Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 149 of 175
Found at i:45312347 original size:13 final size:14
Alignment explanation
Indices: 45312331--45312362 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
45312321 TTTTTGTTTA
45312331 TTATTTA-TTTATT
1 TTATTTACTTTATT
45312344 TTA-TTACTTTATT
1 TTATTTACTTTATT
45312357 TTATTT
1 TTATTT
45312363 TATTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 12 0.71
14 2 0.12
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTACTTTATT
Found at i:45312575 original size:22 final size:21
Alignment explanation
Indices: 45312528--45312582 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
45312518 GCCCAGAATG
* *
45312528 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
45312550 CCTGCAGCCAACCACTCTTATC
1 CCTGCAGCCAACCAC-CCTATC
*
45312572 CCTGCACCCAA
1 CCTGCAGCCAA
45312583 GCATCACCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.25, C:0.45, G:0.09, T:0.20
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:45313717 original size:19 final size:18
Alignment explanation
Indices: 45313695--45313736 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
45313685 TTCCTAAAGC
45313695 ATAAAAATATAAATAATAA
1 ATAAAAATATAAA-AATAA
*
45313714 AT--AAATATCAAAATAA
1 ATAAAAATATAAAAATAA
45313730 ATAAAAA
1 ATAAAAA
45313737 AGAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 3 0.15
19 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAAATATAAAAATAA
Found at i:45313730 original size:16 final size:17
Alignment explanation
Indices: 45313699--45313734 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
45313689 TAAAGCATAA
45313699 AAATATAAATAATAAAT
1 AAATATAAATAATAAAT
*
45313716 AAATATCAA-AATAAAT
1 AAATATAAATAATAAAT
45313732 AAA
1 AAA
45313735 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATATAAATAATAAAT
Found at i:45314340 original size:15 final size:15
Alignment explanation
Indices: 45314315--45314349 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45314305 GACTCTATTT
*
45314315 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
45314329 TAATTAATATTAAGA
1 TAATTAATATTAAGA
45314344 TAATTA
1 TAATTA
45314350 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:45317717 original size:43 final size:43
Alignment explanation
Indices: 45317668--45317792 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
45317658 GGATTCCGAT
* * *
45317668 ATGTGTTTTCCTGTAAGACCACGTCTGGGACATTGGCATCGAC
1 ATGTGTTTACATGTAAGACCACGTCTGGGATATTGGCATCGAC
* * ** * **
45317711 CTGTGTTTACGTGTAAGACCTTGTCTGGGATAGTGGCATCGGT
1 ATGTGTTTACATGTAAGACCACGTCTGGGATATTGGCATCGAC
* * *
45317754 ATGTGATTACATGTAAGACCACGTTTGGGATGTTGGCAT
1 ATGTGTTTACATGTAAGACCACGTCTGGGATATTGGCAT
45317793 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
ATGTGTTTACATGTAAGACCACGTCTGGGATATTGGCATCGAC
Found at i:45320816 original size:25 final size:25
Alignment explanation
Indices: 45320758--45320817 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
45320748 TTTTATCAAG
* *
45320758 GGTAAAATCGTCAAAATTTTATGGG
1 GGTAAAATTGTCAAAATTTTATGGA
* *
45320783 GGTAAAATTGTCAAATTTTTATTGA
1 GGTAAAATTGTCAAAATTTTATGGA
45320808 GGTAAAATTG
1 GGTAAAATTG
45320818 GGGTGAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (25 bp):
GGTAAAATTGTCAAAATTTTATGGA
Found at i:45327781 original size:32 final size:32
Alignment explanation
Indices: 45327544--45327792 Score: 172
Period size: 32 Copynumber: 8.0 Consensus size: 32
45327534 TGTTTGTTTT
* * * *
45327544 GAATTGAAATGTATATGT-T-TTATATATTACT
1 GAATTGAATTGTATATGTATACT-TATATTGCC
* * * *
45327575 GAATTGATTTATATATG-ATA-TT-TATAGTC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* * * *
45327604 GAATTGATTTGTATACGAATA--TACATTGCC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* *** *
45327634 GAATTGAATTGTATAGGTATACACCTATTACC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* *
45327666 GAATTGAAATGTATATATATACTTATATTGCC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* * * ***
45327698 GAAATGAATTGTATAGGTATGCACCTATTGCC
1 GAATTGAATTGTATATGTATACTTATATTGCC
*
45327730 GAATTGAATTATATATGTATACTTATATTGCC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* *
45327762 GAATTGAATTTTATTTGTATA-TATATATTGC
1 GAATTGAATTGTATATGTATACT-TATATTGC
45327793 TGATTTGATT
Statistics
Matches: 168, Mismatches: 43, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
29 19 0.11
30 26 0.15
31 17 0.10
32 106 0.63
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (32 bp):
GAATTGAATTGTATATGTATACTTATATTGCC
Found at i:45327792 original size:64 final size:64
Alignment explanation
Indices: 45327628--45327771 Score: 234
Period size: 64 Copynumber: 2.2 Consensus size: 64
45327618 ACGAATATAC
* *
45327628 ATTGCCGAATTGAATTGTATAGGTATACACCTATTACCGAATTGAAATGTATATATATACTTAT
1 ATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAAATATATATATATACTTAT
* * * *
45327692 ATTGCCGAAATGAATTGTATAGGTATGCACCTATTGCCGAATTGAATTATATATGTATACTTAT
1 ATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAAATATATATATATACTTAT
45327756 ATTGCCGAATTGAATT
1 ATTGCCGAATTGAATT
45327772 TTATTTGTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 73 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (64 bp):
ATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAAATATATATATATACTTAT
Found at i:45327979 original size:41 final size:41
Alignment explanation
Indices: 45327931--45328016 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
45327921 TGATTTTGTG
45327931 TAAGACCATATCTGGGACATTAGCATCGTGTATGATTCGTA
1 TAAGACCATATCTGGGACATTAGCATCGTGTATGATTCGTA
*
45327972 TAAGACCATGTCTGGGACATTAGCATCGTGTATGATTCGTA
1 TAAGACCATATCTGGGACATTAGCATCGTGTATGATTCGTA
45328013 TAAG
1 TAAG
45328017 GCCCTGTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
TAAGACCATATCTGGGACATTAGCATCGTGTATGATTCGTA
Found at i:45328029 original size:41 final size:41
Alignment explanation
Indices: 45327931--45328029 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
45327921 TGATTTTGTG
* *
45327931 TAAGACCATATCTGGGACATTAGCATCGTGTATGATTCGTA
1 TAAGACCATGTATGGGACATTAGCATCGTGTATGATTCGTA
*
45327972 TAAGACCATGTCTGGGACATTAGCATCGTGTATGATTCGTA
1 TAAGACCATGTATGGGACATTAGCATCGTGTATGATTCGTA
* *
45328013 TAAGGCCCTGTATGGGA
1 TAAGACCATGTATGGGA
45328030 TAGTGGCATC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (41 bp):
TAAGACCATGTATGGGACATTAGCATCGTGTATGATTCGTA
Found at i:45328834 original size:16 final size:17
Alignment explanation
Indices: 45328813--45328845 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45328803 TTGAGCAAGT
*
45328813 AAAATG-TGTTTGGTTA
1 AAAATGTTGTTTAGTTA
45328829 AAAATGTTGTTTAGTTA
1 AAAATGTTGTTTAGTTA
45328846 CGAAATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
AAAATGTTGTTTAGTTA
Found at i:45336262 original size:40 final size:40
Alignment explanation
Indices: 45336201--45336333 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 40
45336191 CGAAAGTTGC
* *
45336201 GCCCAGCACTAGTCGGGTAAACCGACAAATATAATGGTGT
1 GCCCAGCACTAGTCAGATAAACCGACAAATATAATGGTGT
* **
45336241 GCCCAGCACTAGTCAGATAAACTGACAAAGGT--T-GTG-
1 GCCCAGCACTAGTCAGATAAACCGACAAATATAATGGTGT
* *
45336277 G-CCAGCGCTAGTCAGGTAAACCGACAAATATAATGGTGT
1 GCCCAGCACTAGTCAGATAAACCGACAAATATAATGGTGT
* * *
45336316 GTCCAACACTAGTTAGAT
1 GCCCAGCACTAGTCAGAT
45336334 GTACCAATGA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
35 25 0.34
36 1 0.01
37 4 0.05
38 4 0.05
39 1 0.01
40 39 0.53
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (40 bp):
GCCCAGCACTAGTCAGATAAACCGACAAATATAATGGTGT
Found at i:45336282 original size:75 final size:75
Alignment explanation
Indices: 45336162--45336333 Score: 247
Period size: 75 Copynumber: 2.3 Consensus size: 75
45336152 GTATAAAAAA
* * *
45336162 GTGTGCCCAGCACTAGTCAGGTAAATTGACGAAAGTTGCGCCCAGCACTAGTCGGGTAAACCGAC
1 GTGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGCGCCCAGCACTAGTCAGGTAAACCGAC
45336227 AAATATAATG
66 AAATATAATG
* * *
45336237 GTGTGCCCAGCACTAGTCAGATAAACTGAC-AAAGGTTGTGGCCAGCGCTAGTCAGGTAAACCGA
1 GTGTGCCCAGCACTAGTCAGATAAACTGACGAAA-GTTGCGCCCAGCACTAGTCAGGTAAACCGA
45336301 CAAATATAATG
65 CAAATATAATG
* * *
45336312 GTGTGTCCAACACTAGTTAGAT
1 GTGTGCCCAGCACTAGTCAGAT
45336334 GTACCAATGA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 3 0.03
75 84 0.97
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (75 bp):
GTGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGCGCCCAGCACTAGTCAGGTAAACCGAC
AAATATAATG
Found at i:45336289 original size:35 final size:35
Alignment explanation
Indices: 45336163--45336304 Score: 117
Period size: 35 Copynumber: 3.9 Consensus size: 35
45336153 TATAAAAAAG
* **
45336163 TGTGCCCAGCACTAGTCAGGTAAATTGACGAAA-GT
1 TGTGCCCAGCACTAGTCAGATAAACCGAC-AAAGGT
* * *
45336198 TGCGCCCAGCACTAGTCGGGTAAACCGACAAATATAATGG-
1 TGTGCCCAGCACTAGTCAGATAAACCGAC----A-AA-GGT
*
45336238 TGTGCCCAGCACTAGTCAGATAAACTGACAAAGGT
1 TGTGCCCAGCACTAGTCAGATAAACCGACAAAGGT
* * *
45336273 TGTGGCCAGCGCTAGTCAGGTAAACCGACAAA
1 TGTGCCCAGCACTAGTCAGATAAACCGACAAA
45336305 TATAATGGTG
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
34 2 0.02
35 55 0.63
36 1 0.01
38 1 0.01
39 2 0.02
40 25 0.29
41 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.19
Consensus pattern (35 bp):
TGTGCCCAGCACTAGTCAGATAAACCGACAAAGGT
Found at i:45336382 original size:75 final size:76
Alignment explanation
Indices: 45336162--45336379 Score: 199
Period size: 75 Copynumber: 2.9 Consensus size: 76
45336152 GTATAAAAAA
* * *** * * * *
45336162 GTGTGCCCAGCACTAGTCAGGTAAATTGACGAA-AGTTGCGCCCAGCACTAGTCGGGTAAACCGA
1 GTGTGCCCAACACTAGTCAGATAAACCAACAAAGAGTTGCGCCCAGCGCTAGTTGAGTAAACCGA
45336226 CAAATATAATG
66 CAAATATAATG
* ** * * *
45336237 GTGTGCCCAGCACTAGTCAGATAAACTGACAAAG-GTTGTGGCCAGCGCTAG-TCAGGTAAACCG
1 GTGTGCCCAACACTAGTCAGATAAACCAACAAAGAGTTGCGCCCAGCGCTAGTTGA-GTAAACCG
45336300 ACAAATATAATG
65 ACAAATATAATG
* * ** ** * *
45336312 GTGTGTCCAACACTAGTTAGATGTACCAATGATGAGTTGCGCCCAACGCTAGTTGAGTAAACCGA
1 GTGTGCCCAACACTAGTCAGATAAACCAACAAAGAGTTGCGCCCAGCGCTAGTTGAGTAAACCGA
45336377 CAA
66 CAA
45336380 TATCGATTGC
Statistics
Matches: 116, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
75 88 0.76
76 26 0.22
77 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (76 bp):
GTGTGCCCAACACTAGTCAGATAAACCAACAAAGAGTTGCGCCCAGCGCTAGTTGAGTAAACCGA
CAAATATAATG
Found at i:45336754 original size:35 final size:35
Alignment explanation
Indices: 45336708--45336787 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
45336698 GGCCCGGTCT
45336708 GAAATATGGGAGGGTTCAGGTAAAAATACAGGCCC
1 GAAATATGGGAGGGTTCAGGTAAAAATACAGGCCC
*
45336743 GAAATATGGGAGGGTTCAGGTAAAAATATAGGCCC
1 GAAATATGGGAGGGTTCAGGTAAAAATACAGGCCC
45336778 GAAATATGGG
1 GAAATATGGG
45336788 TTTGGGCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.33, T:0.19
Consensus pattern (35 bp):
GAAATATGGGAGGGTTCAGGTAAAAATACAGGCCC
Found at i:45339524 original size:18 final size:18
Alignment explanation
Indices: 45339501--45339563 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
45339491 AAGGAATATA
45339501 ATAATAATAATCATCATT
1 ATAATAATAATCATCATT
* *
45339519 ATAATAATAA-CATTAAT
1 ATAATAATAATCATCATT
* *
45339536 ATTAATAATCAT-ATCATG
1 A-TAATAATAATCATCATT
*
45339554 GTAATAATAA
1 ATAATAATAA
45339564 ATAAATGATG
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
17 14 0.40
18 21 0.60
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (18 bp):
ATAATAATAATCATCATT
Found at i:45339714 original size:29 final size:27
Alignment explanation
Indices: 45339647--45339716 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 27
45339637 AAATATCAAA
*
45339647 AATAATAAAATAAATAATAAAATAAAGAG
1 AATAAT-AAAT-AATAATAAAATAAAAAG
*
45339676 AATAAAAAATAATAATAAAATATAATAACG
1 AATAATAAATAATAATAAAATA-AA-AA-G
45339706 -ATAATAAATAA
1 AATAATAAATAA
45339717 AAAATTGCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 12 0.34
28 6 0.17
29 16 0.46
30 1 0.03
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (27 bp):
AATAATAAATAATAATAAAATAAAAAG
Found at i:45339818 original size:15 final size:16
Alignment explanation
Indices: 45339798--45339829 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
45339788 ATAAATAGAT
45339798 AAAAATAAAA-AAATA
1 AAAAATAAAACAAATA
45339813 AAAAATAAAACAAATA
1 AAAAATAAAACAAATA
45339829 A
1 A
45339830 GTAAATACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAATAAAACAAATA
Found at i:45339940 original size:18 final size:18
Alignment explanation
Indices: 45339917--45339953 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
45339907 ATAAGTAAAT
45339917 AAATAAATAAAAGAATTA
1 AAATAAATAAAAGAATTA
*
45339935 AAATAAATAAAAGACTTA
1 AAATAAATAAAAGAATTA
45339953 A
1 A
45339954 TCATAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (18 bp):
AAATAAATAAAAGAATTA
Found at i:45341421 original size:26 final size:24
Alignment explanation
Indices: 45341392--45341448 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
45341382 CGGTTATAAT
* *
45341392 ATTTTGGTTTTATTTGATTTATCTAA
1 ATTTTGGTTTAATATG-TTT-TCTAA
* *
45341418 ATTTGGGTTTAATATGTTTTGTAA
1 ATTTTGGTTTAATATGTTTTCTAA
45341442 ATTTTGG
1 ATTTTGG
45341449 ACTGTTTTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 10 0.38
25 3 0.12
26 13 0.50
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.58
Consensus pattern (24 bp):
ATTTTGGTTTAATATGTTTTCTAA
Found at i:45342261 original size:23 final size:22
Alignment explanation
Indices: 45342219--45342261 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
45342209 TTCAATACTT
*
45342219 AATTTTTAATAACATATCAAAC
1 AATTTTTAATAAAATATCAAAC
45342241 AATTTTATAATATAAAT-TCAA
1 AATTTT-TAATA-AAATATCAA
45342262 TACTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 6 0.33
23 9 0.50
24 3 0.17
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTTTAATAAAATATCAAAC
Found at i:45342785 original size:18 final size:20
Alignment explanation
Indices: 45342748--45342797 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
45342738 TAAAATATAA
*
45342748 ATTTTGGAATTTTCATAAA-T
1 ATTTT-GAATTTTCAAAAATT
45342768 ATTTTGAATTTT-AAAAATT
1 ATTTTGAATTTTCAAAAATT
45342787 ATTTTG-ATTTT
1 ATTTTGAATTTT
45342798 TTTTCGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 14 0.50
20 5 0.18
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTCAAAAATT
Found at i:45350001 original size:31 final size:31
Alignment explanation
Indices: 45349945--45350005 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
45349935 AAAAAATCCT
*
45349945 TATAACTTTTTAGTAATTTTTTAATATTTTC
1 TATAACTTTCTAGTAATTTTTTAATATTTTC
45349976 TATAA-TTTCTAGTAATTTTTATAATATTTT
1 TATAACTTTCTAGTAATTTTT-TAATATTTT
45350006 AAAAATTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (31 bp):
TATAACTTTCTAGTAATTTTTTAATATTTTC
Found at i:45350044 original size:25 final size:26
Alignment explanation
Indices: 45350002--45350060 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
45349992 TTTTATAATA
*
45350002 TTTTAAAAATTACAAATTTCATATTT
1 TTTTAAAAATTACAAATTTCAAATTT
* * *
45350028 TTTTTAAAATTA-GAATTTTAAA-TT
1 TTTTAAAAATTACAAATTTCAAATTT
45350052 TTTTAAAAA
1 TTTTAAAAA
45350061 GAATTTTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 10 0.36
25 7 0.25
26 11 0.39
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTTAAAAATTACAAATTTCAAATTT
Found at i:45350068 original size:22 final size:23
Alignment explanation
Indices: 45350027--45350078 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
45350017 ATTTCATATT
45350027 TTTTTTAAAATTAGAATTTTA-AA
1 TTTTTTAAAA-TAGAATTTTAGAA
*
45350050 TTTTTTAAAA-AGAATTTTTAGAG
1 TTTTTTAAAATAGAA-TTTTAGAA
45350073 TTTTTT
1 TTTTTT
45350079 GTTAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 17 0.65
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (23 bp):
TTTTTTAAAATAGAATTTTAGAA
Found at i:45352973 original size:22 final size:22
Alignment explanation
Indices: 45352911--45352973 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
45352901 TTTTACTTTT
*
45352911 TTGCTGTTGTTTTCTGCGTTTG
1 TTGCTATTGTTTTCTGCGTTTG
* *
45352933 TTGTCTATTGTTGTGTGCGTTGTG
1 TTG-CTATTGTTTTCTGCGTT-TG
45352957 TT-CGT-TTGTTTTCTGCG
1 TTGC-TATTGTTTTCTGCG
45352974 CAGGTACATG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
22 14 0.42
23 15 0.45
24 4 0.12
ACGTcount: A:0.02, C:0.13, G:0.29, T:0.57
Consensus pattern (22 bp):
TTGCTATTGTTTTCTGCGTTTG
Found at i:45353220 original size:21 final size:21
Alignment explanation
Indices: 45353190--45353234 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45353180 CTGAGCCATG
*
45353190 TTTGGCCTAGAATTTTTGTAA
1 TTTGGACTAGAATTTTTGTAA
* *
45353211 TTTGGACTAGACTTTTTTTAA
1 TTTGGACTAGAATTTTTGTAA
45353232 TTT
1 TTT
45353235 TAATTTGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (21 bp):
TTTGGACTAGAATTTTTGTAA
Found at i:45353634 original size:44 final size:44
Alignment explanation
Indices: 45353586--45353699 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
45353576 TTAATCCGCT
* *
45353586 CCACTACAACTTCAGGGAGATAAGATTTGC-CTCTTCAGTCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTCTC-TCAGTCTGCC
** * * * * *
45353630 CCACTGTGACTTCAGGGGGATAAAACTTGTTTTCTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTCTCTCAGTCTGCC
*
45353674 CCACTGCAACTTTAGGGAGATAAGAC
1 CCACTGCAACTTCAGGGAGATAAGAC
45353700 CCGATGCGAT
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
44 53 0.96
45 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTCTCTCAGTCTGCC
Found at i:45353980 original size:87 final size:87
Alignment explanation
Indices: 45353858--45354275 Score: 703
Period size: 87 Copynumber: 4.8 Consensus size: 87
45353848 GCTAGTGCTT
* *
45353858 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTCATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
45353923 CGATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAATGC
* * * * *
45353945 AGGAAGGAAAAATATGCTATCTTTAACCAACTCCACTGCAACTGATGGAGGCAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
*
45354010 CGATCTGCTTCGCTGTTAATGT
66 CGATCTGCTTCGCTGTTAATGC
*
45354032 AGGAAGGCAATATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
45354097 CGATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAATGC
* *
45354119 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCAATGGAGGCAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
*
45354184 CTATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAATGC
* *
45354206 AGGAAAGCAAGATCTGCTATCTTTAACCAGC-CCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
45354270 CGATCT
66 CGATCT
45354276 TCACTAATCT
Statistics
Matches: 308, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
86 35 0.11
87 273 0.89
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
CGATCTGCTTCGCTGTTAATGC
Found at i:45354128 original size:43 final size:43
Alignment explanation
Indices: 45354080--45354216 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 43
45354070 CAACCGATGG
*
45354080 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGA
* * * * * * * *
45354123 AGGCAAGATCTGC-TATCTTTAACCAGCTCCACTG-CAAT-CAATGG-
1 AGGCAAG-GCTTCGT-T-TTCAATCTGCTTCGCTGTTAATGC-A-GGA
*
45354167 AGGCAAGGCTTCGTTTTCTATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGA
*
45354210 AAGCAAG
1 AGGCAAG
45354217 ATCTGCTATC
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
42 13 0.20
43 23 0.35
44 17 0.26
45 13 0.20
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGA
Found at i:45355515 original size:7 final size:7
Alignment explanation
Indices: 45355503--45355540 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
45355493 ATTTTTACTA
45355503 TTTCATT
1 TTTCATT
45355510 TTTCATTTT
1 TTTCA--TT
45355519 TTTCA-T
1 TTTCATT
45355525 TTTCATT
1 TTTCATT
45355532 TTTCATT
1 TTTCATT
45355539 TT
1 TT
45355541 CTCTCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 6 0.21
7 15 0.54
9 7 0.25
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTCATT
Found at i:45355516 original size:21 final size:22
Alignment explanation
Indices: 45355503--45355545 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
45355493 ATTTTTACTA
*
45355503 TTTCATTTTTCATTTTTTTCAT
1 TTTCATTTTTCATTTTTCTCAT
45355525 TTTCATTTTTCATTTTCTCTC
1 TTTCATTTTTCATTTT-TCTC
45355546 TCTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTCATTTTTCATTTTTCTCAT
Found at i:45355527 original size:15 final size:16
Alignment explanation
Indices: 45355503--45355534 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
45355493 ATTTTTACTA
45355503 TTTCATTTTTCATTTT
1 TTTCATTTTTCATTTT
45355519 TTTCA-TTTTCATTTT
1 TTTCATTTTTCATTTT
45355534 T
1 T
45355535 CATTTTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCATTTTTCATTTT
Found at i:45355941 original size:12 final size:12
Alignment explanation
Indices: 45355920--45355985 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
45355910 TGATTTCTCT
45355920 TTTTTGCTTTTGA
1 TTTTT-CTTTTGA
*
45355933 TTTTTCTTTT-C
1 TTTTTCTTTTGA
*
45355944 TTTTTC----GT
1 TTTTTCTTTTGA
*
45355952 TTTTTATTTTGA
1 TTTTTCTTTTGA
*
45355964 TTTTTATTTTGA
1 TTTTTCTTTTGA
45355976 TTTTTCTTTT
1 TTTTTCTTTT
45355986 TTTTTTTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
8 5 0.12
11 6 0.14
12 27 0.63
13 5 0.12
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTGA
Found at i:45355961 original size:13 final size:12
Alignment explanation
Indices: 45355952--45355985 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
45355942 TCTTTTTCGT
45355952 TTTTTATTTTGA
1 TTTTTATTTTGA
45355964 TTTTTATTTTGA
1 TTTTTATTTTGA
*
45355976 TTTTTCTTTT
1 TTTTTATTTT
45355986 TTTTTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:45355962 original size:31 final size:32
Alignment explanation
Indices: 45355892--45355995 Score: 99
Period size: 32 Copynumber: 3.3 Consensus size: 32
45355882 TCTTTTCATA
* * *
45355892 TTTTATTTTGACTTTGA--TTGATTTCTC-TT
1 TTTTATTTTGATTTTTATTTTGATTTTTCGTT
* * *
45355921 TTTTGCTTTTGATTTTTCTTTT-CTTTTTCGTT
1 TTTT-ATTTTGATTTTTATTTTGATTTTTCGTT
*
45355953 TTTTATTTTGATTTTTATTTTGATTTTTCTTT
1 TTTTATTTTGATTTTTATTTTGATTTTTCGTT
*
45355985 TTTTTTTTTGA
1 TTTTATTTTGA
45355996 ATCTGAACCC
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
29 4 0.07
30 9 0.15
31 20 0.34
32 26 0.44
ACGTcount: A:0.10, C:0.08, G:0.09, T:0.74
Consensus pattern (32 bp):
TTTTATTTTGATTTTTATTTTGATTTTTCGTT
Found at i:45357401 original size:39 final size:37
Alignment explanation
Indices: 45357334--45357426 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
45357324 ACCAATATGG
* *
45357334 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
45357373 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
45357410 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
45357427 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:45357639 original size:23 final size:24
Alignment explanation
Indices: 45357595--45357640 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
45357585 TTTCTCACAT
* **
45357595 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
45357619 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
45357641 AATTCATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:45357788 original size:3 final size:3
Alignment explanation
Indices: 45357780--45357838 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
45357770 CCACTCATTT
* *
45357780 TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45357828 TAA TAA TAA TA
1 TAA TAA TAA TA
45357839 TTCATACTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:45358138 original size:24 final size:23
Alignment explanation
Indices: 45358098--45358144 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
45358088 CTCAATTTAA
45358098 TCCTAACTAAATTCACT-TATTT
1 TCCTAACTAAATTCACTCTATTT
*
45358120 TCCTAACTCAATTCACACTCTATTT
1 TCCTAACTAAATT--CACTCTATTT
45358145 CTATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
24 4 0.19
25 5 0.24
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.43
Consensus pattern (23 bp):
TCCTAACTAAATTCACTCTATTT
Found at i:45358563 original size:17 final size:18
Alignment explanation
Indices: 45358543--45358580 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
45358533 TCCTATTCTA
*
45358543 TTTCTTTTCTTCTTTT-G
1 TTTCTTTTATTCTTTTAG
45358560 TTTCTTTTATTCTTTTAG
1 TTTCTTTTATTCTTTTAG
45358578 TTT
1 TTT
45358581 ATGTTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTCTTTTATTCTTTTAG
Found at i:45358624 original size:16 final size:17
Alignment explanation
Indices: 45358596--45358627 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45358586 TTGTTTATTA
45358596 TTTAATAAATATAATAC
1 TTTAATAAATATAATAC
45358613 TTTAAT-AATATAATA
1 TTTAATAAATATAATA
45358628 TAATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAATAAATATAATAC
Found at i:45358648 original size:25 final size:25
Alignment explanation
Indices: 45358592--45358653 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
45358582 TGTTTTGTTT
*
45358592 ATTATTTAATAAATATAATACTTTA
1 ATTATATAATAAATATAATACTTTA
* *
45358617 ATAATATAATATAATATAATA-TTTT
1 ATTATATAATA-AATATAATACTTTA
*
45358642 CTTATATAATAA
1 ATTATATAATAA
45358654 GTAATTACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.03
25 21 0.68
26 9 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATATAATAAATATAATACTTTA
Found at i:45358762 original size:14 final size:14
Alignment explanation
Indices: 45358746--45358797 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
45358736 ATTTATTTTA
45358746 TAAT-ATAATAATT
1 TAATAATAATAATT
*
45358759 ATAATAATTTAACAATT
1 -TAATAA--TAATAATT
45358776 TAATAATAATAATT
1 TAATAATAATAATT
45358790 TAATAATA
1 TAATAATA
45358798 TTTTTTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 19 0.58
15 1 0.03
16 6 0.18
17 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATAATAATAATT
Found at i:45363811 original size:208 final size:209
Alignment explanation
Indices: 45363556--45363975 Score: 824
Period size: 208 Copynumber: 2.0 Consensus size: 209
45363546 TTAAACTAAA
45363556 TGGTATATAAAAATACATGAAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGA
1 TGGTATATAAAAATACATGAAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGA
45363621 TAACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAA
66 TAACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAA
45363686 ACTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGCGCAAAATGAA
131 ACTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGCGCAAAATGAA
45363751 ACGCGTGAATAACG
196 ACGCGTGAATAACG
45363765 TGGTATATAAAAATACATG-AAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGA
1 TGGTATATAAAAATACATGAAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGA
45363829 TAACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAA
66 TAACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAA
*
45363894 ACTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGGGCAAAATGAA
131 ACTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGCGCAAAATGAA
45363959 ACGCGTGAATAACG
196 ACGCGTGAATAACG
45363973 TGG
1 TGG
45363976 GGGACTAGTT
Statistics
Matches: 210, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
208 191 0.91
209 19 0.09
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (209 bp):
TGGTATATAAAAATACATGAAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGA
TAACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAA
ACTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGCGCAAAATGAA
ACGCGTGAATAACG
Found at i:45364511 original size:13 final size:13
Alignment explanation
Indices: 45364495--45364535 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
45364485 ACCAAAACCG
*
45364495 AAAAGAAAACTGA
1 AAAAGAAAACGGA
*
45364508 AAAAGAAAAAAGGA
1 AAAAG-AAAACGGA
45364522 AAAAGAAAACGGA
1 AAAAGAAAACGGA
45364535 A
1 A
45364536 GAAGCAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAGAAAACGGA
Found at i:45372688 original size:21 final size:21
Alignment explanation
Indices: 45372662--45372704 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
45372652 CAACGTGGCA
45372662 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
45372683 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
45372704 A
1 A
45372705 TCCTATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:45376208 original size:50 final size:51
Alignment explanation
Indices: 45376122--45376217 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 51
45376112 CGATTTCTTA
* * *
45376122 TCGTAAGCCTCCCCCCATGCGTCTGGGAGTAGGGATATTATTAAACATCGT
1 TCGTAAGCCTCCCCCCATGCGTCTAGGAGCAAGGATATTATTAAACATCGT
* * *
45376173 TCGTAAGTCT-CCCTCATGCGTCTATGAGCAAGGATATTATTAAAC
1 TCGTAAGCCTCCCCCCATGCGTCTAGGAGCAAGGATATTATTAAAC
45376218 CCCATTTGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 30 0.77
51 9 0.23
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (51 bp):
TCGTAAGCCTCCCCCCATGCGTCTAGGAGCAAGGATATTATTAAACATCGT
Found at i:45376457 original size:58 final size:58
Alignment explanation
Indices: 45376395--45376527 Score: 178
Period size: 58 Copynumber: 2.3 Consensus size: 58
45376385 GAGCTCTTGG
* * * * *
45376395 CGGAGGTGAGACATATCTTCTATATTTGGGCCCCTCCAG-GAACCCTTTGGGCTCTCAA
1 CGGAGGTGAGGCATATCTTCTACATTCGAGCCCCTCC-GCGAACCCTTTAGGCTCTCAA
* *
45376453 CGGAGGTGAGGCGTATCTTCTACATTCGAGCCCCTCCGCGAACCCTTTAGGCTTTCAA
1 CGGAGGTGAGGCATATCTTCTACATTCGAGCCCCTCCGCGAACCCTTTAGGCTCTCAA
*
45376511 TGGAGGTGAGGCATATC
1 CGGAGGTGAGGCATATC
45376528 ATCTTCATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
57 1 0.02
58 64 0.98
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.26
Consensus pattern (58 bp):
CGGAGGTGAGGCATATCTTCTACATTCGAGCCCCTCCGCGAACCCTTTAGGCTCTCAA
Found at i:45379162 original size:24 final size:25
Alignment explanation
Indices: 45379134--45379182 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
45379124 TAACAAGTAA
*
45379134 CTCCGAAGAGCTAT-TATCAGGAAG
1 CTCCGAAGAGCCATATATCAGGAAG
* *
45379158 CTCCGGATAGCCATATATCAGGAAG
1 CTCCGAAGAGCCATATATCAGGAAG
45379183 TTCAAGTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (25 bp):
CTCCGAAGAGCCATATATCAGGAAG
Found at i:45384817 original size:13 final size:13
Alignment explanation
Indices: 45384799--45384856 Score: 98
Period size: 13 Copynumber: 4.5 Consensus size: 13
45384789 ACTCAATTTT
45384799 TCAAAAGCACTTC
1 TCAAAAGCACTTC
45384812 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
45384825 TGAAAAGCACTTC
1 TCAAAAGCACTTC
*
45384838 TCAGAAGCACTTC
1 TCAAAAGCACTTC
45384851 TCAAAA
1 TCAAAA
45384857 ACAATGAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:45385050 original size:26 final size:26
Alignment explanation
Indices: 45385019--45385102 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
45385009 TGTTCAACCT
45385019 TTATTTAATGTTTGATGGTTTTATTA
1 TTATTTAATGTTTGATGGTTTTATTA
* * * ** *
45385045 TTATTTATTTTTTGTATAGTTAAAGTA
1 TTATTTAATGTTTG-ATGGTTTTATTA
*
45385072 -T-TTTCATGTTTGATGGTTTTATTA
1 TTATTTAATGTTTGATGGTTTTATTA
45385096 TTATTTA
1 TTATTTA
45385103 TTTTTTGTAT
Statistics
Matches: 41, Mismatches: 14, Indels: 6
0.67 0.23 0.10
Matches are distributed among these distances:
24 8 0.20
25 9 0.22
26 16 0.39
27 8 0.20
ACGTcount: A:0.24, C:0.01, G:0.13, T:0.62
Consensus pattern (26 bp):
TTATTTAATGTTTGATGGTTTTATTA
Found at i:45385086 original size:51 final size:51
Alignment explanation
Indices: 45385026--45385132 Score: 214
Period size: 51 Copynumber: 2.1 Consensus size: 51
45385016 CCTTTATTTA
45385026 ATGTTTGATGGTTTTATTATTATTTATTTTTTGTATAGTTAAAGTATTTTC
1 ATGTTTGATGGTTTTATTATTATTTATTTTTTGTATAGTTAAAGTATTTTC
45385077 ATGTTTGATGGTTTTATTATTATTTATTTTTTGTATAGTTAAAGTATTTTC
1 ATGTTTGATGGTTTTATTATTATTTATTTTTTGTATAGTTAAAGTATTTTC
45385128 ATGTT
1 ATGTT
45385133 CGTTTTACGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.23, C:0.02, G:0.14, T:0.61
Consensus pattern (51 bp):
ATGTTTGATGGTTTTATTATTATTTATTTTTTGTATAGTTAAAGTATTTTC
Found at i:45385124 original size:27 final size:27
Alignment explanation
Indices: 45385043--45385124 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
45385033 ATGGTTTTAT
45385043 TATTATTTATTTTTTGTATAGTTAAAG
1 TATTATTTATTTTTTGTATAGTTAAAG
* * * ** *
45385070 TATT-TTCA-TGTTTG-ATGGTTTTAT
1 TATTATTTATTTTTTGTATAGTTAAAG
45385094 TATTATTTATTTTTTGTATAGTTAAAG
1 TATTATTTATTTTTTGTATAGTTAAAG
45385121 TATT
1 TATT
45385125 TTCATGTTCG
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
24 10 0.25
25 8 0.20
26 8 0.20
27 14 0.35
ACGTcount: A:0.26, C:0.01, G:0.12, T:0.61
Consensus pattern (27 bp):
TATTATTTATTTTTTGTATAGTTAAAG
Found at i:45390746 original size:39 final size:39
Alignment explanation
Indices: 45390703--45390780 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
45390693 CTAACTCATA
45390703 AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
1 AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
45390742 AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
1 AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
45390781 TAACATAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (39 bp):
AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
Found at i:45391550 original size:16 final size:16
Alignment explanation
Indices: 45391529--45391570 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
45391519 TCAATATCCA
45391529 ATTATCATATTCACAC
1 ATTATCATATTCACAC
* *
45391545 ATTATCACATTTACAC
1 ATTATCATATTCACAC
45391561 A-TAT-ATATTC
1 ATTATCATATTC
45391571 TTTTCAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 4 0.18
15 3 0.14
16 15 0.68
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATCATATTCACAC
Found at i:45396799 original size:14 final size:14
Alignment explanation
Indices: 45396780--45396819 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45396770 TTGATTGCCA
45396780 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
45396794 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
45396808 GGAAAATGTTTT
1 GTAAAATGTTTT
45396820 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:45396828 original size:20 final size:20
Alignment explanation
Indices: 45396803--45396842 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45396793 CGTAAAATGA
*
45396803 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45396823 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45396843 GGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:45396832 original size:34 final size:35
Alignment explanation
Indices: 45396788--45396854 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45396778 CAGTAAAATG
*
45396788 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
45396822 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
45396855 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:45396858 original size:14 final size:15
Alignment explanation
Indices: 45396782--45396858 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
45396772 GATTGCCAGT
* *
45396782 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
45396796 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
45396810 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
45396830 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
45396845 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
45396859 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:45412059 original size:31 final size:31
Alignment explanation
Indices: 45411985--45412060 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
45411975 GGTATTGTCG
*
45411985 TTAAAAACTATTTTCATTTGAGGCAATACCA
1 TTAAAAACTGTTTTCATTTGAGGCAATACCA
** * * * **
45412016 TTAAAATTTGTTTTCATTTTAGGTAGTTTCA
1 TTAAAAACTGTTTTCATTTGAGGCAATACCA
45412047 TTAAAAACTGTTTT
1 TTAAAAACTGTTTT
45412061 TGTAATAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (31 bp):
TTAAAAACTGTTTTCATTTGAGGCAATACCA
Found at i:45414700 original size:14 final size:14
Alignment explanation
Indices: 45414681--45414708 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45414671 TAGTAAATTA
45414681 TTAAAAATATATAT
1 TTAAAAATATATAT
45414695 TTAAAAATATATAT
1 TTAAAAATATATAT
45414709 CATTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATATATAT
Found at i:45429690 original size:103 final size:104
Alignment explanation
Indices: 45429511--45429775 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 104
45429501 AACCGTTATT
* * * * *
45429511 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAATCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
45429576 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
45429614 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
45429678 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
45429718 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
45429776 TTATGTACAA
Statistics
Matches: 148, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 1 0.01
103 81 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:45436484 original size:103 final size:104
Alignment explanation
Indices: 45436305--45436569 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
45436295 AACCGTTATT
* * * *
45436305 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
45436370 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
45436408 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
45436472 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
45436512 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
45436570 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:45443834 original size:16 final size:16
Alignment explanation
Indices: 45443802--45443839 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
45443792 TTTAGTTCTG
* *
45443802 TTCTTTTTTTTCTTTC
1 TTCTTTTTTTGCATTC
45443818 TTCTTTTTTTGCATTC
1 TTCTTTTTTTGCATTC
45443834 TT-TTTT
1 TTCTTTT
45443840 GTTCTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (16 bp):
TTCTTTTTTTGCATTC
Found at i:45449582 original size:125 final size:125
Alignment explanation
Indices: 45449379--45449730 Score: 501
Period size: 125 Copynumber: 2.8 Consensus size: 125
45449369 TAATTTCGAG
** * *
45449379 TTGACATTTCTGATAAAATAATATAAAATCGCTTCTAGTAGGATGGTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
45449444 AAATTACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAG-AAGAAAAAAAAAATTT
66 AAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCA-AGTAAGAAAAAAAAAATTT
* * *
45449504 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCGGGATGCTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * * ****
45449569 AAATTGCGGCCTCGT-CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 AAATTGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCAAGTAAGAAAAAAAAAATTT
45449629 TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
45449694 AAATCGCGCCCTTGTGGACGCGCTTTTACTACAGTAG
66 AAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
45449731 CATGTTTGGG
Statistics
Matches: 200, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
124 2 0.01
125 197 0.99
126 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCAAGTAAGAAAAAAAAAATTT
Found at i:45452093 original size:116 final size:116
Alignment explanation
Indices: 45451889--45452115 Score: 382
Period size: 116 Copynumber: 2.0 Consensus size: 116
45451879 TGATAAATTG
* * *
45451889 TATTAAGTCAAAAAATTGTCTTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATATAAAATTATTAATTGT
* *
45451954 TAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
* *
45452005 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATATAAAATTATTAATTGT
*
45452070 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTTAATGT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGT
45452116 TACGGTTTTT
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 103 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:45452140 original size:23 final size:23
Alignment explanation
Indices: 45452114--45452689 Score: 343
Period size: 23 Copynumber: 23.6 Consensus size: 23
45452104 TTACGTTAAT
*
45452114 GTTACGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
* *
45452137 GTTAGGGTTTTTTATTGAATTAGGCTAGG
1 GTTAGGGTTTTTAATT-AA--A--TTA-G
45452166 GTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
45452189 GTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
*
45452212 GTTAGGCTAGGGTTTTTAATCAAATTAG
1 G-T----TAGGGTTTTTAATTAAATTAG
*
45452240 GTTAGGGTTTTTAAGTT-AA-GAG
1 GTTAGGGTTTTTAA-TTAAATTAG
* * *
45452262 TTTAGAGTTTTTAATTGAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
* **
45452285 GTTAGAGTTAGGGTTT--TTAGGTTAGG
1 GTTAGGGTT----TTTAATTAAATTA-G
*
45452311 GTTTAGGATTTTTAATTAAATTAG
1 G-TTAGGGTTTTTAATTAAATTAG
*
45452335 GTTAGAGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
* * **
45452358 GTTATGGTTAGGGTT--TTAGGGTTTAGG
1 GTTAGGGTT---TTTAATTA--AATTA-G
45452385 GTTTAGGGTTTTTAATTAAATTAG
1 G-TTAGGGTTTTTAATTAAATTAG
*
45452409 GCTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
* **
45452432 GTTAGGGTTAGGGTT--TTAGGGTTTAAG
1 GTTAGGGTT---TTTAATTA--AATT-AG
*
45452459 GTTTAGGATTTTTAATTAAATTAG
1 G-TTAGGGTTTTTAATTAAATTAG
*
45452483 GTTAGGGTTTTTAAGTT-AA--GG
1 GTTAGGGTTTTTAA-TTAAATTAG
45452504 GTTTAGGGTTTTTAATTGAATTAGGTTAGG
1 G-TTAGGGTTTTTAATT-AA--A--TTA-G
*
45452534 GTTAGGGTTTTTAATT-AA--GG
1 GTTAGGGTTTTTAATTAAATTAG
45452554 GTTTAGGGTTTTTAATTAAATTAG
1 G-TTAGGGTTTTTAATTAAATTAG
45452578 GTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
*
45452601 GCTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
**
45452624 GTTATGGTTTTGGGTTTTTAATTATTTTAG
1 GTTA-------GGGTTTTTAATTAAATTAG
****
45452654 GTTAGGGTTTAGGGTTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
45452677 GTTAGGGTTTTTA
1 GTTAGGGTTTTTA
45452690 TTACATCAAA
Statistics
Matches: 434, Mismatches: 57, Indels: 124
0.71 0.09 0.20
Matches are distributed among these distances:
20 2 0.00
21 21 0.05
22 31 0.07
23 207 0.48
24 23 0.05
25 22 0.05
26 13 0.03
27 22 0.05
28 39 0.09
29 31 0.07
30 23 0.05
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (23 bp):
GTTAGGGTTTTTAATTAAATTAG
Found at i:45452173 original size:29 final size:29
Alignment explanation
Indices: 45452136--45452248 Score: 123
Period size: 28 Copynumber: 4.1 Consensus size: 29
45452126 AATTAAATTA
* *
45452136 GGTTAGGGTTTTTTATTGAATTAGGCTAG
1 GGTTAGGGTTTTTAATTAAATTAGGCTAG
45452165 GGTTAGGGTTTTTAATTAAA-T----TA-
1 GGTTAGGGTTTTTAATTAAATTAGGCTAG
*
45452188 GGTTAGGGTTTTTAATTAAATTAGGTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGCTAG
* * *
45452216 GGCTAGGGTTTTTAATCAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGCTAG
45452245 GGTT
1 GGTT
45452249 TTTAAGTTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
23 20 0.27
24 3 0.04
28 29 0.40
29 21 0.29
ACGTcount: A:0.26, C:0.03, G:0.27, T:0.44
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGCTAG
Found at i:45452306 original size:20 final size:21
Alignment explanation
Indices: 45452281--45452324 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45452271 TTTAATTGAA
*
45452281 TTAGGTTAGAG-TTAGGGTTT
1 TTAGGTTAGAGTTTAGGATTT
*
45452301 TTAGGTTAGGGTTTAGGATTT
1 TTAGGTTAGAGTTTAGGATTT
45452322 TTA
1 TTA
45452325 ATTAAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (21 bp):
TTAGGTTAGAGTTTAGGATTT
Found at i:45452310 original size:14 final size:15
Alignment explanation
Indices: 45452286--45452314 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45452276 TTGAATTAGG
45452286 TTAGAGTTAGGGTTT
1 TTAGAGTTAGGGTTT
45452301 TTAG-GTTAGGGTTT
1 TTAGAGTTAGGGTTT
45452315 AGGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.48
Consensus pattern (15 bp):
TTAGAGTTAGGGTTT
Found at i:45452384 original size:7 final size:7
Alignment explanation
Indices: 45452365--45452395 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
45452355 TAGGTTATGG
45452365 TTAGGGTT
1 TTAGGG-T
45452373 TTAGGGT
1 TTAGGGT
45452380 TTAGGGT
1 TTAGGGT
45452387 TTAGGGT
1 TTAGGGT
45452394 TT
1 TT
45452396 TTAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.74
8 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:45452421 original size:74 final size:74
Alignment explanation
Indices: 45452162--45452501 Score: 428
Period size: 74 Copynumber: 4.6 Consensus size: 74
45452152 TGAATTAGGC
*
45452162 TAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGCTAGGGTT
1 TAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTT
****
45452226 TTTAATCAAAT
66 TTT-A-GGGTT
* * * *
45452237 TA-GG-TTAGGGTTTTTAAGTT-AA-GAGTTTAGAGTTTTTAATTGAATTAGGTTAGAGTTAGGG
1 TAGGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG-GTTAGGG
45452298 TTTTTA-GG-T
64 TTTTTAGGGTT
* *
45452307 TAGGGTTTAGGATTTTTAATTAAATTAGGTTAGAGTTTTTAATTAAATTAGGTTATGGTTAGGG-
1 TAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGT
45452371 TTTTAGGGTT
65 TTTTAGGGTT
*
45452381 TAGGGTTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-
1 TAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGT
45452445 TTTTAGGGTT
65 TTTTAGGGTT
* *
45452455 TAAGGTTTAGGATTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAA
1 TAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAA
45452502 GGGTTTAGGG
Statistics
Matches: 237, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
70 3 0.01
71 4 0.02
72 19 0.08
73 64 0.27
74 139 0.59
75 8 0.03
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (74 bp):
TAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTT
TTTAGGGTT
Found at i:45452533 original size:96 final size:94
Alignment explanation
Indices: 45452387--45452647 Score: 348
Period size: 96 Copynumber: 2.7 Consensus size: 94
45452377 GGTTTAGGGT
45452387 TTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAGG
1 TTAGGGTTTTTAATTAAA-TAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTA--
*
45452452 GTTTAA-GGTTTAGGATTTTTAATTAAATTAGG
63 -ATTAAGGGTTTAGGATTTTTAATTAAATTAGG
* * *
45452484 TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTA
1 TTAGGGTTTTTAA-TTAAATAGG-CTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTTA
*
45452547 ATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
63 ATTAAGGGTTTAGGATTTTTAATTAAATTAGG
* *
45452579 TTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTATGGTTTTGGGTTTTTA
1 TTAGGGTTTTTAATTAAA-TAGGCTAGGGTTTTTAATTAAATTAGGTTA-GGGTTAGGG-TTTTA
45452644 ATTA
63 ATTA
45452648 TTTTAGGTTA
Statistics
Matches: 146, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
94 6 0.04
95 42 0.29
96 57 0.39
97 39 0.27
98 2 0.01
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (94 bp):
TTAGGGTTTTTAATTAAATAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATT
AAGGGTTTAGGATTTTTAATTAAATTAGG
Found at i:45452639 original size:53 final size:53
Alignment explanation
Indices: 45452582--45452687 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
45452572 AATTAGGTTA
** *
45452582 GGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTATGGTTTT
1 GGGTTTTTAATTAAATTAGGCTAGGGTTTAGAATTAAATTAGGTTAGGGTTTT
** * **
45452635 GGGTTTTTAATTATTTTAGGTTAGGGTTTAGGGTTAAATTAGGTTAGGGTTTT
1 GGGTTTTTAATTAAATTAGGCTAGGGTTTAGAATTAAATTAGGTTAGGGTTTT
45452688 TATTACATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (53 bp):
GGGTTTTTAATTAAATTAGGCTAGGGTTTAGAATTAAATTAGGTTAGGGTTTT
Found at i:45452770 original size:44 final size:45
Alignment explanation
Indices: 45452695--45452781 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 45
45452685 TTTTATTACA
* * * *
45452695 TCAAATAAACTTCTATTTTATTTTATCAAATAATGTCAAAATAAC
1 TCAAATAAAATTCTATTTTATTTCATAAAATAATATCAAAATAAC
45452740 TCAAA-AAAATTCTATTTT-TTTGCATAAAATAATATCAAAATA
1 TCAAATAAAATTCTATTTTATTT-CATAAAATAATATCAAAATA
45452782 TTCAAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 3 0.08
44 29 0.78
45 5 0.14
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.39
Consensus pattern (45 bp):
TCAAATAAAATTCTATTTTATTTCATAAAATAATATCAAAATAAC
Found at i:45453883 original size:7 final size:7
Alignment explanation
Indices: 45453871--45453909 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
45453861 ATACGTACAT
45453871 AATACTA
1 AATACTA
45453878 AATACTA
1 AATACTA
45453885 AATACTA
1 AATACTA
45453892 AATACTA
1 AATACTA
45453899 AATACTA
1 AATACTA
45453906 AATA
1 AATA
45453910 TCAATCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:45455111 original size:51 final size:51
Alignment explanation
Indices: 45455050--45455170 Score: 199
Period size: 51 Copynumber: 2.4 Consensus size: 51
45455040 TTATTTTAAA
* * *
45455050 AAGGCAATTGAGAGGAAATTGAAATTAAATATGGATGTGAGAGAATTTTTG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATGTGAGAGAATTTTGG
*
45455101 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATGTGAGAGAATTTTGG
45455152 AAGGAAATTGAGA-GAAATT
1 AAGGAAATTGAGAGGAAATT
45455171 TGGAAGGAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 6 0.09
51 60 0.91
ACGTcount: A:0.45, C:0.01, G:0.26, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATGTGAGAGAATTTTGG
Found at i:45455162 original size:22 final size:22
Alignment explanation
Indices: 45455137--45455192 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
45455127 AAATATAGAT
*
45455137 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAAATTTGGAAGGAAA
45455159 TTGAGAGAAATTTGGAAGGAAA
1 TTGAGAGAAATTTGGAAGGAAA
45455181 TTGAGAGGAAAT
1 TTGAGA-GAAAT
45455193 ATGAGAGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (22 bp):
TTGAGAGAAATTTGGAAGGAAA
Found at i:45455197 original size:12 final size:11
Alignment explanation
Indices: 45455153--45455199 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
45455143 GAATTTTGGA
45455153 AGGAAATTGAG
1 AGGAAATTGAG
45455164 A-GAAATTTG-G
1 AGGAAA-TTGAG
45455174 AAGGAAATTGAG
1 -AGGAAATTGAG
45455186 AGGAAATATGAG
1 AGGAAAT-TGAG
45455198 AG
1 AG
45455200 AGGATTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
10 5 0.16
11 15 0.48
12 11 0.35
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:45455902 original size:30 final size:29
Alignment explanation
Indices: 45455866--45455930 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
45455856 TAATTCCAGC
* *
45455866 CTTTTTACTTTACTTATATTAAAATTTAAT
1 CTTTTTACTTTAATT-TAGTAAAATTTAAT
* *
45455896 CTTTTTATTTTAATTTAGTATAATTTAAT
1 CTTTTTACTTTAATTTAGTAAAATTTAAT
*
45455925 TTTTTT
1 CTTTTT
45455931 TTCAATGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (29 bp):
CTTTTTACTTTAATTTAGTAAAATTTAAT
Found at i:45457402 original size:16 final size:16
Alignment explanation
Indices: 45457381--45457433 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
45457371 TTGGTTGGCT
45457381 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
45457397 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
*
45457413 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
45457429 GTAAT
1 GTAAT
45457434 AGATAATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:45457468 original size:45 final size:44
Alignment explanation
Indices: 45457413--45457509 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
45457403 GAATAGATGC
* *
45457413 GTAATAGAATAGAGGCGTAATAGATAATCTTTTGTTTGGTTGAAT
1 GTAATAGAATAGAGGCATAAT-GATAATCTTGTGTTTGGTTGAAT
* * *
45457458 GTAATTGAATAGAGGCATAATGGTATTCTTGTGTTTGGTTGAAT
1 GTAATAGAATAGAGGCATAATGATAATCTTGTGTTTGGTTGAAT
*
45457502 GGAATAGA
1 GTAATAGA
45457510 GATGTAATAG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 26 0.58
45 19 0.42
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (44 bp):
GTAATAGAATAGAGGCATAATGATAATCTTGTGTTTGGTTGAAT
Found at i:45457647 original size:18 final size:18
Alignment explanation
Indices: 45457618--45457678 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
45457608 GCTTATTAAT
45457618 ATAAATAATATATAATTTA
1 ATAAA-AATATATAATTTA
*
45457637 ATAAAAATATATAAATTA
1 ATAAAAATATATAATTTA
45457655 AT-AAAATATATGAATTTA
1 ATAAAAATATAT-AATTTA
*
45457673 CTAAAA
1 ATAAAA
45457679 TCATAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 9 0.24
18 20 0.54
19 8 0.22
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAAAATATATAATTTA
Found at i:45461514 original size:14 final size:14
Alignment explanation
Indices: 45461495--45461524 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45461485 AAATTCTATA
45461495 TTTCGTGTATTAAT
1 TTTCGTGTATTAAT
45461509 TTTCGTGTATTAAT
1 TTTCGTGTATTAAT
45461523 TT
1 TT
45461525 AGTATGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (14 bp):
TTTCGTGTATTAAT
Found at i:45461750 original size:90 final size:90
Alignment explanation
Indices: 45461637--45461962 Score: 465
Period size: 90 Copynumber: 3.6 Consensus size: 90
45461627 TTGTATCTGC
* *
45461637 AAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
1 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTATCCA
45461702 TCTGTTTGTAGTTTGTTGGGTGTTT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
** * * * * *
45461727 AAATTTAATTTAGTATGTGTTATATATAGTTTGAATTTAAAATTTTCGTGCACTAATGTTATCCA
1 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTATCCA
* * *
45461792 TCAGTTTGTAGATTGTTGGATGTTT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
*
45461817 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCATGTATTAATTTTATCCA
1 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTATCCA
*
45461882 TCTGTTTGTGGTTTGTTGGGTGTTT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
* * * * * *
45461907 AAATTTAATTTAGTGCGTATTATAT-TTGTTCGAATTTTATATTTTTGTGTATTAAT
1 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
45461963 ATTCTAGAAT
Statistics
Matches: 207, Mismatches: 29, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
89 25 0.12
90 182 0.88
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (90 bp):
AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTATCCA
TCTGTTTGTAGTTTGTTGGGTGTTT
Found at i:45465116 original size:25 final size:25
Alignment explanation
Indices: 45465037--45465103 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
45465027 GTAGTTTTGA
* **
45465037 AGAGCCAT-TAATCAGGAAGCTCCGG
1 AGAGCCATAT-ATCGGGAAGCTCTAG
*
45465062 ATAGCCATATATCGGGAAGCTCTAG
1 AGAGCCATATATCGGGAAGCTCTAG
45465087 AGAGCCATATATCGGGA
1 AGAGCCATATATCGGGA
45465104 CACTCATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
AGAGCCATATATCGGGAAGCTCTAG
Found at i:45465204 original size:25 final size:25
Alignment explanation
Indices: 45465191--45465238 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
45465181 GGAAGTTTGC
45465191 AAGAACCATATAACGGGAAGCTCTT
1 AAGAACCATATAACGGGAAGCTCTT
*
45465216 AAGAACCATATAATGGGAAGCTC
1 AAGAACCATATAACGGGAAGCTC
45465239 GAGAGGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (25 bp):
AAGAACCATATAACGGGAAGCTCTT
Found at i:45466320 original size:17 final size:17
Alignment explanation
Indices: 45466291--45466323 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45466281 GACTTCAAAT
45466291 TTTGAATACTATAGCTA
1 TTTGAATACTATAGCTA
45466308 TTTG-ATACTTATAGCT
1 TTTGAATAC-TATAGCT
45466324 CTAGAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
TTTGAATACTATAGCTA
Found at i:45467538 original size:23 final size:22
Alignment explanation
Indices: 45467507--45467574 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
45467497 AGCCCTGTCC
*
45467507 TTTCAACTTTTTTTTTCATTTCA
1 TTTC-ACTTTTATTTTCATTTCA
* *
45467530 TTTCTACTTTCATTTCCATTTCA
1 TTTC-ACTTTTATTTTCATTTCA
45467553 TTTCA-TTTTCATTTTCATTTCA
1 TTTCACTTTT-ATTTTCATTTCA
45467575 CTTAAATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.08
22 12 0.32
23 23 0.61
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTCACTTTTATTTTCATTTCA
Found at i:45467551 original size:6 final size:5
Alignment explanation
Indices: 45467520--45467752 Score: 66
Period size: 5 Copynumber: 43.4 Consensus size: 5
45467510 CAACTTTTTT
45467520 TTTCA TTTCA TTTCTA CTTTCA TTTCCA TTTCA TTTCA TTTTCA TTTTCA
1 TTTCA TTTCA TTTC-A -TTTCA TTT-CA TTTCA TTTCA -TTTCA -TTTCA
* * * * * * *
45467570 TTTCA CTTAA ATT-A TTT-T TTTCA TTTAAA TTTAA TTT-T TTCTCA TTTCAA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTT-CA TTTCA TTTCA TT-TCA TTTC-A
* * *
45467620 TTT-T TTTCA TTTCA GTTTTTA TTTTCA TTTCAA TTTGTAA TTT-A TTTTCA
1 TTTCA TTTCA TTTCA --TTTCA -TTTCA TTTC-A -TT-TCA TTTCA -TTTCA
* * * * *
45467670 TTTAAA CTTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTACAAA TTACA
1 TTT-CA -TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTC--A TTTCA
*
45467718 TTTCA TTTCA TATTCA TTTAACA TTTTA TTTCA TT
1 TTTCA TTTCA T-TTCA TTT--CA TTTCA TTTCA TT
45467753 AATTTTTTTT
Statistics
Matches: 178, Mismatches: 23, Indels: 54
0.70 0.09 0.21
Matches are distributed among these distances:
3 3 0.02
4 12 0.07
5 91 0.51
6 47 0.26
7 24 0.13
8 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.01, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:45467553 original size:11 final size:11
Alignment explanation
Indices: 45467523--45467574 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
45467513 CTTTTTTTTT
45467523 CATTTCATTTC
1 CATTTCATTTC
*
45467534 TACTTTCATTTC
1 CA-TTTCATTTC
45467546 CATTTCATTT-
1 CATTTCATTTC
*
45467556 CATTTTCATTTT
1 CA-TTTCATTTC
45467568 CATTTCA
1 CATTTCA
45467575 CTTAAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 2 0.06
11 22 0.61
12 12 0.33
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (11 bp):
CATTTCATTTC
Found at i:45467553 original size:28 final size:28
Alignment explanation
Indices: 45467520--45467573 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
45467510 CAACTTTTTT
45467520 TTTCATTTCA-TTTCTACTTTCATTTCCA
1 TTTCATTTCATTTTC-ACTTTCATTTCCA
*
45467548 TTTCATTTCATTTTCATTTTCATTTC
1 TTTCATTTCATTTTCACTTTCATTTC
45467574 ACTTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTCATTTCATTTTCACTTTCATTTCCA
Found at i:45467597 original size:18 final size:18
Alignment explanation
Indices: 45467570--45467626 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
45467560 TTCATTTTCA
*
45467570 TTTCACTTAAATTATTTT
1 TTTCATTTAAATTATTTT
45467588 TTTCATTTAAATTTAATTTT
1 TTTCATTTAAA-TT-ATTTT
*
45467608 TTCTCATTTCAATT-TTTT
1 TT-TCATTTAAATTATTTT
45467626 T
1 T
45467627 CATTTCAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 15 0.44
19 2 0.06
20 9 0.26
21 8 0.24
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCATTTAAATTATTTT
Found at i:45467605 original size:23 final size:21
Alignment explanation
Indices: 45467515--45467622 Score: 74
Period size: 23 Copynumber: 4.9 Consensus size: 21
45467505 CCTTTCAACT
* *
45467515 TTTTTTTTCATTTCATTTCTAC
1 TTTTTTTTCATTTCAATT-TAA
* * *
45467537 TTTCATTTCCATTTC-ATTTCA
1 TTT-TTTTTCATTTCAATTTAA
* *
45467558 TTTTCATTTTCATTTCACTTAAA
1 TTTT--TTTTCATTTCAATTTAA
*
45467581 TTATTTTTTTCATTTAAATTTAA
1 -T-TTTTTTTCATTTCAATTTAA
*
45467604 TTTTTTCTCATTTCAATTT
1 TTTTTTTTCATTTCAATTT
45467623 TTTTCATTTC
Statistics
Matches: 65, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
21 20 0.31
22 15 0.23
23 26 0.40
24 1 0.02
25 3 0.05
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTTTCATTTCAATTTAA
Found at i:45467773 original size:17 final size:17
Alignment explanation
Indices: 45467732--45467782 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
45467722 ATTTCATATT
*
45467732 CATTTAACATTTTATTT-
1 CATTTAA-ATTTTTTTTC
45467749 CA-TT-AATTTTTTTTC
1 CATTTAAATTTTTTTTC
45467764 CATTTAAATTTATTTTTC
1 CATTTAAATTT-TTTTTC
45467782 C
1 C
45467783 TAATATACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.28
15 3 0.10
16 4 0.14
17 7 0.24
18 7 0.24
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (17 bp):
CATTTAAATTTTTTTTC
Found at i:45467941 original size:21 final size:21
Alignment explanation
Indices: 45467899--45467941 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
45467889 TATCAGGGTC
*
45467899 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
45467920 ATTTAAATTTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
45467941 A
1 A
45467942 AAAATAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:45468459 original size:113 final size:112
Alignment explanation
Indices: 45468284--45468846 Score: 421
Period size: 114 Copynumber: 4.9 Consensus size: 112
45468274 TTTACCACGC
* * *
45468284 AGCGCCGCAAAATATC-AAGACCAACACGCAGCGTTCTGGTCTTGATGTATATTGGC-ATTAGTG
1 AGCGCCGCAAAAGATCTTA-ACCAAAACGCAGCGTT-TGGTCTTGATGTATATT-GCAATTAGTG
*
45468347 GCGCTTATGAACAAACGCCAG-TAATGTACAGTATTAGCGGCGCTTAGCGGA
63 GCGCTTATGAA-AAACGCC-GCTAATGTATAGTATTAGCGGCGCTTAGCGGA
* * *
45468398 AGCGCCGCAAAAGATGTTAACCAAAACGCAGAGTTTAGTCTTGATGTATATTGCAATTAGTGGCG
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTGCAATTAGTGGCG
* * * * ** *
45468463 CTTATAAAGAAAACACCGCTAATGTATAGTATTAACTGCGCAGAGCGTTA
66 CTTAT-GA-AAAACGCCGCTAATGTATAGTATTAGCGGCGCTTAGCG-GA
* * * * * * **
45468513 AACGCCGCAAGATATCTTAATCAAAACGCACCGTTTTGGTCTTGATGTATACTATAATTAGTGGC
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCG-TTTGGTCTTGATGTATATTGCAATTAGTGGC
* * * * * * * *
45468578 GTTTAAGGAAAACGCCAG-TAA-GGATAGT-TATAGCAGCGTTTTGTGGTA
65 GCTTATGAAAAACGCC-GCTAATGTATAGTAT-TAGCGGCGCTTAGCGG-A
* * * * *
45468626 AGCGCCTCCAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGA-GGATTATTAG-AATTAGTGG
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTA-TATT-GCAATTAGTGG
* * * *
45468689 CGCTTGATGAAAAACGCCGCTAAAGTATA-TCATTAGCGGCG-TTTGTGTA
64 CGCTT-ATGAAAAACGCCGCTAATGTATAGT-ATTAGCGGCGCTTAGCGGA
* * * *
45468738 ACGCGCCGC-AAAGTATCTTAACCAAAACACAGCGTTTAGTTCTTGATGTATACTGTAATTAGTG
1 A-GCGCCGCAAAAG-ATCTTAACCAAAACGCAGCGTTT-GGTCTTGATGTATATTGCAATTAGTG
** * * *
45468802 GCGCACATGGGAAAACGCCGTTGAA-GCATAGTATTAGCGGCGCTT
63 GCGCTTAT-GAAAAACGCCGCT-AATGTATAGTATTAGCGGCGCTT
45468847 TTACCGAAAC
Statistics
Matches: 356, Mismatches: 67, Indels: 51
0.75 0.14 0.11
Matches are distributed among these distances:
111 2 0.01
112 36 0.10
113 123 0.35
114 126 0.35
115 38 0.11
116 31 0.09
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (112 bp):
AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTGCAATTAGTGGCG
CTTATGAAAAACGCCGCTAATGTATAGTATTAGCGGCGCTTAGCGGA
Found at i:45468701 original size:112 final size:112
Alignment explanation
Indices: 45468515--45468805 Score: 281
Period size: 113 Copynumber: 2.6 Consensus size: 112
45468505 GAGCGTTAAA
* * * * * *
45468515 CGCCGCAAGATATCTTAATCAAAACGCACCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGT
1 CGCCCCAA-ATATCTTAACCAAAACGCAGCG-TTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
*
45468580 TTAAGG-AAAACGCCAG-T-AAGGATAGTTA-TAGCAGCGTTTTGTGGTAA-G
64 TTAAGGAAAAACGCC-GCTAAAGGATA-TCATTAGCAGCG-TTTGT-GTAACG
* *
45468628 CGCCTCCAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGG-ATTATTAGAATTAGTGGCGC
1 CGCC-CCAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTA-TACTAGAATTAGTGGCGC
* * * *
45468692 TTGATGAAAAACGCCGCTAAAGTATATCATTAGCGGCGTTTGTGTAACG
64 TTAAGGAAAAACGCCGCTAAAGGATATCATTAGCAGCGTTTGTGTAACG
* * * *
45468741 CGCCGCAAAGTATCTTAACCAAAACACAGCGTTTAGTTCTTGATGTATACT-GTAATTAGTGGCG
1 CGCCCCAAA-TATCTTAACCAAAACGCAGCGTTT-GGTCTTGAGGTATACTAG-AATTAGTGGCG
45468805 C
63 C
45468806 ACATGGGAAA
Statistics
Matches: 148, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
111 1 0.01
112 40 0.27
113 67 0.45
114 39 0.26
115 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (112 bp):
CGCCCCAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTT
AAGGAAAAACGCCGCTAAAGGATATCATTAGCAGCGTTTGTGTAACG
Found at i:45469455 original size:81 final size:82
Alignment explanation
Indices: 45469359--45469510 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 82
45469349 GGATTCGGTG
* * * * * *
45469359 TCAGGTTAGGTTTTA-GCATTTAGATTAATTAGTGTGTTTTAATTT-T-TATAAAATATGGTTTA
1 TCAGGTTACGATTTAGGC-TTTAGATTAATTAATATGTTTTAATTTATGTATAAAACAAGGTTT-
45469421 AGGGTTAGGGGTTAGGGAT
64 AGGGTTAGGGGTTAGGGAT
* * *
45469440 TCAGGTTACGATTTAGGCTTTTGATTAATTAATATTTTTTAATTTATGTATTAAACAAGGTTTAG
1 TCAGGTTACGATTTAGGCTTTAGATTAATTAATATGTTTTAATTTATGTATAAAACAAGGTTTAG
45469505 GGTTAG
66 GGTTAG
45469511 TACAAGTTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
81 36 0.61
82 11 0.19
83 12 0.20
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.45
Consensus pattern (82 bp):
TCAGGTTACGATTTAGGCTTTAGATTAATTAATATGTTTTAATTTATGTATAAAACAAGGTTTAG
GGTTAGGGGTTAGGGAT
Found at i:45472184 original size:10 final size:10
Alignment explanation
Indices: 45472169--45472205 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
45472159 GTTATGGGTA
45472169 AATTTTAAAT
1 AATTTTAAAT
45472179 AATTTTAAAT
1 AATTTTAAAT
**
45472189 AATTTTATTT
1 AATTTTAAAT
45472199 AATTTTA
1 AATTTTA
45472206 TAATTATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTTAAAT
Found at i:45472283 original size:15 final size:16
Alignment explanation
Indices: 45472248--45472280 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45472238 GTATTTATAA
*
45472248 TTATCGATTTGCAATT
1 TTATCGATTTACAATT
45472264 TTATCGATTTACAATT
1 TTATCGATTTACAATT
45472280 T
1 T
45472281 ATCCGGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (16 bp):
TTATCGATTTACAATT
Found at i:45472418 original size:67 final size:67
Alignment explanation
Indices: 45472345--45472483 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
45472335 ATTAATTGAT
*
45472345 TGAATGTCAATGAATTATCAATTTTGGTTA-TCTAATTGATTGAATGTTTTATAAATTCATTATA
1 TGAATGTCAATGAATTATCAATTTTGGTTAGT-TAATTGATTGAATGTTTAATAAATTCATTATA
45472409 TAA
65 TAA
45472412 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
45472477 AA
66 AA
45472479 TGAAT
1 TGAAT
45472484 TCTCAACAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
AA
Found at i:45472679 original size:34 final size:36
Alignment explanation
Indices: 45472618--45472686 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 36
45472608 TTATTAATAT
* *
45472618 ATATATATTTTAAAATTGATATCTTACATTACTTAA
1 ATATATATTTTAAAAGTGATATCTTACATGACTTAA
* *
45472654 ATATATATTTT-TAAGT-ATATTTTACATGACTTA
1 ATATATATTTTAAAAGTGATATCTTACATGACTTA
45472687 CATTACTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 15 0.52
35 3 0.10
36 11 0.38
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (36 bp):
ATATATATTTTAAAAGTGATATCTTACATGACTTAA
Found at i:45472743 original size:13 final size:12
Alignment explanation
Indices: 45472717--45472765 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
45472707 TTTTTACTAA
*
45472717 AATTAACTTGAAT
1 AATT-ACTTAAAT
45472730 ATATTACTTAAAT
1 A-ATTACTTAAAT
45472743 AATTTACTTAAAT
1 AA-TTACTTAAAT
45472756 ACATTACTTA
1 A-ATTACTTA
45472766 CTAAAATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 1 0.03
13 27 0.84
14 4 0.12
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (12 bp):
AATTACTTAAAT
Found at i:45473034 original size:16 final size:16
Alignment explanation
Indices: 45473013--45473214 Score: 64
Period size: 16 Copynumber: 12.1 Consensus size: 16
45473003 ACACTTATAA
45473013 AACTTACATAATACAT
1 AACTTACATAATACAT
*
45473029 AACTTACAT-GT---T
1 AACTTACATAATACAT
45473041 AACTTACATAATACAT
1 AACTTACATAATACAT
* * *
45473057 GACTTATATAAAATTCTCAAAT
1 AACTTACAT--AA---T-ACAT
45473079 AAACTTACATAATACAT
1 -AACTTACATAATACAT
* *
45473096 TAGTTACATAATAACTTATAT
1 AACTTACATAAT-AC----AT
45473117 AAGCTTACATAATACA-
1 AA-CTTACATAATACAT
*
45473133 CA-TTAC-T--TACAT
1 AACTTACATAATACAT
* * *
45473145 AGCATACATAACTTACAC
1 AACTTACATAA--TACAT
*
45473163 AACTT-CAATAATACAA
1 AACTTAC-ATAATACAT
45473179 AACTTACATAACTTACAT
1 AACTTACATAA--TACAT
*
45473197 AACCTACATAATACAT
1 AACTTACATAATACAT
45473213 AA
1 AA
45473215 TAACTTACAA
Statistics
Matches: 136, Mismatches: 22, Indels: 56
0.64 0.10 0.26
Matches are distributed among these distances:
11 4 0.03
12 10 0.07
13 5 0.04
14 5 0.04
15 1 0.01
16 48 0.35
17 8 0.06
18 28 0.21
21 8 0.06
22 12 0.09
23 7 0.05
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:45473161 original size:9 final size:9
Alignment explanation
Indices: 45473106--45473343 Score: 146
Period size: 9 Copynumber: 27.4 Consensus size: 9
45473096 TAGTTACATA
*
45473106 ATAACTTAT
1 ATAACTTAC
45473115 ATAAGCTTAC
1 ATAA-CTTAC
*
45473125 ATAA-TACAC
1 ATAACT-TAC
*
45473134 ATTACTTAC
1 ATAACTTAC
* *
45473143 ATAGCATAC
1 ATAACTTAC
45473152 ATAACTTAC
1 ATAACTTAC
*
45473161 ACAACTT-C
1 ATAACTTAC
45473169 AATAA--TAC
1 -ATAACTTAC
*
45473177 AAAACTTAC
1 ATAACTTAC
45473186 ATAACTTAC
1 ATAACTTAC
*
45473195 ATAACCTAC
1 ATAACTTAC
*
45473204 ATAATACATA-
1 AT-A-ACTTAC
45473214 ATAACTTAC
1 ATAACTTAC
45473223 --AACTTAC
1 ATAACTTAC
45473230 --AACTTAC
1 ATAACTTAC
*
45473237 ATAACATAC
1 ATAACTTAC
* **
45473246 ATTACTTTG
1 ATAACTTAC
45473255 ATAACTTAC
1 ATAACTTAC
45473264 ATAACTTAC
1 ATAACTTAC
45473273 AT-AC-TAC
1 ATAACTTAC
* *
45473280 ACAACTTAA
1 ATAACTTAC
* *
45473289 ATAGCCTAC
1 ATAACTTAC
*
45473298 TTAA--TAC
1 ATAACTTAC
45473305 ATAACTTAC
1 ATAACTTAC
45473314 ATAACTT--
1 ATAACTTAC
*
45473321 ATACACGTAC
1 ATA-ACTTAC
45473331 ATAACTTAC
1 ATAACTTAC
45473340 ATAA
1 ATAA
45473344 TTGACTTAAT
Statistics
Matches: 175, Mismatches: 35, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
7 31 0.18
8 14 0.08
9 111 0.63
10 15 0.09
11 4 0.02
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:45473208 original size:34 final size:34
Alignment explanation
Indices: 45473149--45473287 Score: 99
Period size: 34 Copynumber: 4.1 Consensus size: 34
45473139 TTACATAGCA
* *
45473149 TACATAACTTACACAA-CTTCAATAATACAAAACT
1 TACATAACTTACATAACCTAC-ATAATACAAAACT
45473183 TACATAACTTACATAACCTACATAATACATAATAACT
1 TACATAACTTACATAACCTACATAATAC--AA-AACT
* **
45473220 TAC--AACTTAC--AACTTACATAACATACATTACT
1 TACATAACTTACATAACCTACAT-A-ATACAAAACT
** * * *
45473252 TTGATAACTTACATAACTTACATACTACACAACT
1 TACATAACTTACATAACCTACATAATACAAAACT
45473286 TA
1 TA
45473288 AATAGCCTAC
Statistics
Matches: 84, Mismatches: 11, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
32 4 0.05
33 9 0.11
34 38 0.45
35 15 0.18
36 11 0.13
37 7 0.08
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (34 bp):
TACATAACTTACATAACCTACATAATACAAAACT
Found at i:45473261 original size:94 final size:93
Alignment explanation
Indices: 45473137--45473308 Score: 204
Period size: 94 Copynumber: 1.8 Consensus size: 93
45473127 AATACACATT
* * *
45473137 ACTTACATAGCATACATAACTTACACAACTT-CAATAA-TACAAAACTTACATAACTTACATAAC
1 ACTTACATAACATACATAACTTACACAACTTAC-ATAACTAC-AAAC-TACACAACTTAAATAAC
45473200 CTACATAATACATAATAACTTACAACTTACA
63 CTACATAATACATAATAACTTACAACTTACA
* ** * * *
45473231 ACTTACATAACATACATTACTTTGATAACTTACATAACTTACATACTACACAACTTAAATAGCCT
1 ACTTACATAACATACATAACTTACACAACTTACATAAC-TACAAACTACACAACTTAAATAACCT
*
45473296 ACTTAATACATAA
65 ACATAATACATAA
45473309 CTTACATAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
94 58 0.89
95 4 0.06
96 3 0.05
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.30
Consensus pattern (93 bp):
ACTTACATAACATACATAACTTACACAACTTACATAACTACAAACTACACAACTTAAATAACCTA
CATAATACATAATAACTTACAACTTACA
Found at i:45473357 original size:51 final size:50
Alignment explanation
Indices: 45473255--45473359 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 50
45473245 CATTACTTTG
* *
45473255 ATAACTTACATAACTTACATACTACACAACTTAAATAGCCTACTTAATAC
1 ATAACTTACATAACTTACACACTACACAACTTAAATAGACTACTTAATAC
* * * *
45473305 ATAACTTACATAACTTATACACGTACATAACTTACATA-ATTGACTTAATAC
1 ATAACTTACATAACTTACACAC-TACACAACTTAAATAGACT-ACTTAATAC
45473356 ATAA
1 ATAA
45473360 ATATATATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 21 0.45
51 26 0.55
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (50 bp):
ATAACTTACATAACTTACACACTACACAACTTAAATAGACTACTTAATAC
Found at i:45479271 original size:42 final size:42
Alignment explanation
Indices: 45479224--45479468 Score: 402
Period size: 42 Copynumber: 5.8 Consensus size: 42
45479214 TGTATAAAAA
* *
45479224 CGCCGCTAAAGAACATGATCTTTAGCGGCCTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
45479266 CGCCGCTAAAGAACATGTTCTTTAGCGTCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
45479308 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * *
45479349 CACCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGC-GTTTTTTTCTAAG
45479392 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
45479434 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
45479469 GTTTGTAAAC
Statistics
Matches: 190, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
41 30 0.16
42 129 0.68
43 31 0.16
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:45479540 original size:22 final size:22
Alignment explanation
Indices: 45479509--45479553 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
45479499 TTTCGTTAGT
* *
45479509 GGCCTTAAAAAGCGCCGCTAAA
1 GGCCTAAAAAAACGCCGCTAAA
45479531 GGCCTAAAAAAACGCCGCTAAA
1 GGCCTAAAAAAACGCCGCTAAA
45479553 G
1 G
45479554 ACCTGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.27, G:0.22, T:0.11
Consensus pattern (22 bp):
GGCCTAAAAAAACGCCGCTAAA
Found at i:45479717 original size:49 final size:47
Alignment explanation
Indices: 45479620--45479809 Score: 292
Period size: 47 Copynumber: 4.0 Consensus size: 47
45479610 ATTTCCATTT
*
45479620 TCATTTCATTTAAATTATCTTTTTTT-CATTTAAATTTAACTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTT-ATTTTTTTC
*
45479667 TCATTTCGTTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTT-A-TTTTTTTC
*
45479716 TCATTTCATTTAAATTATCTTTTTTTTCATTTAAATTTATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTATTTTTTTC
* *
45479763 TCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTATGTTTTTT
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAT-TTTTTT
45479810 TTTCATATTA
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
47 70 0.53
48 20 0.15
49 43 0.32
ACGTcount: A:0.23, C:0.12, G:0.01, T:0.64
Consensus pattern (47 bp):
TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTATTTTTTTC
Found at i:45479760 original size:96 final size:96
Alignment explanation
Indices: 45479620--45479815 Score: 315
Period size: 96 Copynumber: 2.0 Consensus size: 96
45479610 ATTTCCATTT
*
45479620 TCATTTCATTTAAATTATCTTTTTTTCATTTAAATTTAACTTTTTTCTCATTTCGTTTAAATTAT
1 TCATTTCATTTAAATTATCTTTTTTTCATTTAAATTTAACTTTTTTCTCATTTCATTTAAATTAT
*
45479685 CTTTTTTTCCATTTAAATTTAAT-TTTTTTTC
66 CTTTCTTTCCATTTAAATTT-ATGTTTTTTTC
*
45479716 TCATTTCATTTAAATTATCTTTTTTTTCATTTAAATTT-ATTTTTTTCTCATTTCATTTAAATTA
1 TCATTTCATTTAAATTATC-TTTTTTTCATTTAAATTTAACTTTTTTCTCATTTCATTTAAATTA
* *
45479780 TCTTTCTTTCCATTTTAATTTATGTTTTTTTT
65 TCTTTCTTTCCATTTAAATTTATGTTTTTTTC
45479812 TCAT
1 TCAT
45479816 ATTAATTTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
95 2 0.02
96 73 0.78
97 18 0.19
ACGTcount: A:0.23, C:0.12, G:0.01, T:0.64
Consensus pattern (96 bp):
TCATTTCATTTAAATTATCTTTTTTTCATTTAAATTTAACTTTTTTCTCATTTCATTTAAATTAT
CTTTCTTTCCATTTAAATTTATGTTTTTTTC
Found at i:45479794 original size:21 final size:21
Alignment explanation
Indices: 45479618--45479799 Score: 107
Period size: 21 Copynumber: 7.9 Consensus size: 21
45479608 TCATTTCCAT
*
45479618 TTTCATTTCATTTAAATTATC
1 TTTCTTTTCATTTAAATTATC
*
45479639 TTT-TTTTCATTTAAATTTAACTTT
1 TTTCTTTTCATTTAAA-TT-A--TC
*
45479663 TTTCTCATTTCGTTTAAATTATC
1 TTTCT--TTTCATTTAAATTATC
*
45479686 TTT-TTTTCCATTTAAATTTAATTTTT
1 TTTCTTTT-CATTTAAA-TT-A---TC
45479712 TTTCTCATTTCATTTAAATTATC
1 TTTCT--TTTCATTTAAATTATC
* *
45479735 TTTTTTTTCATTTAAATTTATTTT
1 TTTCTTTTCATTTAAA-TTA--TC
45479759 TTTCTCATTTCATTTAAATTATC
1 TTTCT--TTTCATTTAAATTATC
* *
45479782 TTTCTTTCCATTTTAATT
1 TTTCTTTTCATTTAAATT
45479800 TATGTTTTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 42
0.70 0.07 0.23
Matches are distributed among these distances:
20 14 0.11
21 34 0.27
22 7 0.06
23 16 0.13
24 9 0.07
25 5 0.04
26 18 0.14
27 13 0.10
28 8 0.06
29 3 0.02
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.63
Consensus pattern (21 bp):
TTTCTTTTCATTTAAATTATC
Found at i:45480083 original size:44 final size:44
Alignment explanation
Indices: 45479846--45480085 Score: 354
Period size: 44 Copynumber: 5.5 Consensus size: 44
45479836 AATTTATTTC
* * * *
45479846 ATTTAATGTGTTTTAAGTTAAATATGTAAGTCTGTTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
*
45479890 ATTTAATGTGTTTTAAAGTAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* *
45479934 GTTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* * *
45479978 GTTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTTTA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* *
45480022 ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* *
45480066 ATTTAACGTATTTTAAATTA
1 ATTTAATGTGTTTTAAATTA
45480086 GGAACAAGAA
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 180 1.00
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
Found at i:45483531 original size:46 final size:44
Alignment explanation
Indices: 45483480--45483610 Score: 126
Period size: 45 Copynumber: 2.9 Consensus size: 44
45483470 TTTTGACATA
*
45483480 TAGTATTATTTAATATTTAAGCT-TAAC-ATTGTTTTAAATTTATCAT
1 TAGTATTATTTAATATTTAA--TAT-ACTATTATTTTAAA-TTATCAT
*
45483526 TAGTATTATTTTAATATTTAATATACTATTATTTTAAATTATTAT
1 TAGTATTA-TTTAATATTTAATATACTATTATTTTAAATTATCAT
* *
45483571 TAATATTATTTAA-ATTTATCATATA-TCAATATTTTAAATT
1 TAGTATTATTTAATATTTA--ATATACT-ATTATTTTAAATT
45483611 CATTATGTAC
Statistics
Matches: 75, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
43 5 0.07
44 6 0.08
45 33 0.44
46 19 0.25
47 12 0.16
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (44 bp):
TAGTATTATTTAATATTTAATATACTATTATTTTAAATTATCAT
Found at i:45483537 original size:23 final size:23
Alignment explanation
Indices: 45483511--45483610 Score: 95
Period size: 23 Copynumber: 4.4 Consensus size: 23
45483501 CTTAACATTG
45483511 TTTTAAATTTATCAT-TAGTATTA
1 TTTTAAATTTATCATATA-TATTA
45483534 TTTTAATATTTA--ATATACTATTA
1 TTTTAA-ATTTATCATATA-TATTA
*
45483557 TTTTAAA-TTATTAT-TAATATTA
1 TTTTAAATTTATCATAT-ATATTA
*
45483579 -TTTAAATTTATCATATATCAATA
1 TTTTAAATTTATCATATAT-ATTA
45483602 TTTTAAATT
1 TTTTAAATT
45483611 CATTATGTAC
Statistics
Matches: 65, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
21 9 0.14
22 17 0.26
23 26 0.40
24 13 0.20
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTTAAATTTATCATATATATTA
Done.