAGACCACACATGGGG
1 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTAAGAAGAGCACACATGGAG
*
19417850 TTGCACACTTGCATTAT
66 TTGCACACTTGCATCAT
* ** * * * * *
19417867 TTTAAAGGCATTCAATTGTCCAATTCAAAAATGACGAATTAGAACTGAGAAAAGCACATATGGGG
1 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTAAGAAGAGCACACATGGAG
*
19417932 TTGCACACTTACATCAT
66 TTGCACACTTGCATCAT
*
19417949 CTTAAAGATATTCAATTTTCCAATT------TGA--AATTAGAACTAAGAAGAGCACACATGGAG
1 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTAAGAAGAGCACACATGGAG
19418006 TTGCACACTTGCATCAT
66 TTGCACACTTGCATCAT
* * * *
19418023 CTTAAAGATATTCAATTATCCAATTCGAAAATGATGAATTAGAACTAAGAGGAGCACACATGAAG
1 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTAAGAAGAGCACACATGGAG
19418088 TTGCACAC
66 TTGCACAC
19418096 ATGGAGTTGC
Statistics
Matches: 199, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
74 65 0.33
76 3 0.02
80 3 0.02
82 128 0.64
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (82 bp):
CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTAAGAAGAGCACACATGGAG
TTGCACACTTGCATCAT
Found at i:19417981 original size:74 final size:74
Alignment explanation
Indices: 19417903--19418052 Score: 237
Period size: 74 Copynumber: 2.0 Consensus size: 74
19417893 AAAAATGACG
* * * *
19417903 AATTAGAACTGAGAAAAGCACATATGGGGTTGCACACTTACATCATCTTAAAGATATTCAATTTT
1 AATTAGAACTAAGAAAAGCACACATGGAGTTGCACACTTACATCATCTTAAAGATATTCAATTAT
*
19417968 CCAATTTGA
66 CCAATTCGA
* *
19417977 AATTAGAACTAAGAAGAGCACACATGGAGTTGCACACTTGCATCATCTTAAAGATATTCAATTAT
1 AATTAGAACTAAGAAAAGCACACATGGAGTTGCACACTTACATCATCTTAAAGATATTCAATTAT
19418042 CCAATTCGA
66 CCAATTCGA
19418051 AA
1 AA
19418053 ATGATGAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (74 bp):
AATTAGAACTAAGAAAAGCACACATGGAGTTGCACACTTACATCATCTTAAAGATATTCAATTAT
CCAATTCGA
Found at i:19418095 original size:14 final size:14
Alignment explanation
Indices: 19418076--19418109 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
19418066 ACTAAGAGGA
19418076 GCACACATGAAGTT
1 GCACACATGAAGTT
*
19418090 GCACACATGGAGTT
1 GCACACATGAAGTT
19418104 GCACAC
1 GCACAC
19418110 TTGCGTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (14 bp):
GCACACATGAAGTT
Found at i:19421671 original size:22 final size:22
Alignment explanation
Indices: 19421643--19421718 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
19421633 GTCCAATTCA
19421643 AAAATTAAAAGCATAACACTTG
1 AAAATTAAAAGCATAACACTTG
* *
19421665 AAAATTAAAAACATAACACTTC
1 AAAATTAAAAGCATAACACTTG
* *
19421687 AAAATTGAAAGCATAACAATTG
1 AAAATTAAAAGCATAACACTTG
19421709 -AAATTAAAAG
1 AAAATTAAAAG
19421719 GCCTAAGGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 9 0.19
22 38 0.81
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (22 bp):
AAAATTAAAAGCATAACACTTG
Found at i:19425747 original size:82 final size:82
Alignment explanation
Indices: 19425599--19425777 Score: 286
Period size: 82 Copynumber: 2.2 Consensus size: 82
19425589 ATTTGTTGAT
* * *
19425599 TTAAAGATATTCAATTGTCCAATTTGAAAATGACAAATTAGAATTGAGAGGAGTAAACGTGGGGT
1 TTAAAGATATTCAATTGTCCAATTCGAAAATGACAAATTAGAATTGAGAGGAGCAAACGTGAGGT
19425664 TGCACACTTGCATTATC
66 TGCACACTTGCATTATC
* * * * *
19425681 TTCAATATATTCAATTGTCCAATTCGAAAATGACGAATTAGAATTGAGAGGAGCACATGTGAGGT
1 TTAAAGATATTCAATTGTCCAATTCGAAAATGACAAATTAGAATTGAGAGGAGCAAACGTGAGGT
19425746 TGCACACTTGCATTATC
66 TGCACACTTGCATTATC
19425763 TTAAAGATATTCAAT
1 TTAAAGATATTCAAT
19425778 AAATCTAGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (82 bp):
TTAAAGATATTCAATTGTCCAATTCGAAAATGACAAATTAGAATTGAGAGGAGCAAACGTGAGGT
TGCACACTTGCATTATC
Found at i:19444737 original size:82 final size:82
Alignment explanation
Indices: 19444589--19444761 Score: 206
Period size: 82 Copynumber: 2.1 Consensus size: 82
19444579 AAGATCTTCA
* * *
19444589 ATTGTCCAATTCAAAAATGCTGAATTCGAAATGAGAAGAGCACACATGGGGTTGCCCACTTGCAT
1 ATTGTCCAATTCAAAAATGCTAAATTAGAAATGAGAAGAGCACACATGGGGTTGCACACTTGCAT
19444654 TATTTTAGA-GGTATTCG
66 TATTTTA-ACGGTATTCG
* * * * * * * *
19444671 ATTGTCCAATTCGAAAATGAC-AAATTAGAATTGGGAAGAGCACACATGGTGTTGTATAGTTTCA
1 ATTGTCCAATTCAAAAATG-CTAAATTAGAAATGAGAAGAGCACACATGGGGTTGCACACTTGCA
*
19444735 TTATTTTAACGGTATTCT
65 TTATTTTAACGGTATTCG
19444753 ATTGTCCAA
1 ATTGTCCAA
19444762 CAGGACAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 1 0.01
82 75 0.97
83 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (82 bp):
ATTGTCCAATTCAAAAATGCTAAATTAGAAATGAGAAGAGCACACATGGGGTTGCACACTTGCAT
TATTTTAACGGTATTCG
Found at i:19444906 original size:82 final size:82
Alignment explanation
Indices: 19444789--19444953 Score: 285
Period size: 82 Copynumber: 2.0 Consensus size: 82
19444779 TATACAATAG
*
19444789 TTGTCCAATTCGAAAATGATGAATTAGAACCGAGAGGAGCAAATGTGGGGTTGCACACTTGCATT
1 TTGTCCAATTCGAAAATGATGAATTAGAACCGAGAGGAGCAAATGTGAGGTTGCACACTTGCATT
19444854 ATCTTAAAGATATTCAA
66 ATCTTAAAGATATTCAA
* ** *
19444871 TTGTCCAATTTGAAAATGATGAATTAGAATTGAGAGGAGCACATGTGAGGTTGCACACTTGCATT
1 TTGTCCAATTCGAAAATGATGAATTAGAACCGAGAGGAGCAAATGTGAGGTTGCACACTTGCATT
19444936 ATCTTAAAGATATTCAA
66 ATCTTAAAGATATTCAA
19444953 T
1 T
19444954 AAATCTAGCT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (82 bp):
TTGTCCAATTCGAAAATGATGAATTAGAACCGAGAGGAGCAAATGTGAGGTTGCACACTTGCATT
ATCTTAAAGATATTCAA
Found at i:19457612 original size:133 final size:132
Alignment explanation
Indices: 19457374--19457638 Score: 521
Period size: 133 Copynumber: 2.0 Consensus size: 132
19457364 TGTTTTATTG
19457374 CTCTTGAATCAATCCACCAATCATCATTTTCGTCAACCATATGGATTTCAGAAATCATAGCTGCA
1 CTCTTGAATCAATCCACCAATCATCATTTTCGTCAACCATATGGATTTCAGAAATCATAGCTGCA
19457439 AAATTTTCAAAAGCAACATCATTTGAAGAAGTAATTTTCTTCTTCAATAATCAACATTCCTCTTT
66 AAATTTTCAAAAGCAACATCATTTGAAGAAGTAATTTTCTTCTTCAATAATCAACATTCCTCTTT
19457504 GA
131 GA
19457506 NCTCTTGAATCAATCCACCAATCATCATTTTCGTCAACCATATGGATTTCAGAAATCATAGCTGC
1 -CTCTTGAATCAATCCACCAATCATCATTTTCGTCAACCATATGGATTTCAGAAATCATAGCTGC
19457571 AAAATTTTCAAAAGCAACATCATTTGAAGAAGTAATTTTCTTCTTCAATAATCAACATTCCTCTT
65 AAAATTTTCAAAAGCAACATCATTTGAAGAAGTAATTTTCTTCTTCAATAATCAACATTCCTCTT
19457636 TGA
130 TGA
19457639 AATGTCCTAG
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 132 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (132 bp):
CTCTTGAATCAATCCACCAATCATCATTTTCGTCAACCATATGGATTTCAGAAATCATAGCTGCA
AAATTTTCAAAAGCAACATCATTTGAAGAAGTAATTTTCTTCTTCAATAATCAACATTCCTCTTT
GA
Found at i:19461761 original size:28 final size:28
Alignment explanation
Indices: 19461717--19461770 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
19461707 GATCGAAACT
*
19461717 TTATTTATGTTTAGTGTAATTTATTTTC
1 TTATTTATCTTTAGTGTAATTTATTTTC
*
19461745 TTATTTATCTTTGGTGTAATTTATTT
1 TTATTTATCTTTAGTGTAATTTATTT
19461771 ATTTTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.04, G:0.11, T:0.65
Consensus pattern (28 bp):
TTATTTATCTTTAGTGTAATTTATTTTC
Found at i:19467264 original size:82 final size:82
Alignment explanation
Indices: 19467116--19467294 Score: 286
Period size: 82 Copynumber: 2.2 Consensus size: 82
19467106 ATTTGTTGAT
* * *
19467116 TTAAAGATATTCAATTGTCCAATTTGAAAATGACAAATTAGAATTGAGAGGAGTAAACGTGGGGT
1 TTAAAGATATTCAATTGTCCAATTCGAAAATGACAAATTAGAATTGAGAGGAGCAAACGTGAGGT
19467181 TGCACACTTGCATTATC
66 TGCACACTTGCATTATC
* * * * *
19467198 TTCAATATATTCAATTGTCCAATTCGAAAATGACGAATTAGAATTGAGAGGAGCACATGTGAGGT
1 TTAAAGATATTCAATTGTCCAATTCGAAAATGACAAATTAGAATTGAGAGGAGCAAACGTGAGGT
19467263 TGCACACTTGCATTATC
66 TGCACACTTGCATTATC
19467280 TTAAAGATATTCAAT
1 TTAAAGATATTCAAT
19467295 AAATCTAGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (82 bp):
TTAAAGATATTCAATTGTCCAATTCGAAAATGACAAATTAGAATTGAGAGGAGCAAACGTGAGGT
TGCACACTTGCATTATC
Found at i:19468070 original size:2 final size:2
Alignment explanation
Indices: 19468063--19468106 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
19468053 TTCTTTTTAA
* *
19468063 AT AT AT AT AT AT -T AT AT TT AT AT AGT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
19468105 AT
1 AT
19468107 TTATTGTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
AT
Found at i:19469429 original size:82 final size:82
Alignment explanation
Indices: 19469292--19469448 Score: 278
Period size: 82 Copynumber: 1.9 Consensus size: 82
19469282 GTTCTATGAT
*
19469292 TAGAACTGAGAAGAGCACATATGGGATTGCACACTTGCATTATTTTAAACGTATTCAATTGTCCA
1 TAGAACTGACAAGAGCACATATGGGATTGCACACTTGCATTATTTTAAACGTATTCAATTGTCCA
19469357 ATTCGAAAATGACGAAA
66 ATTCGAAAATGACGAAA
* * *
19469374 TAGAATTGACAAGAGCACATATGGGGTTGCACACTTGCATTATTTTAAACGTATTCTATTGTCCA
1 TAGAACTGACAAGAGCACATATGGGATTGCACACTTGCATTATTTTAAACGTATTCAATTGTCCA
19469439 ATTCGAAAAT
66 ATTCGAAAAT
19469449 TATCACATTA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (82 bp):
TAGAACTGACAAGAGCACATATGGGATTGCACACTTGCATTATTTTAAACGTATTCAATTGTCCA
ATTCGAAAATGACGAAA
Found at i:19469539 original size:117 final size:117
Alignment explanation
Indices: 19469350--19469565 Score: 315
Period size: 117 Copynumber: 1.8 Consensus size: 117
19469340 ACGTATTCAA
* *
19469350 TTGTCCAATTCGAAAATGACGAAATAGAATTGACAAGAGCACATATGGGGTTGCACACTTGCATT
1 TTGTCCAATTCGAAAATGACGAAATAGAACTGACAAGAGCACACATGGGGTTGCACACTTGCATT
* ** *
19469415 ATTTTAAACGTATTCTATTGTCCAATTCGAAAATTATCACATTATACAATAG
66 ATCTTAAAAATATTCAATTGTCCAATTCGAAAATTATCACATTATACAATAG
* * * * * **
19469467 TTGTCTAATTCGAAAATGATGAATTAGAGCTGAGAAGAGTGCACATGGGGTTGCACACTTGCATT
1 TTGTCCAATTCGAAAATGACGAAATAGAACTGACAAGAGCACACATGGGGTTGCACACTTGCATT
19469532 ATCTTAAAAATATTCAATTGTCCAATTCGAAAAT
66 ATCTTAAAAATATTCAATTGTCCAATTCGAAAAT
19469566 GAAGAATTCG
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 86 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (117 bp):
TTGTCCAATTCGAAAATGACGAAATAGAACTGACAAGAGCACACATGGGGTTGCACACTTGCATT
ATCTTAAAAATATTCAATTGTCCAATTCGAAAATTATCACATTATACAATAG
Found at i:19469594 original size:82 final size:82
Alignment explanation
Indices: 19469467--19469631 Score: 240
Period size: 82 Copynumber: 2.0 Consensus size: 82
19469457 TATACAATAG
* * * * ** *
19469467 TTGTCTAATTCGAAAATGATGAATTAGAGCTGAGAAGAGTGCACATGGGGTTGCACACTTGCATT
1 TTGTCCAATTCGAAAATGAAGAATTAGAACCGAGAAGAGCACACATGGGGTTGCACACTGGCATT
19469532 ATCTTAAAAATATTCAA
66 ATCTTAAAAATATTCAA
* *
19469549 TTGTCCAATTCGAAAATGAAGAATTCGAACCGAGAGGAGCACACATGGGGTTGCACACTGGCATT
1 TTGTCCAATTCGAAAATGAAGAATTAGAACCGAGAAGAGCACACATGGGGTTGCACACTGGCATT
*
19469614 ATCTTAAAGATATTCAA
66 ATCTTAAAAATATTCAA
19469631 T
1 T
19469632 AAATCTAGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (82 bp):
TTGTCCAATTCGAAAATGAAGAATTAGAACCGAGAAGAGCACACATGGGGTTGCACACTGGCATT
ATCTTAAAAATATTCAA
Found at i:19470665 original size:117 final size:117
Alignment explanation
Indices: 19470450--19470665 Score: 283
Period size: 117 Copynumber: 1.8 Consensus size: 117
19470440 ACGTATTCAA
* * *
19470450 TTGTCCAATTCAAATATGACGAAATAGAATTGACAAGAGCACACATGGGGTTGTACACTTGCATT
1 TTGTCCAATTCAAATATGACGAAATAGAACTGACAAGAGCACACATGGCGTTGCACACTTGCATT
* * **
19470515 ACTTTAAAGGTATTCTATTGTCCAATTTGAAAATTATCACACTATACAATAG
66 ACTTTAAAGATATTCAATTGTCCAATTCAAAAATTATCACACTATACAATAG
* * * * **
19470567 TTGTCTAATTCGAAA-ATGATGAATTAGAACTGAGAAGAGTGCACATGGCGTTGCACACTTGCAT
1 TTGTCCAATTC-AAATATGACGAAATAGAACTGACAAGAGCACACATGGCGTTGCACACTTGCAT
19470631 TA-TCTTAAAGATATTCAATTGTCCAATTCAAAAAT
65 TACT-TTAAAGATATTCAATTGTCCAATTCAAAAAT
19470666 GAAGAATTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
116 1 0.01
117 80 0.95
118 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (117 bp):
TTGTCCAATTCAAATATGACGAAATAGAACTGACAAGAGCACACATGGCGTTGCACACTTGCATT
ACTTTAAAGATATTCAATTGTCCAATTCAAAAATTATCACACTATACAATAG
Found at i:19470694 original size:82 final size:82
Alignment explanation
Indices: 19470567--19470731 Score: 258
Period size: 82 Copynumber: 2.0 Consensus size: 82
19470557 TATACAATAG
* * * * **
19470567 TTGTCTAATTCGAAAATGATGAATTAGAACTGAGAAGAGTGCACATGGCGTTGCACACTTGCATT
1 TTGTCCAATTCAAAAATGAAGAATTAGAACCGAGAAGAGCACACATGGCGTTGCACACTTGCATT
19470632 ATCTTAAAGATATTCAA
66 ATCTTAAAGATATTCAA
* *
19470649 TTGTCCAATTCAAAAATGAAGAATTAGAACCGAGAGGAGCACACATGGGGTTGCACACTTGCATT
1 TTGTCCAATTCAAAAATGAAGAATTAGAACCGAGAAGAGCACACATGGCGTTGCACACTTGCATT
19470714 ATCTTAAAGATATTCAA
66 ATCTTAAAGATATTCAA
19470731 T
1 T
19470732 AAATCTAGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (82 bp):
TTGTCCAATTCAAAAATGAAGAATTAGAACCGAGAAGAGCACACATGGCGTTGCACACTTGCATT
ATCTTAAAGATATTCAA
Found at i:19473801 original size:27 final size:28
Alignment explanation
Indices: 19473771--19473824 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
19473761 AATAATTCTA
* *
19473771 CAAATTTCAGTTGTG-TTTTTCCTTGTG
1 CAAATTTCAGTTCTGATTTTTCATTGTG
*
19473798 CAAATTTGAGTTCTGATTTTTCATTGT
1 CAAATTTCAGTTCTGATTTTTCATTGT
19473825 ACTCTAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.52
Consensus pattern (28 bp):
CAAATTTCAGTTCTGATTTTTCATTGTG
Found at i:19474843 original size:15 final size:15
Alignment explanation
Indices: 19474823--19474854 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19474813 AGTTTAAATC
*
19474823 ATGTTGAGTTGTTTT
1 ATGTTGAATTGTTTT
19474838 ATGTTGAATTGTTTT
1 ATGTTGAATTGTTTT
19474853 AT
1 AT
19474855 TTTAGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (15 bp):
ATGTTGAATTGTTTT
Found at i:19474862 original size:26 final size:26
Alignment explanation
Indices: 19474833--19474908 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
19474823 ATGTTGAGTT
19474833 GTTTTATGTTGAATTGTTTTATTTTA
1 GTTTTATGTTGAATTGTTTTATTTTA
* *
19474859 GTTTTATGTTAAATTGCTTTTAGTTTA
1 GTTTTATGTTGAATTG-TTTTATTTTA
* * *
19474886 GTTTCATATTGATTTAGTTTTAT
1 GTTTTATGTTGAATT-GTTTTAT
19474909 GCTTTTGCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 15 0.37
27 25 0.61
28 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.14, T:0.62
Consensus pattern (26 bp):
GTTTTATGTTGAATTGTTTTATTTTA
Found at i:19474887 original size:27 final size:26
Alignment explanation
Indices: 19474833--19474889 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
19474823 ATGTTGAGTT
* *
19474833 GTTTTATGTTGAATTGTTTTATTTTA
1 GTTTTATGTTAAATTGTTTTAGTTTA
19474859 GTTTTATGTTAAATTGCTTTTAGTTTA
1 GTTTTATGTTAAATTG-TTTTAGTTTA
19474886 GTTT
1 GTTT
19474890 CATATTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.19, C:0.02, G:0.16, T:0.63
Consensus pattern (26 bp):
GTTTTATGTTAAATTGTTTTAGTTTA
Found at i:19476021 original size:10 final size:8
Alignment explanation
Indices: 19475998--19476031 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
19475988 TTAGCAAGTT
19475998 AAGAGAGA
1 AAGAGAGA
19476006 AAGAGAGA
1 AAGAGAGA
*
19476014 AAGGGAGA
1 AAGAGAGA
*
19476022 GAGAGAGA
1 AAGAGAGA
19476030 AA
1 AA
19476032 ATTCAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (8 bp):
AAGAGAGA
Found at i:19477405 original size:22 final size:22
Alignment explanation
Indices: 19477380--19477482 Score: 118
Period size: 22 Copynumber: 4.7 Consensus size: 22
19477370 ACTCAAAAAA
**
19477380 AAAAGCATAGTACTTGAAAATT
1 AAAAGCATAACACTTGAAAATT
* *
19477402 AAAAGCATAATACTTG-AGATT
1 AAAAGCATAACACTTGAAAATT
* **
19477423 AAAATCATAACACTCAAAAAATT
1 AAAAGCATAACACT-TGAAAATT
19477446 AAAAGCATAACACTTGAAAATT
1 AAAAGCATAACACTTGAAAATT
*
19477468 AAAAACATAACACTT
1 AAAAGCATAACACTT
19477483 CAATCAAACC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
21 16 0.24
22 35 0.51
23 17 0.25
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (22 bp):
AAAAGCATAACACTTGAAAATT
Found at i:19477461 original size:44 final size:45
Alignment explanation
Indices: 19477396--19477481 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
19477386 ATAGTACTTG
* * *
19477396 AAAATTAAAAGCATAATACTTG-AGATTAAAATCATAACACTCAA
1 AAAATTAAAAGCATAACACTTGAAAATTAAAAACATAACACTCAA
19477440 AAAATTAAAAGCATAACACTTGAAAATTAAAAACATAACACT
1 AAAATTAAAAGCATAACACTTGAAAATTAAAAACATAACACT
19477482 TCAATCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 21 0.55
45 17 0.45
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (45 bp):
AAAATTAAAAGCATAACACTTGAAAATTAAAAACATAACACTCAA
Found at i:19478147 original size:82 final size:82
Alignment explanation
Indices: 19478002--19478293 Score: 440
Period size: 82 Copynumber: 3.6 Consensus size: 82
19477992 TAAGTCATGA
* *
19478002 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAAAACTGAGAAGACCACACATGGGG
1 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTGAGAAGAGCACACATGGGG
*
19478067 TTGCACACTTGCATTAT
66 TTGCACACTTGCATCAT
* * * *
19478084 TTTAAAGGTATTCAATTGTCCAATTCGAAAAGGACGAATTAGAACTGAGAAGAGCACATATGGGG
1 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTGAGAAGAGCACACATGGGG
* *
19478149 TTGCAAACTTACATCAT
66 TTGCACACTTGCATCAT
* *
19478166 CTTAAAGATATTCAATTTTCCAATTCGAAAATGACGAATTAGAACTGAGAAGGGCACACATGGGG
1 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTGAGAAGAGCACACATGGGG
19478231 TTGCACACTTGCATCAT
66 TTGCACACTTGCATCAT
* * * * *
19478248 CTTACAGATATTCAATTATCGAATTCAAAAATGATGAATTAGAACT
1 CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACT
19478294 AAGAGGAGTG
Statistics
Matches: 188, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 188 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (82 bp):
CTTAAAGATATTCAATTGTCCAATTCGAAAATGACGAATTAGAACTGAGAAGAGCACACATGGGG
TTGCACACTTGCATCAT
Found at i:19479172 original size:10 final size:10
Alignment explanation
Indices: 19479157--19479186 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19479147 TTATTATTTT
19479157 TATTTTATTA
1 TATTTTATTA
19479167 TATTTTATTA
1 TATTTTATTA
19479177 TATTTT-TTA
1 TATTTTATTA
19479186 T
1 T
19479187 TTTATTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTTATTA
Found at i:19479176 original size:24 final size:24
Alignment explanation
Indices: 19479147--19479204 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
19479137 TATTAACTAA
19479147 TTATTATTTTTATTTTATTATATT-
1 TTATTATTTTT-TTTTATTATATTC
* *
19479171 TTATTA-TATTTTTTATTTTATTCC
1 TTATTATTTTTTTTTATTATATT-C
19479195 TTATTATTTT
1 TTATTATTTT
19479205 CTTTATACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 11 0.39
23 3 0.11
24 12 0.43
25 2 0.07
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.74
Consensus pattern (24 bp):
TTATTATTTTTTTTTATTATATTC
Found at i:19479201 original size:27 final size:26
Alignment explanation
Indices: 19479115--19479202 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 26
19479105 TGCTAATGTA
*
19479115 ATTATCTATATTTTTTAGTTATTATTAACTA
1 ATTAT-TATATTTTTTA-TT-TTATT--CTT
*
19479146 ATTA-T-TA-TTTTTATTTTATTATAT
1 ATTATTATATTTTTTATTTTATTCT-T
*
19479170 TTTATTATATTTTTTATTTTATTCCTT
1 ATTATTATATTTTTTATTTTATT-CTT
19479197 ATTATT
1 ATTATT
19479203 TTCTTTATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
23 1 0.02
24 3 0.06
25 6 0.13
26 4 0.09
27 25 0.53
28 3 0.06
29 1 0.02
31 4 0.09
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (26 bp):
ATTATTATATTTTTTATTTTATTCTT
Found at i:19484616 original size:9 final size:9
Alignment explanation
Indices: 19484602--19484631 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19484592 TTTTTAATTA
19484602 TTTATATAT
1 TTTATATAT
19484611 TTTATATAT
1 TTTATATAT
*
19484620 TTTATTTAT
1 TTTATATAT
19484629 TTT
1 TTT
19484632 TTAGTGTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTATATAT
Found at i:19484763 original size:16 final size:17
Alignment explanation
Indices: 19484742--19484779 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
19484732 GGTTCTTCTC
* *
19484742 TTTTTATTTTTAT-TAT
1 TTTTTATATATATATAT
19484758 TTTTTATATATATATAT
1 TTTTTATATATATATAT
19484775 TTTTT
1 TTTTT
19484780 TGGAGATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATATATATATAT
Found at i:19484838 original size:38 final size:38
Alignment explanation
Indices: 19484787--19485292 Score: 629
Period size: 38 Copynumber: 13.6 Consensus size: 38
19484777 TTTTGGAGAT
* * * * *
19484787 TCCTCAAAGCTGAGGTAACGAAACTTTTAAAAATGGAT
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
* * * *
19484825 TCCTCAAAACTGAGGCAATGTGACTATTAAAAATAAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
* * **
19484863 TCCTCGAAGCTGAGATAACGAGACTTTTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
* *
19484901 TTCTCAAAACTGAGGCAACAAGAC-TTTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
*
19484938 TCCTCAAAATTGAGGCAACGAGACTTTTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
19484976 TCCTCAAAACTGAGGCAACGAGA-TTTTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
*
19485013 TCCTAAAAACTGAGGCAACGAGA-TTTTAAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTT-AAAAATGAAC
** * *
19485051 TCCTCAAATTTGAGGCACCAAGAC--TTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
* * *
19485087 TCCTCAAGATTGAGGCACCGAGAC-TTT-AAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
19485123 TCCTCAAAACTGAGGCAACGAGAC--TTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
* *
19485159 TCCTCAAAACTGAGGCACCAAGAC-TTTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
*
19485196 TCCTCAAAACTGAGGCAACGAGAACTTTTAAAAATGAGC
1 TCCTCAAAACTGAGGCAACGAG-ACTTTTAAAAATGAAC
* * * *
19485235 TCCTCAAAGCTGAGGCAACG-TACCTTTAAAAATGAAT
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
*
19485272 TCCTCAAAATTGAGGCAACGA
1 TCCTCAAAACTGAGGCAACGA
19485293 AACCTTTTTT
Statistics
Matches: 408, Mismatches: 51, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
35 2 0.00
36 92 0.23
37 141 0.35
38 142 0.35
39 31 0.08
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (38 bp):
TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAAC
Found at i:19484966 original size:75 final size:75
Alignment explanation
Indices: 19484787--19485292 Score: 639
Period size: 75 Copynumber: 6.8 Consensus size: 75
19484777 TTTTGGAGAT
* * * * * * *
19484787 TCCTCAAAGCTGAGGTAACGAAACTTTTAAAAATGGATTCCTCAAAACTGAGGCAATGTGACTAT
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGACT-T
*
19484852 TAAAAATAAAC
65 TAAAAATGAAC
* * ** * *
19484863 TCCTCGAAGCTGAGATAACGAGACTTTTAAAAATGAACTTCTCAAAACTGAGGCAACAAGACTTT
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGACTTT
19484928 AAAAATGAAC
66 AAAAATGAAC
* *
19484938 TCCTCAAAATTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGATTTT
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGACTTT
19485003 AAAAATGAAC
66 AAAAATGAAC
* ** * *
19485013 TCCTAAAAACTGAGGCAACGAGA-TTTTAAAAAATGAACTCCTCAAATTTGAGGCACCAAGAC-T
1 TCCTCAAAACTGAGGCAACGAGACTTTT-AAAAATGAACTCCTCAAAACTGAGGCAACGAGACTT
19485076 TAAAAATGAAC
65 TAAAAATGAAC
* * *
19485087 TCCTCAAGATTGAGGCACCGAGAC-TTT-AAAATGAACTCCTCAAAACTGAGGCAACGAGAC-TT
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGACTTT
19485149 AAAAATGAAC
66 AAAAATGAAC
* *
19485159 TCCTCAAAACTGAGGCACCAAGAC-TTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAACTT
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAG-AC-T
*
19485223 TTAAAAATGAGC
64 TTAAAAATGAAC
* * * * *
19485235 TCCTCAAAGCTGAGGCAACG-TACCTTTAAAAATGAATTCCTCAAAATTGAGGCAACGA
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGA
19485293 AACCTTTTTT
Statistics
Matches: 380, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
72 65 0.17
73 31 0.08
74 40 0.11
75 130 0.34
76 114 0.30
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (75 bp):
TCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGACTTT
AAAAATGAAC
Found at i:19488049 original size:13 final size:13
Alignment explanation
Indices: 19488031--19488055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19488021 TTCCAGAAAA
19488031 TTTATAAAATCAT
1 TTTATAAAATCAT
19488044 TTTATAAAATCA
1 TTTATAAAATCA
19488056 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:19500486 original size:15 final size:15
Alignment explanation
Indices: 19500466--19500504 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
19500456 TTCTTAAAAC
*
19500466 AACTTTAAAATCGAA
1 AACTTTAAAATCCAA
19500481 AACTTTAAAATCCAA
1 AACTTTAAAATCCAA
*
19500496 AGCTTTAAA
1 AACTTTAAA
19500505 TTCAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.28
Consensus pattern (15 bp):
AACTTTAAAATCCAA
Found at i:19500516 original size:15 final size:14
Alignment explanation
Indices: 19500466--19500516 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
19500456 TTCTTAAAAC
19500466 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
19500481 AACTTTAAAATCCAA
1 AACTTTAAAAT-CAA
* *
19500496 AGCTTTAAATTCAA
1 AACTTTAAAATCAA
19500510 AATCTTT
1 AA-CTTT
19500517 GATCTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 4 0.13
15 26 0.84
16 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:19502190 original size:266 final size:265
Alignment explanation
Indices: 19501716--19502224 Score: 867
Period size: 266 Copynumber: 1.9 Consensus size: 265
19501706 ATGAAATCAT
*
19501716 TTTATAAAATCACAATTTCTCCTAAAACATAGCAATTTACCATTTAAACCTATTTTCTAGAAAAT
1 TTTATAAAATCACAATTTCTCCTAAAACATAGCAATTTACCATTTAAACCCATTTTCTAGAAAAT
* * *
19501781 CACACAATTGTATAAAACTACTCTAGATAATTAAGACGATAATAAGTTCACTCATAGTATTAGGA
66 CACACAATTGTATAAAACTACTCTAGATAATTAAGACAAAAATAAGTTCACTCACAGTATTAGGA
* *
19501846 GTAGAAATACTCCTATTTTCAGTCCGCGGGTACAATCCTTTACCCGTATCCAATGGCTCACCACC
131 GTAGAAATACTCATATTTTCAGTCCGCGAGTACAATCCTTTACCCGTATCCAATGGCTCACCACC
19501911 TAGCCATAATCCATGACACATA-TTCTAATTAAATTGTGTCTAACAGTNCCAGTATTCAATTTTC
196 TAGCCATAATCCATGACACATATTTC-AATTAAATTGTGTCTAACAGT-CCAGTATTCAATTTTC
19501975 TAAAAAA
259 TAAAAAA
*
19501982 TTTATAAAATCACAATTTCTCCTAAAACATAGCAATTTACCATTTAAACCCATTTTCTATAAAAT
1 TTTATAAAATCACAATTTCTCCTAAAACATAGCAATTTACCATTTAAACCCATTTTCTAGAAAAT
* *
19502047 CACATAATTGTATAAAACTACTCTAGATAATTAAGACAAAAATAAGTTTACTCACAGTATTAGGA
66 CACACAATTGTATAAAACTACTCTAGATAATTAAGACAAAAATAAGTTCACTCACAGTATTAGGA
* * *
19502112 GTAGAAATACTCATATTTTCAGTCCGCGAGTACAGTCCTTTACCTGTATTCAATGGCTCACCACC
131 GTAGAAATACTCATATTTTCAGTCCGCGAGTACAATCCTTTACCCGTATCCAATGGCTCACCACC
* *
19502177 TAGCTATAATCCATGACACATATTTCAATTAAATTGTGTCTAATAGTC
196 TAGCCATAATCCATGACACATATTTCAATTAAATTGTGTCTAACAGTC
19502225 ATAAGCTATT
Statistics
Matches: 228, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
265 1 0.00
266 224 0.98
267 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (265 bp):
TTTATAAAATCACAATTTCTCCTAAAACATAGCAATTTACCATTTAAACCCATTTTCTAGAAAAT
CACACAATTGTATAAAACTACTCTAGATAATTAAGACAAAAATAAGTTCACTCACAGTATTAGGA
GTAGAAATACTCATATTTTCAGTCCGCGAGTACAATCCTTTACCCGTATCCAATGGCTCACCACC
TAGCCATAATCCATGACACATATTTCAATTAAATTGTGTCTAACAGTCCAGTATTCAATTTTCTA
AAAAA
Found at i:19502905 original size:31 final size:31
Alignment explanation
Indices: 19502870--19502933 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
19502860 ATTCCAACAC
19502870 TTTCTCTTTGATTTTTCCCACCTAGGGTTTG
1 TTTCTCTTTGATTTTTCCCACCTAGGGTTTG
19502901 TTTCTCTTTGATTTTTCCCACCTAGGGTTTG
1 TTTCTCTTTGATTTTTCCCACCTAGGGTTTG
19502932 TT
1 TT
19502934 CTTCCTTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.09, C:0.22, G:0.16, T:0.53
Consensus pattern (31 bp):
TTTCTCTTTGATTTTTCCCACCTAGGGTTTG
Found at i:19511913 original size:2 final size:2
Alignment explanation
Indices: 19511906--19511945 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
19511896 TATACATTTA
19511906 AT AT AT AT AT AT AT ACT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A
19511946 CTCCTATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19513611 original size:22 final size:22
Alignment explanation
Indices: 19513583--19513658 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
19513573 GTCCAATTCA
19513583 AAAATTAAAAGCATAACACTTG
1 AAAATTAAAAGCATAACACTTG
* *
19513605 AAAATTAAAAACATAACACTTC
1 AAAATTAAAAGCATAACACTTG
* * *
19513627 AAAATTGAAAGCACAACAATTG
1 AAAATTAAAAGCATAACACTTG
19513649 -AAATTAAAAG
1 AAAATTAAAAG
19513659 GCCTAAGGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
21 9 0.20
22 37 0.80
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (22 bp):
AAAATTAAAAGCATAACACTTG
Found at i:19518085 original size:82 final size:82
Alignment explanation
Indices: 19517929--19518107 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 82
19517919 AATTTGTTGA
* *
19517929 CTTAAAGATATTCAATTGTCCAATTCAAAAATGACGAATTAGAACTAAGAAGAGCACACATGAGT
1 CTTAAAGATATTCAATTGTCCAATTCAAAAATGACAAATTAGAACTAAGAAGAGCACACATGAGG
* ** *
19517994 TTGTGCACTTGTATTATT
66 TAGCACACTTGCATT-TT
* * * * * ** *
19518012 C-TAAAGGTATTCAATTGTCCAATTCGAAAGTGACAAATTAGAATTGAGAAGAGCACATGTGGGG
1 CTTAAAGATATTCAATTGTCCAATTCAAAAATGACAAATTAGAACTAAGAAGAGCACACATGAGG
19518076 TAGCACACTTGCATTTT
66 TAGCACACTTGCATTTT
19518093 CTTAAA-ATATTCAAT
1 CTTAAAGATATTCAAT
19518108 AAATCTGACT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 11 0.14
82 68 0.85
83 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (82 bp):
CTTAAAGATATTCAATTGTCCAATTCAAAAATGACAAATTAGAACTAAGAAGAGCACACATGAGG
TAGCACACTTGCATTTT
Found at i:19518617 original size:18 final size:19
Alignment explanation
Indices: 19518589--19518624 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
19518579 CTGCAAAATC
19518589 TCTTGATTCTTCATGTGGT
1 TCTTGATTCTTCATGTGGT
19518608 TCTT-ATTCTTCATGTGG
1 TCTTGATTCTTCATGTGG
19518625 GCTCTAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.53
Consensus pattern (19 bp):
TCTTGATTCTTCATGTGGT
Found at i:19520027 original size:18 final size:18
Alignment explanation
Indices: 19520006--19520043 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
19519996 TGTTTTATGA
19520006 TATCATTGTCACATTTCT
1 TATCATTGTCACATTTCT
19520024 TATCATTGTCACATTTCT
1 TATCATTGTCACATTTCT
19520042 TA
1 TA
19520044 CTTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.50
Consensus pattern (18 bp):
TATCATTGTCACATTTCT
Found at i:19521598 original size:22 final size:21
Alignment explanation
Indices: 19521573--19521772 Score: 102
Period size: 22 Copynumber: 9.2 Consensus size: 21
19521563 TACAACCCTA
* *
19521573 TTGATAAATAAAAGCATAGCAC
1 TTGA-AAATAAAAACATAACAC
*
19521595 TTGAAAAATAAAAACAGAACAC
1 TTG-AAAATAAAAACATAACAC
* *
19521617 CTGAAAATTAAAAGCATAACAC
1 TTGAAAA-TAAAAACATAACAC
* *
19521639 CT-AAAATAAAGAACATAGCAC
1 TTGAAAATAAA-AACATAACAC
* *
19521660 TTG-AATTAAAAACAAAACAC
1 TTGAAAATAAAAACATAACAC
* * *
19521680 TCGAAAGTTAAGCGAAC--AACAC
1 TTGAAA-ATAA--AAACATAACAC
* *
19521702 TTTAAAATTAAAAACATAACAT
1 TTGAAAA-TAAAAACATAACAC
* * *
19521724 TTGAAAACCAAAAGCATAGCAC
1 TTGAAAA-TAAAAACATAACAC
* * *
19521746 TTGAAAGTTAAGAGCATAACAC
1 TTGAAA-ATAAAAACATAACAC
19521768 TTGAA
1 TTGAA
19521773 TATTTGTCAT
Statistics
Matches: 137, Mismatches: 29, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
20 17 0.12
21 25 0.18
22 91 0.66
23 1 0.01
24 3 0.02
ACGTcount: A:0.54, C:0.16, G:0.11, T:0.20
Consensus pattern (21 bp):
TTGAAAATAAAAACATAACAC
Found at i:19521629 original size:21 final size:21
Alignment explanation
Indices: 19521599--19521648 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
19521589 TAGCACTTGA
19521599 AAAATAAAAA-CAGAACACCT
1 AAAATAAAAAGCAGAACACCT
* *
19521619 GAAAATTAAAAGCATAACACCT
1 -AAAATAAAAAGCAGAACACCT
19521641 AAAATAAA
1 AAAATAAA
19521649 GAACATAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.64, C:0.16, G:0.06, T:0.14
Consensus pattern (21 bp):
AAAATAAAAAGCAGAACACCT
Found at i:19525930 original size:26 final size:26
Alignment explanation
Indices: 19525878--19525932 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
19525868 GAGAGGTTCA
*
19525878 TAATTTTATAATAATTATAATATAAT
1 TAATTTTATAAAAATTATAATATAAT
19525904 TAATTTTATTAAAAATATATAA-A-AAT
1 TAATTTTA-TAAAAAT-TATAATATAAT
19525930 TAA
1 TAA
19525933 AATAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 14 0.54
27 7 0.27
28 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TAATTTTATAAAAATTATAATATAAT
Found at i:19530900 original size:26 final size:26
Alignment explanation
Indices: 19530871--19530931 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
19530861 GTAATAACTT
*
19530871 TTTTTTTTCAACATAGTGCATAATAA
1 TTTTTTTTCAACATAATGCATAATAA
**
19530897 TTTTTTTTCAACATAATGTGTAATAA
1 TTTTTTTTCAACATAATGCATAATAA
19530923 TATTTTTTT
1 T-TTTTTTT
19530932 AGCTACTCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.54
Consensus pattern (26 bp):
TTTTTTTTCAACATAATGCATAATAA
Found at i:19531185 original size:15 final size:16
Alignment explanation
Indices: 19531156--19531187 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
19531146 TGATGACCCT
19531156 TCTTTCTTCTTTTTTA
1 TCTTTCTTCTTTTTTA
19531172 TCTTTCTT-TTTTTTA
1 TCTTTCTTCTTTTTTA
19531187 T
1 T
19531188 GATTTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (16 bp):
TCTTTCTTCTTTTTTA
Found at i:19534283 original size:13 final size:13
Alignment explanation
Indices: 19534265--19534290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19534255 AGGAGAAATT
19534265 ATGATTTTATAAA
1 ATGATTTTATAAA
19534278 ATGATTTTATAAA
1 ATGATTTTATAAA
19534291 TTTTCTGAAA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:19538637 original size:27 final size:28
Alignment explanation
Indices: 19538590--19538642 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
19538580 ACAAGTGTCG
*
19538590 GGGGTGAAAATTTACCGATTT-GCCCCC
1 GGGGTGAAAAATTACCGATTTCGCCCCC
19538617 GGGGTGATAAAATTACC-ATTTCGCCC
1 GGGGTGA-AAAATTACCGATTTCGCCC
19538643 TTATACTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (28 bp):
GGGGTGAAAAATTACCGATTTCGCCCCC
Found at i:19538713 original size:19 final size:19
Alignment explanation
Indices: 19538689--19538725 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
19538679 CTTCTAAACT
19538689 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
19538708 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
19538726 AGTCAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Done.