Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 224 of 292
Found at i:65539089 original size:25 final size:25
Alignment explanation
Indices: 65539054--65539101 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65539044 CTTATATATA
65539054 TTGATACCTATGTATAAAATAAAAT
1 TTGATACCTATGTATAAAATAAAAT
* * *
65539079 TTGATATCTATTTATTAAATAAA
1 TTGATACCTATGTATAAAATAAA
65539102 TTCCAAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (25 bp):
TTGATACCTATGTATAAAATAAAAT
Found at i:65545901 original size:6 final size:6
Alignment explanation
Indices: 65545892--65545930 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
65545882 CACTGTAAGG
65545892 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
65545931 GCGGTACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:65546913 original size:4 final size:4
Alignment explanation
Indices: 65546899--65546937 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
65546889 TCAATTTTCC
*
65546899 CTTT C-TT CTTT CTTT C-TC CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
65546938 CTGCTTTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 5 0.16
4 26 0.84
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:65546915 original size:11 final size:11
Alignment explanation
Indices: 65546899--65546937 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
65546889 TCAATTTTCC
65546899 CTTTCTTCTTT
1 CTTTCTTCTTT
*
65546910 CTTTCTCCTTT
1 CTTTCTTCTTT
65546921 CTTTCTTTCTTT
1 CTTTC-TTCTTT
65546933 CTTTC
1 CTTTC
65546938 CTGCTTTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
CTTTCTTCTTT
Found at i:65546928 original size:19 final size:18
Alignment explanation
Indices: 65546894--65546934 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
65546884 AACCTTCAAT
65546894 TTTC-CCTTTCTTCTTTC
1 TTTCTCCTTTCTTCTTTC
65546911 TTTCTCCTTTCTTTCTTTC
1 TTTCTCCTTTC-TTCTTTC
65546930 TTTCT
1 TTTCT
65546935 TTCCTGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 12 0.55
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTCTCCTTTCTTCTTTC
Found at i:65555838 original size:14 final size:14
Alignment explanation
Indices: 65555819--65555858 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
65555809 TCTCTCTCAT
*
65555819 ACACACACGCACAC
1 ACACACATGCACAC
65555833 ACACACATGCACAC
1 ACACACATGCACAC
65555847 ACACACATGCAC
1 ACACACATGCAC
65555859 TCTCTCTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.45, G:0.07, T:0.05
Consensus pattern (14 bp):
ACACACATGCACAC
Found at i:65556880 original size:4 final size:4
Alignment explanation
Indices: 65556871--65556972 Score: 177
Period size: 4 Copynumber: 25.5 Consensus size: 4
65556861 AGTACAAGTG
* * *
65556871 ATAC ATAC ATAC ATAC ATAC ATAC ACAC ACAC AAAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
65556919 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
65556967 ATAC AT
1 ATAC AT
65556973 GCATGCAGAT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 95 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:65559919 original size:15 final size:15
Alignment explanation
Indices: 65559899--65559950 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
65559889 ACTACAAAGC
65559899 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
65559914 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
65559933 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
65559948 ATT
1 ATT
65559951 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:65560007 original size:15 final size:16
Alignment explanation
Indices: 65559982--65560017 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
65559972 AGGTGAAGAA
65559982 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
65559998 TATT-TTTAAAATTAT
1 TATTATTTAAAATTAT
65560013 TATTA
1 TATTA
65560018 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:65560036 original size:19 final size:17
Alignment explanation
Indices: 65560004--65560047 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 17
65559994 TTATTATTTT
65560004 TAAAATTATTATTAAAA
1 TAAAATTATTATTAAAA
65560021 TAAAATTAATTTATTAAAA
1 TAAAATT-A-TTATTAAAA
65560040 TAATAATT
1 TAA-AATT
65560048 TATATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.29
18 1 0.04
19 12 0.50
20 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATTATTATTAAAA
Found at i:65561478 original size:46 final size:46
Alignment explanation
Indices: 65561419--65561540 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 46
65561409 CAATATCCTG
* * * *
65561419 CCAATGCCATATATTTGACATGGACTTACATGAATTATTCCTGTCT
1 CCAATGCCATATATTTAATATGGACTTACATGAATCAATCCTGTCT
* **
65561465 CCAATGCCATATA--TAATATAGACTTACATGGCTCAATCCTGTCT
1 CCAATGCCATATATTTAATATGGACTTACATGAATCAATCCTGTCT
*
65561509 CCAAAGCCATAT-TTCTAATATGGACTTACATG
1 CCAATGCCATATATT-TAATATGGACTTACATG
65561541 GCTCATTTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 35 0.55
46 29 0.45
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (46 bp):
CCAATGCCATATATTTAATATGGACTTACATGAATCAATCCTGTCT
Found at i:65561505 original size:44 final size:45
Alignment explanation
Indices: 65561457--65561545 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
65561447 CATGAATTAT
*
65561457 TCCTGTCTCCAATGCCATA-TATAATATAGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATTATAATATAGACTTACATGGCTCAA
* *
65561501 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA-TTATAATATAGACTTACATGGCTCA
65561546 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.45
46 22 0.55
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (45 bp):
TCCTGTCTCCAAAGCCATATTATAATATAGACTTACATGGCTCAA
Found at i:65564462 original size:20 final size:21
Alignment explanation
Indices: 65564439--65564489 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
65564429 AAATATAAAA
*
65564439 TTTGAATTTTTTATAAA-TAT
1 TTTGAATTTTTTAAAAATTAT
65564459 TTTGAA-TTTTTAAAAATTAT
1 TTTGAATTTTTTAAAAATTAT
65564479 TTT-AATTTTTT
1 TTTGAATTTTTT
65564490 TTTGTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTGAATTTTTTAAAAATTAT
Found at i:65564468 original size:19 final size:20
Alignment explanation
Indices: 65564439--65564488 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
65564429 AAATATAAAA
*
65564439 TTTGAATTTTTTATAAA-TAT
1 TTTGAA-TTTTTAAAAATTAT
65564459 TTTGAATTTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAT
65564479 TTT-AATTTTT
1 TTTGAATTTTT
65564489 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAT
Found at i:65566929 original size:22 final size:22
Alignment explanation
Indices: 65566901--65566945 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
65566891 TTTTTATAAT
65566901 TTATAATACTTTAAATTAGTAA
1 TTATAATACTTTAAATTAGTAA
65566923 TTATAATACTTTAAATTAGTAA
1 TTATAATACTTTAAATTAGTAA
65566945 T
1 T
65566946 CTTAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (22 bp):
TTATAATACTTTAAATTAGTAA
Found at i:65569438 original size:8 final size:8
Alignment explanation
Indices: 65569425--65569450 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
65569415 ACAATAGTAA
65569425 AAAACAAC
1 AAAACAAC
65569433 AAAACAAC
1 AAAACAAC
65569441 AAAACAAC
1 AAAACAAC
65569449 AA
1 AA
65569451 TAGGGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAC
Found at i:65572032 original size:93 final size:93
Alignment explanation
Indices: 65571873--65572043 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
65571863 GCCCATAAGT
* *
65571873 GAACTCGGACTCAACTCAACGACCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGACCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65571938 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
** *
65571966 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGACCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
65572031 CGAGTTCGGATGC
66 CGAGCTCGGATGC
65572044 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGACCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:65572040 original size:46 final size:46
Alignment explanation
Indices: 65571865--65572040 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
65571855 TGTAACCCGC
* * * *
65571865 CCATAAGTGAACTCGGACTCAACTCAACGACCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
65571911 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
65571961 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
65572004 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
65572041 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.58
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:65574453 original size:15 final size:15
Alignment explanation
Indices: 65574424--65574474 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
65574414 CAAAGATAAC
*
65574424 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65574438 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
65574453 AAGAGATCCAGAGATA
1 AAGAAATCCAGA-ATA
65574469 AAGAAA
1 AAGAAA
65574475 CCCAAGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 8 0.25
15 16 0.50
16 8 0.25
ACGTcount: A:0.61, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65574482 original size:15 final size:15
Alignment explanation
Indices: 65574435--65574483 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
65574425 AGAAAACCGA
65574435 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
65574449 AATAAAGAGATCCAGAG
1 -ATAAAGAAATCCA-AG
*
65574466 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
65574481 ATA
1 ATA
65574484 CGATACTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 16 0.55
16 11 0.38
17 2 0.07
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65577475 original size:92 final size:92
Alignment explanation
Indices: 65577364--65577535 Score: 308
Period size: 92 Copynumber: 1.9 Consensus size: 92
65577354 CGCCCATAAG
* *
65577364 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65577429 ACGAGCTCGGATGCCTAGTTACATCTC
66 ACGAGCTCGGATGCCTAGTTACATCTC
*
65577456 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
65577521 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
65577536 AACCATCCTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (92 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTC
Found at i:65577531 original size:46 final size:46
Alignment explanation
Indices: 65577357--65577531 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
65577347 TGTAACCCGC
* *
65577357 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
65577403 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
65577449 ACATCTCTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
65577495 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
65577532 TGCCAACCAT
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 102 0.92
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:65581661 original size:24 final size:24
Alignment explanation
Indices: 65581601--65581672 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
65581591 GAGCTATTAA
*
65581601 CAAGAAGCTCATAAGAGCCATATAT
1 CAAGAAGCTCATGAGAGCCA-ATAT
* *
65581626 TAAGAAGTTCATGAGAGCCAATAT
1 CAAGAAGCTCATGAGAGCCAATAT
* * *
65581650 CGAGATGCTCATGAGAGCTAATA
1 CAAGAAGCTCATGAGAGCCAATA
65581673 ACGGGACGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 22 0.56
25 17 0.44
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (24 bp):
CAAGAAGCTCATGAGAGCCAATAT
Found at i:65581683 original size:24 final size:24
Alignment explanation
Indices: 65581634--65581693 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
65581624 ATTAAGAAGT
* * *
65581634 TCATGAGAGCCAATATCGAGATGC
1 TCATGAGAGCTAATAACGAGACGC
*
65581658 TCATGAGAGCTAATAACGGGACGC
1 TCATGAGAGCTAATAACGAGACGC
* *
65581682 TCTTGCGAGCTA
1 TCATGAGAGCTA
65581694 TGGTATGTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (24 bp):
TCATGAGAGCTAATAACGAGACGC
Found at i:65583445 original size:25 final size:26
Alignment explanation
Indices: 65583411--65583459 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
65583401 CCGGCCCGAG
*
65583411 CAAACAAAACCA-AAAACCAAAAAAA
1 CAAACAAAACAAGAAAACCAAAAAAA
*
65583436 CAAACAAAACAAGAAAATCAAAAA
1 CAAACAAAACAAGAAAACCAAAAA
65583460 TATTATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.76, C:0.20, G:0.02, T:0.02
Consensus pattern (26 bp):
CAAACAAAACAAGAAAACCAAAAAAA
Found at i:65585026 original size:2 final size:2
Alignment explanation
Indices: 65585019--65585051 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
65585009 TTCTTCTATT
65585019 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65585052 ACAAGGCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65586456 original size:132 final size:132
Alignment explanation
Indices: 65585895--65586542 Score: 555
Period size: 131 Copynumber: 4.9 Consensus size: 132
65585885 TCATTCATTC
* * * * *
65585895 AAAAATTCTTCAAAACGAAGACGAGATTTGATGTTTGGCAATTCGCAGAATCGTGCCCTAACGTG
1 AAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCG-AGAATCGTGCCCTAACGTG
* * * *
65585960 TTGGGTTGCAATTTCGCG-TTTGCTCAAAATAATCGAATA-TCACTTCAAAATTTCACTCATGTC
65 TTGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTC-CTTCAAAATTTCACTCATGTC
65586023 TTTT
129 TTTT
* * * *
65586027 AAAAATCCCTT-AAACGAAGGCGATATGCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTG
1 AAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCG-AGAATCGTGCCCTAACGTG
* * ** * * * * *
65586091 TTAGGTTGCAATTTC-CCATTTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCT
65 TTGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTCT
*
65586155 TCT
130 TTT
* * * * ** * * *
65586158 AAAAATCCTTTAAAGCGAAGGCAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTATCGTGC
1 AAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGAGAATCGTGCCCTAACGTGT
* * * *** *
65586223 TGGGTTGTGATTTCTCG-TTTGTTCAAAACAATAGAATATTCCTTTAGGTTTTCACTCGTGT-TT
66 TGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTCTT
65586286 ATT
131 -TT
* * * * * ** *
65586289 AAAAA-CCTTCCAAAACAAAGACAATACTC-AGTGTTTGATAATTCGGGAATCGTGCCCTAACGT
1 AAAAATCCTT-TAAAACGAAGGCGATATTCGA-TGTTTGGCAATTCGAGAATCGTGCCCTAACGT
* * * * *
65586352 GTTGGGTTGTGATTTCTCGTTTTTTTCAAAACAATCGAAGATTCCTTCGAAATTTCACTCACGT-
64 GTTGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTC
65586416 TTATT
129 TT-TT
* * * * *
65586421 AAAAA-CCTTTTAAAACGAAGGCGATGTTCGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTG
1 AAAAATCC-TTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGAGAATCGTGCCCTAACGTG
* * * * * * *
65586485 CTGGGTTGCGCTTTTTC-ATTTGCTT-AAAACAATCGAAGATCCCTTCGAAATTTCACTC
65 TTGGGTTGCGATTTCTCGTTTTG-TTCAAAACAATCGAATATTCCTTCAAAATTTCACTC
65586543 GTATTTTCTA
Statistics
Matches: 419, Mismatches: 86, Indels: 23
0.79 0.16 0.04
Matches are distributed among these distances:
130 7 0.02
131 274 0.65
132 135 0.32
133 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (132 bp):
AAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGAGAATCGTGCCCTAACGTGT
TGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTCTT
TT
Found at i:65586541 original size:263 final size:263
Alignment explanation
Indices: 65586065--65586544 Score: 576
Period size: 263 Copynumber: 1.8 Consensus size: 263
65586055 GATATTTGGC
* *
65586065 AATTCGTGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATA
1 AATTCGTGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCCCATTTGTTTAAAACAATCAAAGA
* * *
65586130 TCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAGCGAAGGCAATACTCGGTGTTTG
66 TCCCTTCAAAATTTCACTCACGTCTTCTAAAAATCCTTTAAAACGAAGGCAATACTCGATGTTTG
* * * *
65586195 ATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATAGAAT
131 ACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAACAATAGAAG
* * **
65586260 ATTCCTTTAGGTTTTCACTCGTGTTTATTAAAAACCTTCCAAAACAAAGACAATACTCAGTGTTT
196 ATCCCTTGAGAATTTCACTCGTGTTTATTAAAAACCTTCCAAAACAAAGACAATACTCAGTGTTT
65586325 GAT
261 GAT
* ** * * * *
65586328 AATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGTGATTTCTCGTTTTTTTCAAAACAATCGAAG
1 AATTCGTGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCCCATTTGTTT-AAAACAATCAAAG
* * * * **
65586392 ATTCCTTCGAAATTTCACTCACGT-TTATTAAAAA-CCTTTTAAAACGAAGGCGATGTTCGATGT
65 ATCCCTTCAAAATTTCACTCACGTCTT-CTAAAAATCC-TTTAAAACGAAGGCAATACTCGATGT
* * * * *
65586455 TTGGCGATTTGAGAATCGA-GCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTT-AAAACAAT
128 TTGACAATTCGAGAATC-ATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTG-TTCAAAACAAT
*
65586518 CGAAGATCCCTTCGA-AATTTCACTCGT
191 AGAAGATCCCTT-GAGAATTTCACTCGT
65586545 ATTTTCTAAG
Statistics
Matches: 179, Mismatches: 32, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
262 42 0.23
263 133 0.74
264 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (263 bp):
AATTCGTGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCCCATTTGTTTAAAACAATCAAAGA
TCCCTTCAAAATTTCACTCACGTCTTCTAAAAATCCTTTAAAACGAAGGCAATACTCGATGTTTG
ACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAACAATAGAAG
ATCCCTTGAGAATTTCACTCGTGTTTATTAAAAACCTTCCAAAACAAAGACAATACTCAGTGTTT
GAT
Found at i:65586753 original size:14 final size:14
Alignment explanation
Indices: 65586734--65586764 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
65586724 TATTAACAAG
65586734 AACCACATTTCAAA
1 AACCACATTTCAAA
65586748 AACCACATTTCAAA
1 AACCACATTTCAAA
65586762 AAC
1 AAC
65586765 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCACATTTCAAA
Found at i:65601007 original size:132 final size:132
Alignment explanation
Indices: 65600800--65601971 Score: 1905
Period size: 132 Copynumber: 8.9 Consensus size: 132
65600790 CTACAGATCG
* * * *
65600800 TGTTTCCCTGAAGTTACAGTGAAGCAGATCAAATACGGAGAATCTTGGCTTCCTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* *
65600865 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGAAGTAGGCTGAAATTTTATGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
65600930 CT
131 CT
* *
65600932 TGTTTCCCT-AGAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGCAA
1 TGTTTCCCTGA-AGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAG
*
65600996 TGAAGCAGATTTAAGCCACAAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGG
65 TGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGG
65601061 TCT
130 TCT
* * * * *
65601064 TGTTTCCCTGAAGTTGCAGTGAAGTAGATCGAAGACGGCGGATCTTGACTTCCTAAAGTTACAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* *
65601129 GAAGCATATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAGTAGGCTGAAATTTTAGGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
65601194 CT
131 CT
* * *
65601196 TGTTTCCCTGAAGTTACAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGCGGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* *
65601261 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTCAGAT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
65601326 CT
131 CT
* * * * *
65601328 TATTCCCCTGAAGATGCAGTGAAGTAGATCGAAGACGGCAAATCTTGGCTTCCTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* *
65601393 GAAGTAGATTTAAGCCACCAACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
65601458 CT
131 CT
* *
65601460 TGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTTGCTTCCTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
*
65601525 GAAGCAGATTTAAGCTACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
65601590 CT
131 CT
* * * *
65601592 TGTTTCCCTGAAATTGCAGTGAAGCAAATCAAAGACGGCAAATCTTGGCTTCCTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
65601657 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
65601722 CT
131 CT
*
65601724 TGTTTCTCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* *
65601789 GAAGTAGATCTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
65601854 CT
131 CT
* * * *
65601856 TGTTTCCCTGAAGTTGCAGTGAAGCAAATCGAAGATGGCGAATCTTGACTTCTTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* * * * *
65601921 GAAGCAGATTTAAGCCACTAACCTAGCTCTCTGAAGTTATAGCGGAGTAGG
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
65601972 TCGAAGATTG
Statistics
Matches: 960, Mismatches: 78, Indels: 4
0.92 0.07 0.00
Matches are distributed among these distances:
131 1 0.00
132 958 1.00
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
CT
Found at i:65602372 original size:24 final size:25
Alignment explanation
Indices: 65602340--65602387 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
65602330 CCGGCCCGAG
*
65602340 CAAACAAAACCA-AAAACCAAAAAA
1 CAAACAAAACAAGAAAACCAAAAAA
*
65602364 CAAACAAAACAAGAAAATCAAAAA
1 CAAACAAAACAAGAAAACCAAAAA
65602388 TATTATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.75, C:0.21, G:0.02, T:0.02
Consensus pattern (25 bp):
CAAACAAAACAAGAAAACCAAAAAA
Found at i:65605361 original size:132 final size:133
Alignment explanation
Indices: 65604817--65605464 Score: 574
Period size: 131 Copynumber: 4.9 Consensus size: 133
65604807 TCATTCATTC
* * * *
65604817 AAAAATTC-TTCAAAACGAAGACGAGATTTGATGTTTGGCAATTCGCAGAATCGTGCCCTAACGT
1 AAAAATCCTTTCAAAACGAAGACGATATTCGATGTTTGGTAATTCG-AGAATCGTGCCCTAACGT
* * * *
65604881 GTTGGGTTGCAATTT-TGCG-TTTGCTCAAAATAATCGAATA-TCACTTTAAAATTTCACTCATG
65 GTTGGGTTGCGATTTCT-CGTTTTGTTCAAAACAATCGAATATTC-CTTCAAAATTTCACTCATG
65604943 TCTTTT
128 TCTTTT
* * * * * * *
65604949 AAAAATCCCTT--AAACAAAGGCGATATGCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGT
1 AAAAATCCTTTCAAAACGAAGACGATATTCGATGTTTGGTAATTCG-AGAATCGTGCCCTAACGT
* ** * * * *
65605012 GTTGGGTTGCAATTTC-CCATTTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCA-GAT
65 GTTGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATG-T
65605075 CTTTT
129 CTTTT
* * * * * *
65605080 AAAAATCCTTT-AAAACGAATG-CAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTATCGT
1 AAAAATCCTTTCAAAACGAA-GACGATATTCGATGTTTGGTAATTCGAGAATCGTGCCCTAACGT
* * * *** *
65605143 GCTGGGTTGTGATTTCTCG-TTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCGTGT-
65 GTTGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTC
65605206 TTATT
130 TT-TT
* * * * *
65605211 AAAAA-CCTTCCAAAACGAAGACAATATTCGGTGTTTGATAATTCGGGAATCGTGCCCTAACGTG
1 AAAAATCCTTTCAAAACGAAGACGATATTCGATGTTTGGTAATTCGAGAATCGTGCCCTAACGTG
* * * * *
65605275 TTGGGTTGTGATTTCTCGTTTTTTTCAAAACAATCGAAGATTCCTTCGAAATTTCACTCACGT-T
66 TTGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTCT
65605339 TATT
131 T-TT
* * * * * *
65605343 AAAAA-CCTTTCAAAACGAAGGCGATGTTCGATGTTTGGTGATTTGAGAATCGAGCCCTATCGTG
1 AAAAATCCTTTCAAAACGAAGACGATATTCGATGTTTGGTAATTCGAGAATCGTGCCCTAACGTG
* * * * * * *
65605407 CTGGGTTGCGCTTTTTC-ATTTGCTT-AAAACAATCGAAGATCCCTTCAGAATTTCACTC
66 TTGGGTTGCGATTTCTCGTTTTG-TTCAAAACAATCGAATATTCCTTCAAAATTTCACTC
65605465 GTATTTTCTA
Statistics
Matches: 427, Mismatches: 75, Indels: 29
0.80 0.14 0.05
Matches are distributed among these distances:
130 9 0.02
131 274 0.64
132 141 0.33
133 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (133 bp):
AAAAATCCTTTCAAAACGAAGACGATATTCGATGTTTGGTAATTCGAGAATCGTGCCCTAACGTG
TTGGGTTGCGATTTCTCGTTTTGTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTCT
TTT
Found at i:65605413 original size:263 final size:263
Alignment explanation
Indices: 65604846--65605466 Score: 625
Period size: 263 Copynumber: 2.4 Consensus size: 263
65604836 GACGAGATTT
** * * * * * *
65604846 GATGTTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTT-TGCGTTTGCTCAAA
1 GATGTTTGATAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGCGATTTCT-CATTTGCTTAAA
* * * * * * * * *
65604910 ATAATCGAATATCACTTTAAAATTTCACTCATGTCTT-TTAAAAATCCCTT---AAACAAAGGCG
64 ACAATCGAAGATCCCTTCAGAATTTCACTCGTGT-TTATTAAAAA--CCTTCCAAAACGAAGACA
* * * **
65604971 ATATGCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGT
126 ATATTCGGTGTTTGATAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGT
* * *
65605036 TTAAAATAATCAAATATCCCTTCAAAATTTCACTCAGATCTTTTAAAAATCCTTTAAAACGAATG
191 TTAAAACAATCAAAGATCCCTTCAAAATTTCACTCAGATCTTTTAAAAATCCTTTAAAACGAAGG
65605101 CAATACTC
256 CAATACTC
* * *
65605109 GGTGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTG-TTCAAAA
1 GATGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTT-AAAA
* * * **
65605173 CAATCGAATATTCCTTTAGGTTTTCACTCGTGTTTATTAAAAACCTTCCAAAACGAAGACAATAT
65 CAATCGAAGATCCCTTCAGAATTTCACTCGTGTTTATTAAAAACCTTCCAAAACGAAGACAATAT
** * * *
65605238 TCGGTGTTTGATAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGTGATTTCTCGTTTTTTTCA
130 TCGGTGTTTGATAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTT-A
* * *
65605302 AAACAATCGAAGATTCCTTCGAAATTTCACTCACG-T-TTATTAAAAA-CCTTTCAAAACGAAGG
194 AAACAATCAAAGATCCCTTCAAAATTTCACTCA-GATCTT-TTAAAAATCCTTT-AAAACGAAGG
* **
65605364 CGATGTTC
256 CAATACTC
* * * * *
65605372 GATGTTTGGTGATTTGAGAATCGA-GCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTTAAAA
1 GATGTTTGATAATTCGAGAATC-ATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTTAAAA
65605436 CAATCGAAGATCCCTTCAGAATTTCACTCGT
65 CAATCGAAGATCCCTTCAGAATTTCACTCGT
65605467 ATTTTCTAAG
Statistics
Matches: 295, Mismatches: 51, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
260 4 0.01
261 3 0.01
262 117 0.40
263 167 0.57
264 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (263 bp):
GATGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTTAAAAC
AATCGAAGATCCCTTCAGAATTTCACTCGTGTTTATTAAAAACCTTCCAAAACGAAGACAATATT
CGGTGTTTGATAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAAA
ACAATCAAAGATCCCTTCAAAATTTCACTCAGATCTTTTAAAAATCCTTTAAAACGAAGGCAATA
CTC
Found at i:65609467 original size:39 final size:39
Alignment explanation
Indices: 65609408--65609547 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 39
65609398 ATCATGATCT
** * *
65609408 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
65609447 GAAGCCCAAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
65609486 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
65609525 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
65609548 TCATCAGAAC
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:65609490 original size:21 final size:21
Alignment explanation
Indices: 65609426--65609529 Score: 103
Period size: 21 Copynumber: 5.2 Consensus size: 21
65609416 AAATCTAGCT
*
65609426 GAAGCACATAAGTGCTAAATG
1 GAAGCACATAAGTGCTAAACG
* *
65609447 GAAGCCCA-AAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
65609465 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
*** *
65609486 GAAGC-CCGGAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
65609504 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
65609525 GAAGC
1 GAAGC
65609530 CCGAAGGCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
18 17 0.27
19 12 0.19
20 12 0.19
21 23 0.36
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.13
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:65611646 original size:137 final size:136
Alignment explanation
Indices: 65611400--65611685 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
65611390 TATTGGGCCT
** *
65611400 AAGCCCATTCAGGCAACAGTGGTACTGGGCCAGAGCCTTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
65611465 AGCCTCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
*
65611530 TATATGC
130 CATATGC
*
65611537 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
65611602 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
65611667 ATATGC
131 ATATGC
65611673 AAGCCCATTTGGG
1 AAGCCCATTTGGG
65611686 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 21 0.15
137 121 0.85
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:65613492 original size:26 final size:26
Alignment explanation
Indices: 65613456--65613563 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
65613446 TGAAATTCCA
*
65613456 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
65613482 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
65613508 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
65613534 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
65613560 ATCA
1 ATCA
65613564 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:65615308 original size:21 final size:21
Alignment explanation
Indices: 65615267--65615308 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65615257 CCTATCCAAC
* * *
65615267 AACTCTTGAATTTGAGCATTT
1 AACTATTGAATTTCAGAATTT
65615288 AACTATTGAATTTCAGAATTT
1 AACTATTGAATTTCAGAATTT
65615309 CCACATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (21 bp):
AACTATTGAATTTCAGAATTT
Found at i:65627075 original size:100 final size:100
Alignment explanation
Indices: 65626959--65627155 Score: 358
Period size: 100 Copynumber: 2.0 Consensus size: 100
65626949 ATTGAAGAAA
* *
65626959 GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACACAATGAAACTTAAAACTC
1 GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACACAATGAAACTCAAAACGC
*
65627024 AAAGGAAGACGAACTTAGAATAATAGAAAAAAAAT
66 AAAGGAAGAAGAACTTAGAATAATAGAAAAAAAAT
*
65627059 GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACATAATGAAACTCAAAACGC
1 GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACACAATGAAACTCAAAACGC
65627124 AAAGGAAGAAGAACTTAGAATAATAGAAAAAA
66 AAAGGAAGAAGAACTTAGAATAATAGAAAAAA
65627156 TTGGTACATT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 93 1.00
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (100 bp):
GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACACAATGAAACTCAAAACGC
AAAGGAAGAAGAACTTAGAATAATAGAAAAAAAAT
Found at i:65628551 original size:16 final size:16
Alignment explanation
Indices: 65628526--65628561 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
65628516 GTTTTGATAG
65628526 AAAACAACAAAGTACT
1 AAAACAACAAAGTACT
*
65628542 AAAACGACAAAGTACT
1 AAAACAACAAAGTACT
65628558 AAAA
1 AAAA
65628562 AAAGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.17, G:0.08, T:0.11
Consensus pattern (16 bp):
AAAACAACAAAGTACT
Found at i:65630039 original size:43 final size:43
Alignment explanation
Indices: 65629987--65630127 Score: 230
Period size: 43 Copynumber: 3.3 Consensus size: 43
65629977 TTTTCGAAAA
65629987 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTTCGC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTTCGC
*
65630030 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTT-GC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTTCGC
* * *
65630072 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTCTCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTTCGC
*
65630115 AAATGCCGCTAAA
1 AAACGCCGCTAAA
65630128 AATAATGATC
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 39 0.43
43 52 0.57
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTTCGC
Found at i:65630478 original size:17 final size:18
Alignment explanation
Indices: 65630451--65630484 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
65630441 ATGCCAAAAT
65630451 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
65630469 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
65630485 CCACAAGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:65634612 original size:18 final size:18
Alignment explanation
Indices: 65634589--65634632 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
65634579 AGGGATTTTG
* *
65634589 GGGGAAATTTA-AGGATT
1 GGGGAAATGTAGAGAATT
65634606 AGGGGAAATGTAGAGAATT
1 -GGGGAAATGTAGAGAATT
65634625 GGGGAAAT
1 GGGGAAAT
65634633 CAATTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.23
Consensus pattern (18 bp):
GGGGAAATGTAGAGAATT
Found at i:65634920 original size:76 final size:75
Alignment explanation
Indices: 65634762--65634979 Score: 326
Period size: 76 Copynumber: 3.0 Consensus size: 75
65634752 TGTCGTTTTC
*
65634762 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTC--A--TA--TTT
1 ATAGTGTTTTTTGTGGCGTTTTTT-TAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
65634821 ATTT-TTAT-T
65 ATTTGTTATAT
* *
65634830 ATAGTGTTTTTTGTGGCGTTTTTTTTAAAACGCCACTAATCTTTTAATTTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGCGTTTTTTTAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
65634895 TTTGTTATAT
66 TTTGTTATAT
*
65634905 AATAGTGTTTTTTGTGGTGTTTTTTTAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
1 -ATAGTGTTTTTTGTGGCGTTTTTTTAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
65634970 ATTTGTTATA
65 ATTTGTTATA
65634980 ATTTGGAAGC
Statistics
Matches: 135, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
67 25 0.19
68 24 0.18
69 1 0.01
71 2 0.01
73 7 0.05
74 4 0.03
75 1 0.01
76 71 0.53
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.55
Consensus pattern (75 bp):
ATAGTGTTTTTTGTGGCGTTTTTTTAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
TTTGTTATAT
Found at i:65635176 original size:7 final size:7
Alignment explanation
Indices: 65635164--65635288 Score: 58
Period size: 7 Copynumber: 17.6 Consensus size: 7
65635154 ACTAATTAAT
65635164 CTAAACC
1 CTAAACC
65635171 CTAAACC
1 CTAAACC
65635178 TCT-AACC
1 -CTAAACC
* * *
65635185 TTTATCC
1 CTAAACC
*
65635192 CTAAATC
1 CTAAACC
*
65635199 CTAAATC
1 CTAAACC
65635206 CTAAACC
1 CTAAACC
*
65635213 CTAAGCC
1 CTAAACC
65635220 C-ATAACC
1 CTA-AACC
*
65635227 C-ATATCC
1 CTA-AACC
* *
65635234 ATTAACC
1 CTAAACC
*
65635241 CTTAAAAC
1 C-TAAACC
65635249 CTAAACC
1 CTAAACC
*
65635256 CTTAACAC
1 CTAAAC-C
* *
65635264 ATAACCC
1 CTAAACC
65635271 CTAAACC
1 CTAAACC
*
65635278 TTAAACC
1 CTAAACC
65635285 CTAA
1 CTAA
65635289 CACATAATCC
Statistics
Matches: 87, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
6 2 0.02
7 74 0.85
8 11 0.13
ACGTcount: A:0.39, C:0.37, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:65635233 original size:42 final size:42
Alignment explanation
Indices: 65635164--65635270 Score: 101
Period size: 42 Copynumber: 2.5 Consensus size: 42
65635154 ACTAATTAAT
** * * *
65635164 CTAAACCCTAAACCTC-TAACCTTTATCCCTAAATCC-TAAATC
1 CTAAACCCT-AACC-CATAACCCATATCCATAAACCCTTAAAAC
*
65635206 CTAAACCCTAAGCCCATAACCCATATCCATTAACCCTTAAAAC
1 CTAAACCCTAA-CCCATAACCCATATCCATAAACCCTTAAAAC
*
65635249 CTAAACCCTTAACACATAACCC
1 CTAAACCC-TAACCCATAACCC
65635271 CTAAACCTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
41 3 0.06
42 26 0.48
43 22 0.41
44 3 0.06
ACGTcount: A:0.38, C:0.37, G:0.01, T:0.23
Consensus pattern (42 bp):
CTAAACCCTAACCCATAACCCATATCCATAAACCCTTAAAAC
Found at i:65635257 original size:15 final size:15
Alignment explanation
Indices: 65635237--65635286 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
65635227 CATATCCATT
65635237 AACCCTTAAAACCTA
1 AACCCTTAAAACCTA
* *
65635252 AACCCTTAACACAT-
1 AACCCTTAAAACCTA
*
65635266 AACCCCT-AAACCTTA
1 AACCCTTAAAACC-TA
65635281 AACCCT
1 AACCCT
65635287 AACACATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 17 0.63
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (15 bp):
AACCCTTAAAACCTA
Found at i:65635289 original size:28 final size:28
Alignment explanation
Indices: 65635236--65635305 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
65635226 CCATATCCAT
*
65635236 TAACCCTTAAAACCTAAACCCTTAACACA
1 TAACCCAT-AAACCTAAACCCTTAACACA
*
65635265 TAACCCCTAAACCTTAAACCC-TAACACA
1 TAACCCATAAACC-TAAACCCTTAACACA
*
65635293 TAATCCATAAACC
1 TAACCCATAAACC
65635306 AGAATCCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.62
29 14 0.38
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (28 bp):
TAACCCATAAACCTAAACCCTTAACACA
Found at i:65635346 original size:7 final size:7
Alignment explanation
Indices: 65635245--65635348 Score: 50
Period size: 7 Copynumber: 14.7 Consensus size: 7
65635235 TTAACCCTTA
65635245 AAACC-T
1 AAACCAT
*
65635251 AAACCCT
1 AAACCAT
*
65635258 TAACACAT
1 AAAC-CAT
* *
65635266 AACCCCT
1 AAACCAT
*
65635273 AAACCTT
1 AAACCAT
*
65635280 AAACCCT
1 AAACCAT
65635287 -AACACAT
1 AAAC-CAT
*
65635294 AATCCAT
1 AAACCAT
*
65635301 AAACCAG
1 AAACCAT
*
65635308 AATCCAT
1 AAACCAT
*
65635315 AAACCTT
1 AAACCAT
**
65635322 AAAATAT
1 AAACCAT
*
65635329 TAACTCAT
1 AAAC-CAT
65635337 AAACCAT
1 AAACCAT
65635344 AAACC
1 AAACC
65635349 CCTAACCCCT
Statistics
Matches: 70, Mismatches: 23, Indels: 9
0.69 0.23 0.09
Matches are distributed among these distances:
6 8 0.11
7 51 0.73
8 11 0.16
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCAT
Found at i:65635355 original size:7 final size:7
Alignment explanation
Indices: 65635345--65635403 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
65635335 ATAAACCATA
65635345 AACCCCT
1 AACCCCT
65635352 AACCCCT
1 AACCCCT
*
65635359 ATCCCCTT
1 AACCCC-T
*
65635367 AACGCCT
1 AACCCCT
*
65635374 AACCCTT
1 AACCCCT
*
65635381 ATCCCCTT
1 AACCCC-T
*
65635389 AACGCCT
1 AACCCCT
65635396 AACCCCT
1 AACCCCT
65635403 A
1 A
65635404 TCCTCTTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
7 30 0.75
8 10 0.25
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (7 bp):
AACCCCT
Found at i:65635374 original size:22 final size:22
Alignment explanation
Indices: 65635349--65635412 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
65635339 ACCATAAACC
65635349 CCTAACCCCTATCCCCTTAACG
1 CCTAACCCCTATCCCCTTAACG
*
65635371 CCTAACCCTTATCCCCTTAACG
1 CCTAACCCCTATCCCCTTAACG
*
65635393 CCTAACCCCTATCCTCTTAA
1 CCTAACCCCTATCCCCTTAA
65635413 AACTTGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.23, C:0.47, G:0.03, T:0.27
Consensus pattern (22 bp):
CCTAACCCCTATCCCCTTAACG
Found at i:65635598 original size:115 final size:114
Alignment explanation
Indices: 65635395--65635635 Score: 473
Period size: 115 Copynumber: 2.1 Consensus size: 114
65635385 CCTTAACGCC
65635395 TAACCCCTATCCTCTTAAAACTTGTTTTGGTGTAATGTATCTTTTTACAATTATATAAGAAATCA
1 TAACCCCTATCCTCTTAAAACTTGTTTTGGTGTAATGTATCTTTTTACAATTATATAAGAAATCA
65635460 TTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCTCT
66 TTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCTCT
65635509 TAACCCCTATCCTCTTAAAACTTGTTTTGGTGTAATGTATCTCTTTTACAATTATATAAGAAATC
1 TAACCCCTATCCTCTTAAAACTTGTTTTGGTGTAATGTATCT-TTTTACAATTATATAAGAAATC
65635574 ATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCTCT
65 ATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCTCT
65635624 TAACCCCTATCC
1 TAACCCCTATCC
65635636 CATAAACATT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 42 0.33
115 84 0.67
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.38
Consensus pattern (114 bp):
TAACCCCTATCCTCTTAAAACTTGTTTTGGTGTAATGTATCTTTTTACAATTATATAAGAAATCA
TTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCTCT
Found at i:65635691 original size:43 final size:43
Alignment explanation
Indices: 65635606--65635710 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
65635596 TACTAATTAA
* * *
65635606 TCTAAACCCTAAACCTCTTAACCCCTATCCCATAAACATTAAAC
1 TCTAAACCCTTAACC-CTTAACCCCAAACCCATAAACATTAAAC
* * *
65635650 TCTAAACCCTTAACCCTTAACCCCAAACCCTTACACCTTAAAC
1 TCTAAACCCTTAACCCTTAACCCCAAACCCATAAACATTAAAC
*
65635693 TCT-AACCC-TAACCATTAA
1 TCTAAACCCTTAACCCTTAA
65635711 ACCTAATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 9 0.17
42 5 0.09
43 26 0.48
44 14 0.26
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (43 bp):
TCTAAACCCTTAACCCTTAACCCCAAACCCATAAACATTAAAC
Found at i:65635699 original size:21 final size:20
Alignment explanation
Indices: 65635644--65635716 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
65635634 CCCATAAACA
65635644 TTAAACTCTAAACCCTTAACCC
1 TTAAACTCT-AACCCTTAA-CC
* * *
65635666 TTAACCCCAAACCCTTACACC
1 TTAAACTCTAACCCTTA-ACC
65635687 TTAAACTCTAACCC-TAACC
1 TTAAACTCTAACCCTTAACC
65635706 ATTAAAC-CTAA
1 -TTAAACTCTAA
65635717 TTAATCATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 7 0.16
20 8 0.19
21 21 0.49
22 7 0.16
ACGTcount: A:0.38, C:0.37, G:0.00, T:0.25
Consensus pattern (20 bp):
TTAAACTCTAACCCTTAACC
Found at i:65635806 original size:14 final size:14
Alignment explanation
Indices: 65635789--65635856 Score: 57
Period size: 14 Copynumber: 4.6 Consensus size: 14
65635779 CCTTAAACAC
65635789 TAAACCATATATCT
1 TAAACCATATATCT
*
65635803 TAAACCATAGTTAACTCA
1 TAAACCATA--T-A-TCT
* * *
65635821 TAAACCTTA-AACC
1 TAAACCATATATCT
65635834 TAAACCATATATCT
1 TAAACCATATATCT
65635848 TAAACCATA
1 TAAACCATA
65635857 AACCATAAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
13 9 0.21
14 21 0.50
16 1 0.02
17 1 0.02
18 10 0.24
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (14 bp):
TAAACCATATATCT
Found at i:65635829 original size:25 final size:25
Alignment explanation
Indices: 65635702--65635833 Score: 75
Period size: 25 Copynumber: 5.4 Consensus size: 25
65635692 CTCTAACCCT
65635702 AACCATTAAACC-TAATTAA-TCATA
1 AACC-TTAAACCATAATTAACTCATA
* * *
65635726 ATCCCTAAACCCATAATTCA-TCATA
1 AACCTTAAA-CCATAATTAACTCATA
* * *
65635751 AACCTTCAAA-TACTAGTTAACTCCTA
1 AACCTT-AAACCA-TAATTAACTCATA
65635777 AACCTTAAA-CACT-A--AAC-CATA
1 AACCTTAAACCA-TAATTAACTCATA
* * *
65635798 TATCTTAAACCATAGTTAACTCATA
1 AACCTTAAACCATAATTAACTCATA
65635823 AACCTTAAACC
1 AACCTTAAACC
65635834 TAAACCATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
21 11 0.14
22 5 0.06
23 4 0.05
24 9 0.11
25 39 0.48
26 13 0.16
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.28
Consensus pattern (25 bp):
AACCTTAAACCATAATTAACTCATA
Found at i:65635833 original size:7 final size:7
Alignment explanation
Indices: 65635819--65635871 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
65635809 ATAGTTAACT
65635819 CATAAAC
1 CATAAAC
*
65635826 CTTAAAC
1 CATAAAC
65635833 C-TAAAC
1 CATAAAC
* *
65635839 CATATAT
1 CATAAAC
*
65635846 CTTAAAC
1 CATAAAC
65635853 CATAAAC
1 CATAAAC
65635860 CATAAAC
1 CATAAAC
*
65635867 TATAA
1 CATAA
65635872 TGATAATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 6 0.16
7 31 0.84
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (7 bp):
CATAAAC
Found at i:65635852 original size:45 final size:46
Alignment explanation
Indices: 65635764--65635856 Score: 170
Period size: 45 Copynumber: 2.0 Consensus size: 46
65635754 CTTCAAATAC
*
65635764 TAGTTAACTCCTAAACCTTAAACACTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACACTAAACCATATATCTTAAACCA
65635810 TAGTTAACTCATAAACCTTAAAC-CTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACACTAAACCATATATCTTAAACCA
65635855 TA
1 TA
65635857 AACCATAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 24 0.52
46 22 0.48
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACACTAAACCATATATCTTAAACCA
Found at i:65636126 original size:41 final size:41
Alignment explanation
Indices: 65636028--65636289 Score: 402
Period size: 42 Copynumber: 6.4 Consensus size: 41
65636018 GTTATATGAC
65636028 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGG-T
*
65636070 TTTTCGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
65636111 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGG-T
* * *
65636153 TTTTCGCGGTGTTTTTCCAAAAGCGTCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
65636194 TTTTAGCAGCGTTTTGCCAAAAGCG-CGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
65636234 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
65636274 TTTTCGCGGCATTTTT
1 TTTTAGCGGCGTTTTT
65636290 TACTAAAACG
Statistics
Matches: 204, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
40 53 0.26
41 74 0.36
42 77 0.38
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:65636167 original size:83 final size:83
Alignment explanation
Indices: 65636028--65636289 Score: 422
Period size: 83 Copynumber: 3.2 Consensus size: 83
65636018 GTTATATGAC
65636028 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTTTTTTCGCGGCGTTTTTCCAAAAG
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTTTTTTCGCGGCGTTTTTCCAAAAG
65636093 CGCCGCTAATGCTCTGGT
66 CGCCGCTAATGCTCTGGT
*
65636111 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTTTTTTCGCGGTGTTTTTCCAAAAG
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTTTTTTCGCGGCGTTTTTCCAAAAG
*
65636176 CGTCGCTAATGCTCTGGT
66 CGCCGCTAATGCTCTGGT
* * * *
65636194 TTTTAGCAGCGTTTTGCCAAAAGCG-CGCTAATGCTCTGG-TTTTTAGCGGCGTTTTGCCAAAAG
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTTTTTTCGCGGCGTTTTTCCAAAAG
*
65636257 CGCCGCTAATGCTCT-AT
66 CGCCGCTAATGCTCTGGT
* *
65636274 TTTTCGCGGCATTTTT
1 TTTTAGCGGCGTTTTT
65636290 TACTAAAACG
Statistics
Matches: 166, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
80 13 0.08
81 35 0.21
82 14 0.08
83 104 0.63
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (83 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTTTTTTCGCGGCGTTTTTCCAAAAG
CGCCGCTAATGCTCTGGT
Found at i:65640611 original size:48 final size:47
Alignment explanation
Indices: 65640559--65640699 Score: 135
Period size: 51 Copynumber: 2.9 Consensus size: 47
65640549 ACCTTAAACG
65640559 GTTTTAT-TACATATTATTTTAAATTATTTTACATATTACTTATTTTAA
1 GTTTTATATACATATTATTTTAAA-TATTTTACATATTA-TTATTTTAA
*
65640607 GTTTTTTATATACATTATTTATTTTAAA-CTTTTACATATTATATATTTTAA
1 G--TTTTATATACA-TA-TTATTTTAAATATTTTACATATTAT-TATTTTAA
* * *
65640658 G-TTTATGTACATAATGTAGTTTAAACTATTTTATATATTATT
1 GTTTTATATACAT-AT-TATTTTAAA-TATTTTACATATTATT
65640700 TCTTTTAAAC
Statistics
Matches: 78, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
47 2 0.03
48 19 0.24
49 1 0.01
50 19 0.24
51 25 0.32
52 2 0.03
53 10 0.13
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (47 bp):
GTTTTATATACATATTATTTTAAATATTTTACATATTATTATTTTAA
Found at i:65640617 original size:23 final size:25
Alignment explanation
Indices: 65640571--65640626 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
65640561 TTTATTACAT
65640571 ATTATTTTAAATTATTTTACATATTAC
1 ATTATTTTAAATTATTTTA-ATA-TAC
*
65640598 -TTATTTTAAGTT-TTTT-ATATAC
1 ATTATTTTAAATTATTTTAATATAC
65640620 ATTATTT
1 ATTATTT
65640627 ATTTTAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.11
23 9 0.33
25 4 0.15
26 11 0.41
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTATTTTAAATTATTTTAATATAC
Found at i:65640629 original size:27 final size:27
Alignment explanation
Indices: 65640560--65640634 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 27
65640550 CCTTAAACGG
65640560 TTTTAT-TACA-TATTATTTTAAATTA
1 TTTTATATACATTATTATTTTAAATTA
* *
65640585 TTTTACAT--ATTACTTATTTTAAGTT-
1 TTTTATATACATTA-TTATTTTAAATTA
65640610 TTTTATATACATTATTTATTTTAAA
1 TTTTATATACATTA-TTATTTTAAA
65640635 CTTTTACATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
24 1 0.03
25 14 0.35
26 12 0.30
27 13 0.32
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTTATATACATTATTATTTTAAATTA
Found at i:65640640 original size:51 final size:49
Alignment explanation
Indices: 65640560--65640661 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 49
65640550 CCTTAAACGG
65640560 TTTTATTACATATTATTTTAAATTATTTTACATATTACT-TATTTTAAGTT
1 TTTTATTACATATTATTTTAAA-TATTTTACATATTA-TATATTTTAAGTT
*
65640610 TTTTATATACATTATTTATTTTAAA-CTTTTACATATTATATATTTTAAGTT
1 TTTTAT-TACA-TA-TTATTTTAAATATTTTACATATTATATATTTTAAGTT
65640661 T
1 T
65640662 ATGTACATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
50 7 0.15
51 28 0.60
52 2 0.04
53 10 0.21
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (49 bp):
TTTTATTACATATTATTTTAAATATTTTACATATTATATATTTTAAGTT
Found at i:65640653 original size:24 final size:23
Alignment explanation
Indices: 65640570--65640755 Score: 78
Period size: 24 Copynumber: 7.5 Consensus size: 23
65640560 TTTTATTACA
*
65640570 TATTATTTTAAATTATTTTACATAT
1 TATTATTTTAAA--CTTTTACATAT
** *
65640595 TACTTATTTTAAGTTTTTTATATACAT
1 TA-TTATTTTAA-ACTTTTACAT--AT
65640622 TATTTATTTTAAACTTTTACATAT
1 TA-TTATTTTAAACTTTTACATAT
**
65640646 TATATATTTTAAGTTTATGTACATA-
1 TAT-TATTTTAAACTT-T-TACATAT
* *
65640671 -ATGTAGTTTAAACTATTTTATATAT
1 TAT-TATTTTAAAC--TTTTACATAT
*
65640696 TATTTCTTTTAAACCTTTT--ATAT
1 TA-TTATTTTAAA-CTTTTACATAT
65640719 TAGTTATTTTAAACCGTTTTACAT-T
1 TA-TTATTTTAAA-C-TTTTACATAT
65640744 GT-TTATTTTAAA
1 -TATTATTTTAAA
65640756 TATTTTTTGT
Statistics
Matches: 126, Mismatches: 18, Indels: 35
0.70 0.10 0.20
Matches are distributed among these distances:
23 18 0.14
24 42 0.33
25 16 0.13
26 35 0.28
27 15 0.12
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTATTTTAAACTTTTACATAT
Found at i:65640728 original size:23 final size:24
Alignment explanation
Indices: 65640691--65640755 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
65640681 AACTATTTTA
* *
65640691 TATATTATTTCTTTTAAACC-TTT
1 TATATTAGTTATTTTAAACCGTTT
65640714 TATATTAGTTATTTTAAACCGTTT
1 TATATTAGTTATTTTAAACCGTTT
*
65640738 TACATT-GTTTATTTTAAA
1 TATATTAG-TTATTTTAAA
65640756 TATTTTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.57
Consensus pattern (24 bp):
TATATTAGTTATTTTAAACCGTTT
Found at i:65640808 original size:25 final size:26
Alignment explanation
Indices: 65640780--65640828 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
65640770 TTTTTAACTA
*
65640780 TTTTATAT-ATTATTCACTTTAAATT
1 TTTTATATAAATATTCACTTTAAATT
*
65640805 TTTTATATAAATATTCATTTTAAA
1 TTTTATATAAATATTCACTTTAAA
65640829 CTGTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTTATATAAATATTCACTTTAAATT
Found at i:65641098 original size:18 final size:17
Alignment explanation
Indices: 65641037--65641103 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
65641027 TTCTTTATAC
*
65641037 ATTATTTATTTTTTTTAT
1 ATTATTTA-TTTTATTAT
* *
65641055 ATTATTTATGTTA-AACT
1 ATTATTTATTTTATTA-T
*
65641072 TTTATTTTATTTTATGTAT
1 ATTA-TTTATTTTAT-TAT
65641091 ATTATTTATTTTA
1 ATTATTTATTTTA
65641104 AATTTCCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
16 1 0.03
17 7 0.18
18 25 0.66
19 4 0.11
20 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTATTTATTTTATTAT
Found at i:65641187 original size:25 final size:24
Alignment explanation
Indices: 65641137--65641196 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
65641127 TTTTAGACTT
*
65641137 TTTATTTTAAATTGTTTTGTATTA
1 TTTATTTTAAATTGCTTTGTATTA
*
65641161 TTTACTTTAAATTGCTTT-TATGGTA
1 TTTATTTTAAATTGCTTTGTAT--TA
65641186 TTTATTTTAAA
1 TTTATTTTAAA
65641197 CCTTTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.10
24 16 0.52
25 12 0.39
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (24 bp):
TTTATTTTAAATTGCTTTGTATTA
Found at i:65644192 original size:57 final size:56
Alignment explanation
Indices: 65644130--65644287 Score: 152
Period size: 57 Copynumber: 2.9 Consensus size: 56
65644120 TTTTTATAGT
* *
65644130 ATTATATATTATGATTT-TT-AATTCATA-TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTGAATT-ATATTAATAATAATTATATTAA-AATATGATTAA
* *
65644187 ATTATATATTATTTTATTGAATTATATTTAATAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTATTGAATTATA-TTAATAATAATTATATTAAAATATGATTAA
* *
65644244 ATTATTTATTATTTAATT--ATT-T-TTAATAATAATCT-TATTAAAAT
1 ATTATATATTATTTTATTGAATTATATTAATAATAAT-TATATTAAAAT
65644288 TTAATAACAA
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
52 19 0.21
53 1 0.01
54 1 0.01
55 6 0.07
56 5 0.06
57 40 0.45
58 17 0.19
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (56 bp):
ATTATATATTATTTTATTGAATTATATTAATAATAATTATATTAAAATATGATTAA
Found at i:65644475 original size:16 final size:16
Alignment explanation
Indices: 65644449--65644503 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
65644439 TGAATTACTA
*
65644449 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
65644465 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
65644481 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
65644497 ATTACAG
1 ATTACAG
65644504 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:65650002 original size:18 final size:18
Alignment explanation
Indices: 65649979--65650020 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
65649969 TATAAGTTAA
65649979 TGTGAAGTTAAGAAAAAT
1 TGTGAAGTTAAGAAAAAT
65649997 TGTGAAGTTAAGAAAAAT
1 TGTGAAGTTAAGAAAAAT
*
65650015 TTTGAA
1 TGTGAA
65650021 ATAGTGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (18 bp):
TGTGAAGTTAAGAAAAAT
Found at i:65651987 original size:13 final size:13
Alignment explanation
Indices: 65651969--65651993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65651959 TAGCTTCGGA
65651969 TACACTTATCTGC
1 TACACTTATCTGC
65651982 TACACTTATCTG
1 TACACTTATCTG
65651994 ATCAAGGACT
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:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (13 bp):
TACACTTATCTGC
Found at i:65652016 original size:63 final size:63
Alignment explanation
Indices: 65651917--65652043 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 63
65651907 GATAGCTTCG
65651917 GCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATAGCTTCGGATACACTTATCT
1 GCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATAGCTTCGGATACACTTATCT
* * * * *
65651980 GCTACACTTATCTGATCAAGGACTAGTGAAAGTGATAAGTGATAGCTTCGGCTACATTTATCT
1 GCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATAGCTTCGGATACACTTATCT
65652043 G
1 G
65652044 ATCAAGGACA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (63 bp):
GCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATAGCTTCGGATACACTTATCT
Found at i:65652083 original size:51 final size:50
Alignment explanation
Indices: 65651980--65652085 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 50
65651970 ACACTTATCT
* * *
65651980 GCTACACTTATCTGATCAAGGACTAGTGAAAGTGATAAGTGATAGCTTCG
1 GCTACACTTATCTGATCAAGGACAAATGAAAGTGAAAAGTGATAGCTTCG
* *
65652030 GCTACATTTATCTGATCAAGGACAAATGACAAGTGAAAAGTGGTAGCTTCG
1 GCTACACTTATCTGATCAAGGACAAATGA-AAGTGAAAAGTGATAGCTTCG
65652081 GCTAC
1 GCTAC
65652086 CTGATCAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 26 0.52
51 24 0.48
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (50 bp):
GCTACACTTATCTGATCAAGGACAAATGAAAGTGAAAAGTGATAGCTTCG
Found at i:65652101 original size:31 final size:31
Alignment explanation
Indices: 65652061--65652209 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
65652051 ACAAATGACA
65652061 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
65652092 AATGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
65652123 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
65652154 AGTGGAAAA-TGGTAGCTCCGGCTACCTGATC
1 AGT-GAAAAGTGGTAGCTTCGGCTACCTGATC
*
65652185 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
65652210 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 4 0.04
31 98 0.92
32 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:65652398 original size:56 final size:56
Alignment explanation
Indices: 65652309--65652421 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
65652299 GCATCAGTGA
* * *
65652309 GATATGTGATTCGTGTAAGACCATAGCTGGGCTACGGCATCGATATGTG-ATATGT
1 GATATGTGATGCGTGTAAGACCATAGCTAGGCTACGGCATCGATATATGAATATGT
*
65652364 GATATGTGACTGCGTGTAAGACCATAGCTAGGCTATGGCATCGATATATGAATATGT
1 GATATGTGA-TGCGTGTAAGACCATAGCTAGGCTACGGCATCGATATATGAATATGT
65652421 G
1 G
65652422 TAAGACCATA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 9 0.17
56 36 0.69
57 7 0.13
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (56 bp):
GATATGTGATGCGTGTAAGACCATAGCTAGGCTACGGCATCGATATATGAATATGT
Found at i:65652423 original size:42 final size:42
Alignment explanation
Indices: 65652377--65652491 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 42
65652367 ATGTGACTGC
*
65652377 GTGTAAGACCATAGCTAGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAG-TAGGCTATGGCATCGATTATATGAAGAT
* * *
65652419 GTGTAAGACCATAGTTGGGGTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAG-TAGGCTATGGCATCGATTATATGAAGAT
* *
65652461 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTAG-GCTATGGCATCGA
65652492 GAAAATGAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 3 0.05
42 58 0.94
43 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGTAGGCTATGGCATCGATTATATGAAGAT
Found at i:65655282 original size:56 final size:55
Alignment explanation
Indices: 65655198--65655468 Score: 240
Period size: 56 Copynumber: 4.9 Consensus size: 55
65655188 CACGAAAGTT
* * * * * * * *
65655198 AAGAATAGCTTTTTTGGCAAACTATGAAAAGAATAACCTTTTTGGTAAACTTTGAA
1 AAGAATAGCCTTTGTGGCGAACTTTGAAAAGAAT-AGCTTTGTGGCAAACTCTGAA
* * * *
65655254 AAGAATAGCTTTTGTGGTGAACTTTGAAAAGAATAGCTTTTATGGCAAACTCTAAA
1 AAGAATAGCCTTTGTGGCGAACTTTGAAAAGAATAGC-TTTGTGGCAAACTCTGAA
* * * *
65655310 AAGAATAGACTGTGTGGCGAACTATT-AAAATAATAGGATTTGTGGCAAACTCTGAA
1 AAGAATAGCCTTTGTGGCGAACT-TTGAAAAGAATA-GCTTTGTGGCAAACTCTGAA
* * * * **
65655366 AAGAATAACCTTTATGGCGAAATTTGAAAAGAATAGCTTGTGTAGTGAACTCTGAA
1 AAGAATAGCCTTTGTGGCGAACTTTGAAAAGAATAGCTT-TGTGGCAAACTCTGAA
* * * *
65655422 AAGAACAGCCTTTGTGGCGAACTCTGAAAGGGAT-GCCTTTGTGGCAA
1 AAGAATAGCCTTTGTGGCGAACTTTGAAAAGAATAG-CTTTGTGGCAA
65655469 GTTTTACATG
Statistics
Matches: 172, Mismatches: 37, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
55 13 0.08
56 156 0.91
57 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (55 bp):
AAGAATAGCCTTTGTGGCGAACTTTGAAAAGAATAGCTTTGTGGCAAACTCTGAA
Found at i:65655345 original size:84 final size:83
Alignment explanation
Indices: 65655198--65655450 Score: 251
Period size: 84 Copynumber: 3.0 Consensus size: 83
65655188 CACGAAAGTT
* * * *
65655198 AAGAATAGCTTTTTTGGCAAACTATGAAAAGAATA-ACCTTTTTGGTAAACTTTGAAAAGAATAG
1 AAGAATAGCTTTTATGGCAAACTATGAAAAGAATAGA-CTGTGTGGTGAACTTT-AAAAGAATAG
* * *
65655262 CTTTTGTGGTGAACTTTGAA
64 CATTTGTGGCGAACTCTGAA
* * * * *
65655282 AAGAATAGCTTTTATGGCAAACTCTAAAAAGAATAGACTGTGTGGCGAACTATTAAAATAATAGG
1 AAGAATAGCTTTTATGGCAAACTATGAAAAGAATAGACTGTGTGGTGAACT-TTAAAAGAATAGC
*
65655347 ATTTGTGGCAAACTCTGAA
65 ATTTGTGGCGAACTCTGAA
* * * * * *
65655366 AAGAATAACCTTTATGGCGAAA-TTTGAAAAGAATAG-CTTGTGTAGTGAACTCTGAAAAGAACA
1 AAGAATAGCTTTTATGGC-AAACTATGAAAAGAATAGAC-TGTGTGGTGAACT-TTAAAAGAATA
*
65655429 GCCTTTGTGGCGAACTCTGAA
63 GCATTTGTGGCGAACTCTGAA
65655450 A
1 A
65655451 GGGATGCCTT
Statistics
Matches: 139, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
83 1 0.01
84 132 0.95
85 6 0.04
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (83 bp):
AAGAATAGCTTTTATGGCAAACTATGAAAAGAATAGACTGTGTGGTGAACTTTAAAAGAATAGCA
TTTGTGGCGAACTCTGAA
Found at i:65655421 original size:28 final size:27
Alignment explanation
Indices: 65655198--65655450 Score: 191
Period size: 28 Copynumber: 9.0 Consensus size: 27
65655188 CACGAAAGTT
* * *
65655198 AAGAATAGCTTTTTTGGCAAACTATGAA
1 AAGAATAGC-TTTGTGGCGAACTCTGAA
* * ** *
65655226 AAGAATAACCTTTTTGGTAAACTTTGAA
1 AAGAAT-AGCTTTGTGGCGAACTCTGAA
* *
65655254 AAGAATAGCTTTTGTGGTGAACTTTGAA
1 AAGAATAGC-TTTGTGGCGAACTCTGAA
* * *
65655282 AAGAATAGCTTTTATGGCAAACTCTAAA
1 AAGAATAGC-TTTGTGGCGAACTCTGAA
* * *
65655310 AAGAATAGACTGTGTGGCGAACTATTAA
1 AAGAATAG-CTTTGTGGCGAACTCTGAA
* * *
65655338 AATAATAGGATTTGTGGCAAACTCTGAA
1 AAGAATA-GCTTTGTGGCGAACTCTGAA
* * * *
65655366 AAGAATAACCTTTATGGCGAAATTTGAA
1 AAGAAT-AGCTTTGTGGCGAACTCTGAA
* *
65655394 AAGAATAGCTTGTGTAGTGAACTCTGAA
1 AAGAATAGCTT-TGTGGCGAACTCTGAA
*
65655422 AAGAACAGCCTTTGTGGCGAACTCTGAA
1 AAGAATAG-CTTTGTGGCGAACTCTGAA
65655450 A
1 A
65655451 GGGATGCCTT
Statistics
Matches: 180, Mismatches: 38, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
27 6 0.03
28 166 0.92
29 8 0.04
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (27 bp):
AAGAATAGCTTTGTGGCGAACTCTGAA
Found at i:65655488 original size:27 final size:27
Alignment explanation
Indices: 65655429--65655528 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
65655419 GAAAAGAACA
* * * *
65655429 GCCTTTGTGGCGAACTCTGAAAGGGAT-
1 GCCTTTGTGGC-AAGTTTTAAATGGATC
* *
65655456 GCCTTTGTGGCAAGTTTTACATGGCTC
1 GCCTTTGTGGCAAGTTTTAAATGGATC
* *
65655483 GGCTTTGTGGCAAATTTTAAATGGATC
1 GCCTTTGTGGCAAGTTTTAAATGGATC
*
65655510 GCCTTTGTGGCATGTTTTA
1 GCCTTTGTGGCAAGTTTTA
65655529 TCTAATTGTT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
26 9 0.15
27 50 0.85
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (27 bp):
GCCTTTGTGGCAAGTTTTAAATGGATC
Found at i:65658218 original size:42 final size:42
Alignment explanation
Indices: 65658159--65658281 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
65658149 TGAGTTTCTT
* *
65658159 TTTAACCCTAATGGGTTTCCGTTTTGCTCTTTTGAGC-TTCAG
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTC-G
* * *
65658201 TTTAACCCTTATGGGTTTCCATTCAGCTCTTATGAGCTTTCG
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTCG
* * * * *
65658243 TTCAACCCTCACGGGTTTCCGTTTAGCACTTATGTGCTT
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTT
65658282 CTGTGTAGCC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 65 0.96
43 3 0.04
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.42
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTCG
Found at i:65662406 original size:46 final size:46
Alignment explanation
Indices: 65662303--65662395 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
65662293 AAGAAAGAGA
65662303 TAATTATTTTTTGCAAATTGTTTATACGGCATTTTCTACAGAAGAC
1 TAATTATTTTTTGCAAATTGTTTATACGGCATTTTCTACAGAAGAC
65662349 TAATTATTTTTTGCAAATTGTTTATACGGCATTTTCTACAGAAGAC
1 TAATTATTTTTTGCAAATTGTTTATACGGCATTTTCTACAGAAGAC
65662395 T
1 T
65662396 TGTTCTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (46 bp):
TAATTATTTTTTGCAAATTGTTTATACGGCATTTTCTACAGAAGAC
Found at i:65663386 original size:15 final size:14
Alignment explanation
Indices: 65663354--65663397 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
65663344 ATTTAGTATC
*
65663354 AAATTTTACTATTA
1 AAATATTACTATTA
65663368 AAATATTACTATATA
1 AAATATTACTAT-TA
* *
65663383 AAATAATAATATTA
1 AAATATTACTATTA
65663397 A
1 A
65663398 GACAATAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATTACTATTA
Found at i:65664640 original size:201 final size:199
Alignment explanation
Indices: 65664294--65665068 Score: 756
Period size: 201 Copynumber: 3.9 Consensus size: 199
65664284 GGAGGAAGTT
* * * * *
65664294 GAGTTCCTAATATCCCTTTCTTTACCACCACAATAATCTGAAACATTTGGTGTTGAAATTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * *
65664359 TTCAGAGCAACTTGATGCAAGGGTCACCGGACTTGTCATGTTTCTCATATCCAATTCATCTCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCA-CTGACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
* *
65664424 CAACA-TTGATGGGTTCTGGAGATGGGGAAAAGGAGTTGCCGATATCCATTTCTTTAACAACGT-
130 CAACATTTG-TGGGTTCTGGAGATGAGGAAAAGGAGTT-CCAATATCCATTTCTTTAACAA-GTG
*
65664487 AGGGCATG
192 AGCGCATG
**
65664495 GAGTTCCT-ACAATCCATTTCTTTAACACCAGAATAATCCAAAACATTTGGTGTTGAACTTAAAG
1 GAGTTCCTAAC-ATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAG
**
65664559 CTTCAGAGCAGCTTGATGCAAGGGTCACTGAACTAGTCATGTTTCTTGCATCCAATTCATCCCTC
65 CTTCAGAGCAGCTTGATGCAAGGGTCACTG-ACTAGTCATGTTTCTTATATCCAATTCATCCCTC
* *
65664624 GCAACATTTGTGGGTTCTGGAGATGAGGAAATGGAGTTCCCAATATCCATTTCTTTAA-AAGTGG
129 ACAACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTT-CCAATATCCATTTCTTTAACAAGT-G
*
65664688 AGCGCATT
192 AGCGCATG
** * * * *
65664696 GAGTTCCTAACATCCACCTCTTTAACACAAGAATAATATGAAGCATTTGATGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * *
65664761 TTCATAGCAGCTTGCTGCAAGGGTCACTTGACTAATCCTGTTTCTTATATCTAATTCATCCCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCAC-TGACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
** * *
65664826 CAACATTCATGGGTTCTGGAGACGAGGAAATA-GAGTTCACAATATCCATTTCTTGAAC-----A
130 CAACATTTGTGGGTTCTGGAGATGAGGAAA-AGGAGTTC-CAATATCCATTTCTTTAACAAGTGA
65664885 -C-CA--
193 GCGCATG
* **** ** * *
65664888 GAG---ATAATGGACATTTCTTCGACACCAGAATAATCCGAAATATTTGGTGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * * * ** * *
65664950 TCCACAGAAACTTAATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCCCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCACT-GACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
* * * ** * * *
65665015 TAACATCTATCAGTTCAGGAGATGAGGAGATGGAGTTCCTAATATCCATTTCTT
130 CAACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTTCC-AATATCCATTTCTT
65665069 CTACACCAGA
Statistics
Matches: 482, Mismatches: 79, Indels: 38
0.80 0.13 0.06
Matches are distributed among these distances:
188 2 0.00
189 136 0.28
192 3 0.01
194 2 0.00
195 1 0.00
196 1 0.00
199 2 0.00
200 6 0.01
201 322 0.67
202 7 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (199 bp):
GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
TTCAGAGCAGCTTGATGCAAGGGTCACTGACTAGTCATGTTTCTTATATCCAATTCATCCCTCAC
AACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTTCCAATATCCATTTCTTTAACAAGTGAGCG
CATG
Found at i:65665050 original size:390 final size:395
Alignment explanation
Indices: 65664292--65665068 Score: 904
Period size: 402 Copynumber: 2.0 Consensus size: 395
65664282 GGGGAGGAAG
* * * * * *
65664292 TTGAGTTCCTAATATCCCTTTCTTTACCACCACAATAATCTGAAACATTTGGTGTTGAAATTAAA
1 TTGAGTTCCTAACATCCCTCTCTTTAACACAACAATAATATGAAACATTTGATGTTGAAATTAAA
** *
65664357 GCTTCAGAGCAACTTGATGCAAGGGTCACCGGACTTGTCATGTTTCTCATATCCAATTCATCTCT
66 GCTTCAGAGCAACTTGATGCAAGGGTCACCGGACTAATCATGTTTCTCATATCCAATTCATCCCT
* * * * *
65664422 CACAACATTGATGGGTTCTGGAGATGGGGAAAAGGAGTTGCCGATATCCATTTCTTTAACAACGT
131 CACAACATTCATGGGTTCTGGAGACGAGGAAAAGGAGTTGCCAATATCCATTTCTTGAACAAC--
* ** *
65664487 AGGGCATGGAGTTCCTACAATCCATTTCTTTAACACCAGAATAATCCAAAACATTTGGTGTTGAA
194 ---GCA-GGAGATAATACAA-CCATTTCTTCAACACCAGAATAATCCAAAACATTTGGTGTTGAA
* * * * * **
65664552 CTTAAAGCTTCAGAGCAGCTTGATGCAAGGGTCACTGAACTAGTCATGTTTCTTGCATCCAATTC
254 CTTAAAGCTCCACAGAAACTTAATGCAAGGGTCACTGAACTAGTCATGTTTCTCACATCCAATTC
* * * ** *
65664617 ATCCCTCGCAACATTTGTGGGTTCTGGAGATGAGGAAATGGAGTTCCCAATATCCATTTCTTTAA
319 ATCCCTCACAACATCTATCAGTTCAGGAGATGAGGAAATGGAGTTCCCAATATCCATTTCTTTAA
65664682 AAGTGGAGCGCA
384 AAGTGGAGCGCA
* * *
65664694 TTGAGTTCCTAACATCCAC-CTCTTTAACACAAGAATAATATGAAGCATTTGATGTTGAACTTAA
1 TTGAGTTCCTAACATCC-CTCTCTTTAACACAACAATAATATGAAACATTTGATGTTGAAATTAA
* * * ** * * *
65664758 AGCTTCATAGCAGCTTGCTGCAAGGGTCACTTGACTAATCCTGTTTCTTATATCTAATTCATCCC
65 AGCTTCAGAGCAACTTGATGCAAGGGTCACCGGACTAATCATGTTTCTCATATCCAATTCATCCC
65664823 TCACAACATTCATGGGTTCTGGAGACGAGGAAATA-GAGTT-CACAATATCCATTTCTTGAAC-A
130 TCACAACATTCATGGGTTCTGGAGACGAGGAAA-AGGAGTTGC-CAATATCCATTTCTTGAACAA
** * * *
65664885 C-CA-GAGATAAT-GGA-CATTTCTTCGACACCAGAATAATCCGAAATATTTGGTGTTGAACTTA
193 CGCAGGAGATAATACAACCATTTCTTCAACACCAGAATAATCCAAAACATTTGGTGTTGAACTTA
* ** * * *
65664946 AAGCTCCACAGAAACTTAATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCC
258 AAGCTCCACAGAAACTTAATGCAAGGGTCACTGAACTAGTCATGTTTCTCACATCCAATTCATCC
* * *
65665011 CTCATAACATCTATCAGTTCAGGAGATGAGGAGATGGAGTTCCTAATATCCATTTCTT
323 CTCACAACATCTATCAGTTCAGGAGATGAGGAAATGGAGTTCCCAATATCCATTTCTT
65665069 CTACACCAGA
Statistics
Matches: 316, Mismatches: 56, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
390 144 0.46
392 1 0.00
393 5 0.02
395 2 0.01
401 3 0.01
402 159 0.50
403 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (395 bp):
TTGAGTTCCTAACATCCCTCTCTTTAACACAACAATAATATGAAACATTTGATGTTGAAATTAAA
GCTTCAGAGCAACTTGATGCAAGGGTCACCGGACTAATCATGTTTCTCATATCCAATTCATCCCT
CACAACATTCATGGGTTCTGGAGACGAGGAAAAGGAGTTGCCAATATCCATTTCTTGAACAACGC
AGGAGATAATACAACCATTTCTTCAACACCAGAATAATCCAAAACATTTGGTGTTGAACTTAAAG
CTCCACAGAAACTTAATGCAAGGGTCACTGAACTAGTCATGTTTCTCACATCCAATTCATCCCTC
ACAACATCTATCAGTTCAGGAGATGAGGAAATGGAGTTCCCAATATCCATTTCTTTAAAAGTGGA
GCGCA
Found at i:65665221 original size:162 final size:161
Alignment explanation
Indices: 65664899--65665240 Score: 406
Period size: 162 Copynumber: 2.1 Consensus size: 161
65664889 AGATAATGGA
* * *
65664899 CATTTCTTCGACACCAGAATAATCCGAAATATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTA
1 CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAACTTA
* *
65664964 ATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCCCTCATAACATCTATCAGT
66 ATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCCTCATAACATCTATCAGT
* *
65665029 TCAGGAGATGAGGAGATGGAGTTCCTAATATC
131 TCAGGAGATGAGAAGA-GGAGTTACTAATATC
* * * * *
65665061 CATTTCTTCTACACCAGAATAATCTGAAACATTCGGTGTTGAACTTAAAGCTTCAGA-AAATTTT
1 CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAA-CTT
* * * *
65665125 GATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAGTTCATCCCTTGC-T-TCATTTA-C
65 AATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCC-T-CATAACATCTATC
** *
65665187 GAGTTTTGGGGATGAAGAAGCA-GAGTTACTAATATC
128 -AGTTCAGGAGATG-AGAAG-AGGAGTTACTAATATC
*
65665223 CATTTCTTCAACAGCAGA
1 CATTTCTTCAACACCAGA
65665241 GCAAATAGAG
Statistics
Matches: 154, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
161 4 0.03
162 142 0.92
163 6 0.04
164 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (161 bp):
CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAACTTA
ATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCCTCATAACATCTATCAGT
TCAGGAGATGAGAAGAGGAGTTACTAATATC
Found at i:65665455 original size:201 final size:201
Alignment explanation
Indices: 65665044--65665528 Score: 492
Period size: 201 Copynumber: 2.4 Consensus size: 201
65665034 AGATGAGGAG
* * * *
65665044 ATGGAGTTCCTAATATCCATTTCTTCTACACCAGAATAATCTGAAACATTCGGTGTTGAACTTAA
1 ATGGAGTTCCTAACATCCATTTCTCCGACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAA
* * *** * * * * *
65665109 AGCTTCAGA-AAATTTTGATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAGTTCATCC
66 AGCTTCAGAGCAA-CTTGACACAAGGGTCACTGGACTAGTCATGGTTCTCATATACAATACATCC
** * * * ** * * * * * *
65665173 CTTGCTTCATTTACGAGTTTTGGGGATGAAGAAGCAGAGTTACTAATATCCATTTCTTCAACAGC
130 CTCACATCATCTACAAGTCCTCGAGATGAAGAAACACAGTCACTAATATCCATTTCTTCAACACC
65665238 AGAGCAA
195 AGAGCAA
* * * *
65665245 ATAGAGTTCCTAACATCCATTTCTCCGACACCAGAATAATCCGAAACATTTGGTGCTGAGCTTAA
1 ATGGAGTTCCTAACATCCATTTCTCCGACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAA
*
65665310 AGCTTCAGAGCAACTTGACACAAGGGTCACTGGGCTAGTCATGGTTCTCATA-ACTAATACATCC
66 AGCTTCAGAGCAACTTGACACAAGGGTCACTGGACTAGTCATGGTTCTCATATAC-AATACATCC
* * * * *
65665374 CTCACATCATCTATAAGTCCTCGAGATGAGGAAACACAG-CACGTAGTATCCGTTTCTTTAACAC
130 CTCACATCATCTACAAGTCCTCGAGATGAAGAAACACAGTCAC-TAATATCCATTTCTTCAACAC
**
65665438 CAGAGGGA
194 CAGAGCAA
* * * * * *
65665446 ATGGAGTTCCTCACATCCATTTC-CGTGAGACCAGAATAATCTAAAACATTTGATGTTGAACTTG
1 ATGGAGTTCCTAACATCCATTTCTC-CGACACCAGAATAATCTGAAACATTTGGTGTTGAACTTA
*
65665510 AAGCTTCAGTGCAACTTGA
65 AAGCTTCAGAGCAACTTGA
65665529 TGTAAGAGTC
Statistics
Matches: 230, Mismatches: 50, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
200 5 0.02
201 223 0.97
202 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (201 bp):
ATGGAGTTCCTAACATCCATTTCTCCGACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAA
AGCTTCAGAGCAACTTGACACAAGGGTCACTGGACTAGTCATGGTTCTCATATACAATACATCCC
TCACATCATCTACAAGTCCTCGAGATGAAGAAACACAGTCACTAATATCCATTTCTTCAACACCA
GAGCAA
Found at i:65666147 original size:98 final size:100
Alignment explanation
Indices: 65665997--65666208 Score: 340
Period size: 98 Copynumber: 2.1 Consensus size: 100
65665987 CATCATTATT
*
65665997 GCTACTTGGCCTGC-AAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGGGCATTTTCC
1 GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
*
65666061 CCAATACTTAACCTGCTTATAGGGGCATCAACACT
66 CCAATACTTAACCTGCTTATAGGGGCATCAACACC
* *
65666096 TCTACTTGGCCTGCTAAA-GGG-TAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
1 GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
* *
65666159 CCCATACTTAACCTGCTTATAGGGGCATCATCACC
66 CCAATACTTAACCTGCTTATAGGGGCATCAACACC
*
65666194 GCTACTAGGCCTGCT
1 GCTACTTGGCCTGCT
65666209 TATAGGAGCA
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
98 85 0.82
99 16 0.15
100 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (100 bp):
GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
CCAATACTTAACCTGCTTATAGGGGCATCAACACC
Found at i:65666212 original size:33 final size:33
Alignment explanation
Indices: 65666170--65666290 Score: 115
Period size: 33 Copynumber: 3.7 Consensus size: 33
65666160 CCATACTTAA
*
65666170 CCTGCTTATAGGGGCATCATCACC-GCTACTAGG
1 CCTGCTTATAGGAGCATCATC-CCAGCTACTAGG
*
65666203 CCTGCTTATAGGAGCATCATCCCAGGTACTTGAGG
1 CCTGCTTATAGGAGCATCATCCCAGCTAC-T-AGG
* * *
65666238 --TGCTCACAGGGGCATCATCCCTA-CTACTAGG
1 CCTGCTTATAGGAGCATCATCCC-AGCTACTAGG
* *
65666269 ACTACTTATAGGAGCATCATCC
1 CCTGCTTATAGGAGCATCATCC
65666291 GTTCTACTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
31 3 0.04
32 3 0.04
33 61 0.85
34 2 0.03
35 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (33 bp):
CCTGCTTATAGGAGCATCATCCCAGCTACTAGG
Found at i:65666233 original size:66 final size:66
Alignment explanation
Indices: 65666163--65666290 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
65666153 TTTTCCCCCA
* * * * *
65666163 TACTTAACCTGCTTATAGGGGCATCATCACC-GCTACTAGGCCTGCTTATAGGAGCATCATCCCA
1 TACTTAACCTGCTCACAGGGGCATCATC-CCTACTACTAGGACTACTTATAGGAGCATCATCCCA
65666227 GG
65 GG
* **
65666229 TACTTGAGGTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCC
1 TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCC
65666291 GTTCTACTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 2 0.04
66 51 0.96
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (66 bp):
TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCCCAG
G
Found at i:65673396 original size:2 final size:2
Alignment explanation
Indices: 65673389--65673421 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
65673379 AAATCTATCT
65673389 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 T
65673422 TTTTAACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65674800 original size:17 final size:17
Alignment explanation
Indices: 65674778--65674817 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
65674768 TAAATTTAAT
*
65674778 TTTTAATTTACA-TATTA
1 TTTTAATTTA-ATTATGA
65674795 TTTTAATTTAATTATGA
1 TTTTAATTTAATTATGA
65674812 TTTTAA
1 TTTTAA
65674818 AAAAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTAATTTAATTATGA
Found at i:65676785 original size:27 final size:27
Alignment explanation
Indices: 65676754--65676842 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
65676744 ATAGGTGGTG
*
65676754 CCTATCTGGTAGGCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
* * *
65676781 CCTATCTGATAGGTGCCGCTAGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
*
65676808 CCTACCTGATAGGCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
*
65676835 CTTATCTG
1 CCTATCTG
65676843 TTAATAGTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.28
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACTGGTGACT
Found at i:65677032 original size:105 final size:102
Alignment explanation
Indices: 65676909--65677096 Score: 247
Period size: 105 Copynumber: 1.8 Consensus size: 102
65676899 TTATAGTTAT
* *
65676909 TTATCTTGTTAGTAATTTATGGGATTA-GAT-TATAAATTGTTAGTGTTTAGTTTAGGGT-TTGG
1 TTATCTTGTTAGTAATTTAT--GATTAGGATATATAAATTGTTACTGTTCAGTTTAGGGTGTT-G
*
65676971 TGATTTTTTAGTAATGTAATTTTAAAAAAAAATAATTTTATAG
63 T-AATTTTT--TAATGTAATTTTAAAAAAAAATAATTTTATAG
* * *
65677014 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTACTGTTCAGTTTAGTGTGTTGTAA
1 TTATCTTGTTAGTAATTTATGATTAGGATATATAAATTGTTACTGTTCAGTTTAGGGTGTTGTAA
65677079 TTTTTTAATGTAATTTTA
66 TTTTTTAATGTAATTTTA
65677097 TTTGATTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
102 13 0.18
103 5 0.07
104 8 0.11
105 46 0.62
106 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (102 bp):
TTATCTTGTTAGTAATTTATGATTAGGATATATAAATTGTTACTGTTCAGTTTAGGGTGTTGTAA
TTTTTTAATGTAATTTTAAAAAAAAATAATTTTATAG
Found at i:65679551 original size:5 final size:5
Alignment explanation
Indices: 65679541--65679582 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
65679531 TTCTTAACAG
*
65679541 AAAGA AAAGA AAAGA AAGGA AAAGA AAAGA GAAAG- AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA -AAAGA AAAGA AA
65679583 TTATTTAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.76
6 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:65679579 original size:15 final size:16
Alignment explanation
Indices: 65679539--65679582 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
65679529 TCTTCTTAAC
65679539 AGAAAGAAAAGAAAAG
1 AGAAAGAAAAGAAAAG
*
65679555 A-AAGGAAAAGAAAAG
1 AGAAAGAAAAGAAAAG
65679570 AGAAAG-AAAGAAA
1 AGAAAGAAAAGAAA
65679583 TTATTTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAAGAAAAG
Found at i:65680042 original size:22 final size:23
Alignment explanation
Indices: 65680000--65680043 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65679990 AATCTAGCTC
*
65680000 AAGTTCAAAATAGATTCAACTTA
1 AAGTTCAAAAAAGATTCAACTTA
*
65680023 AAGTTTAAAAAAG-TTCAACTT
1 AAGTTCAAAAAAGATTCAACTT
65680044 TATAACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (23 bp):
AAGTTCAAAAAAGATTCAACTTA
Found at i:65680660 original size:17 final size:17
Alignment explanation
Indices: 65680638--65680676 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
65680628 AACTAGTATA
65680638 ATAATAAACAATAATAT
1 ATAATAAACAATAATAT
* *
65680655 ATAATATATAATAATAT
1 ATAATAAACAATAATAT
*
65680672 GTAAT
1 ATAAT
65680677 GTTTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
ATAATAAACAATAATAT
Found at i:65680691 original size:14 final size:14
Alignment explanation
Indices: 65680666--65680697 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
65680656 TAATATATAA
*
65680666 TAATATGTAATGTT
1 TAATATATAATGTT
65680680 TAATATATAATGTT
1 TAATATATAATGTT
65680694 TAAT
1 TAAT
65680698 CATTGATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (14 bp):
TAATATATAATGTT
Found at i:65686299 original size:28 final size:28
Alignment explanation
Indices: 65686259--65686328 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
65686249 GCAATCAAAT
* *
65686259 ATGGTACTCAGTGTACGAAATACTGAGA
1 ATGGCACTTAGTGTACGAAATACTGAGA
* * *
65686287 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATACTGAGA
*
65686315 ATGACACTTAGTGT
1 ATGGCACTTAGTGT
65686329 GCAAAATATC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATACTGAGA
Found at i:65686329 original size:28 final size:28
Alignment explanation
Indices: 65686268--65686336 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
65686258 TATGGTACTC
* *
65686268 AGTGTACGAAATACTGAGAATGGCACTT
1 AGTGTGCGAAATACTGAGAATGACACTT
* *
65686296 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATACTGAGAATGACACTT
*
65686324 AGTGTGCAAAATA
1 AGTGTGCGAAATA
65686337 TCGAATGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (28 bp):
AGTGTGCGAAATACTGAGAATGACACTT
Found at i:65689064 original size:16 final size:16
Alignment explanation
Indices: 65689043--65689076 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
65689033 CTGAAAAAGC
65689043 TTGAGCCCAAGAAAAT
1 TTGAGCCCAAGAAAAT
**
65689059 TTGAGCCGGAGAAAAT
1 TTGAGCCCAAGAAAAT
65689075 TT
1 TT
65689077 AAGTCTGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (16 bp):
TTGAGCCCAAGAAAAT
Found at i:65699976 original size:32 final size:32
Alignment explanation
Indices: 65699912--65699975 Score: 105
Period size: 31 Copynumber: 2.0 Consensus size: 32
65699902 TTAGTTTATA
65699912 TGTATTGTTATTTTAAAAGTCGATATAATTTT
1 TGTATTGTTATTTTAAAAGTCGATATAATTTT
65699944 TGTA-TGTTATTTTAAAAG-CTGATATAATTTT
1 TGTATTGTTATTTTAAAAGTC-GATATAATTTT
65699975 T
1 T
65699976 TAACTTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 1 0.03
31 26 0.84
32 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (32 bp):
TGTATTGTTATTTTAAAAGTCGATATAATTTT
Found at i:65720516 original size:26 final size:28
Alignment explanation
Indices: 65720487--65720539 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
65720477 TTTATTTGTT
* *
65720487 TTTTGTTTTTTTTTTC-TGT-GTGTCTC
1 TTTTGTCTTGTTTTTCGTGTGGTGTCTC
65720513 TTTTGTCTTGTTTTTCGTGTGGTGTCT
1 TTTTGTCTTGTTTTTCGTGTGGTGTCT
65720540 TTCGCTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 3 0.13
28 6 0.26
ACGTcount: A:0.00, C:0.11, G:0.21, T:0.68
Consensus pattern (28 bp):
TTTTGTCTTGTTTTTCGTGTGGTGTCTC
Found at i:65720551 original size:25 final size:26
Alignment explanation
Indices: 65720497--65720551 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
65720487 TTTTGTTTTT
* *
65720497 TTTTTCTGTGTGTCTCTTTTGTCTTG
1 TTTTTCTGTGTGTCTCTTTCGTCTTA
*
65720523 TTTTTC-GTGTGGTGTCTTTCG-CTTA
1 TTTTTCTGTGT-GTCTCTTTCGTCTTA
65720548 TTTT
1 TTTT
65720552 ACTTATTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.02, C:0.15, G:0.20, T:0.64
Consensus pattern (26 bp):
TTTTTCTGTGTGTCTCTTTCGTCTTA
Found at i:65722210 original size:2 final size:2
Alignment explanation
Indices: 65722203--65722235 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
65722193 TTGAAAGGAA
65722203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65722236 AAAGAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65722828 original size:22 final size:22
Alignment explanation
Indices: 65722803--65722844 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
65722793 TCAATACATA
* *
65722803 CAAAAGCGGTGATTCGAACACC
1 CAAAAGCGGAGAATCGAACACC
*
65722825 CAAAATCGGAGAATCGAACA
1 CAAAAGCGGAGAATCGAACA
65722845 AACGAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (22 bp):
CAAAAGCGGAGAATCGAACACC
Found at i:65724267 original size:2 final size:2
Alignment explanation
Indices: 65724260--65724303 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
65724250 ACTCTTAAAC
* *
65724260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65724302 AT
1 AT
65724304 TCGAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:65724983 original size:3 final size:3
Alignment explanation
Indices: 65724905--65724967 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
65724895 TTAATTTTGA
* * * **
65724905 TAT TTT TAT TAT TAT TA- TAT TCAC TAT TATT TAT TGT TAT TGG TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT
65724951 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
65724968 ATATATGTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:65725090 original size:27 final size:26
Alignment explanation
Indices: 65725021--65725100 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
65725011 TACTTTACAT
* * *
65725021 TATTATATTTATTATTTATTTCTAACA
1 TATTATATTTAAT-TTTATTTATATCA
* *
65725048 TATTATTATTTTATTTTCTTTATATCA
1 TATTA-TATTTAATTTTATTTATATCA
*
65725075 TCATTATATTTAATTTGTGTTTATAT
1 T-ATTATATTTAATTT-TATTTATAT
65725101 ATTTTCTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (26 bp):
TATTATATTTAATTTTATTTATATCA
Found at i:65729907 original size:14 final size:13
Alignment explanation
Indices: 65729888--65729918 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
65729878 TATGCCTAAA
65729888 AAAAAGAAAGAAAG
1 AAAAAGAAA-AAAG
65729902 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
65729915 AAAA
1 AAAA
65729919 GATCAAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:65729914 original size:17 final size:17
Alignment explanation
Indices: 65729885--65729917 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65729875 TATTATGCCT
65729885 AAAAAAAAGAAAGAAAG
1 AAAAAAAAGAAAGAAAG
65729902 AAAAAGAAA-AAAGAAA
1 AAAAA-AAAGAAAGAAA
65729918 AGATCAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAGAAAG
Found at i:65730866 original size:73 final size:73
Alignment explanation
Indices: 65730777--65730925 Score: 253
Period size: 73 Copynumber: 2.0 Consensus size: 73
65730767 TTTATTTCTG
* *
65730777 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
65730842 TTTTTGTT
66 TTTTTGTT
* * *
65730850 TTTCAAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATGTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
65730915 TTTTTGTT
66 TTTTTGTT
65730923 TTT
1 TTT
65730926 TAATTTATGT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (73 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
TTTTTGTT
Found at i:65731030 original size:20 final size:20
Alignment explanation
Indices: 65730994--65731032 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65730984 CGTTGAGGCA
* *
65730994 TTTTCAATTTCTGTTTTTTT
1 TTTTCAATTTATATTTTTTT
65731014 TTTTCAATTTATATTTTTT
1 TTTTCAATTTATATTTTTT
65731033 AAAAAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTCAATTTATATTTTTTT
Found at i:65731348 original size:88 final size:88
Alignment explanation
Indices: 65730849--65731508 Score: 666
Period size: 88 Copynumber: 7.5 Consensus size: 88
65730839 CAATTTTTGT
* * * * * *
65730849 TTTTCAAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATGT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGCTATTT
* *
65730911 TCAATTTTTGTTTTTTAATTTATG
65 TCAATTTCTGTTTTTTAATTCATG
* * *
65730935 -TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGTTGAGGC-AT
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGA-GCTAT
* *
65730995 TTTCAATTTCTGTTTTTTTTTTTCAATTTATATT
63 TTTCAATTTCTG-----TTTTTT-AA-TT-CATG
* * ** * * * *
65731029 TTTTAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCATATG-TCGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCT-GAGCTATTT
** ** *
65731093 TCAAAATCTGCTTTTCAAATT-AAG
65 TCAATTTCTG-TTTTTTAATTCATG
* *
65731117 -TTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTT
65731181 CAATTTCTGTTTTTCTAATTCATG
66 CAATTTCTGTTTTT-TAATTCATG
*
65731205 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTT
*
65731270 CAATTTCTATTTTTTAATTCATG
66 CAATTTCTGTTTTTTAATTCATG
*
65731293 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTT
* * * *
65731358 CTATTTCTGTTTTTCAATTTATAT
66 CAATTTCTGTTTTTTAATTCAT-G
* *
65731382 TTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
1 TTTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTT
65731447 TCAATTTCTG-TTTTTAATGTC-TG
65 TCAATTTCTGTTTTTTAAT-TCATG
* * * **
65731470 -TTT-AAAGAGTCAATTCATATTCCGAGAAATGAGTTGAGC
1 TTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
65731509 TCAAGATCAC
Statistics
Matches: 489, Mismatches: 59, Indels: 52
0.81 0.10 0.09
Matches are distributed among these distances:
84 2 0.00
85 4 0.01
86 87 0.18
87 68 0.14
88 94 0.19
89 93 0.19
90 64 0.13
91 8 0.02
92 6 0.01
93 4 0.01
94 37 0.08
95 5 0.01
96 17 0.03
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTT
CAATTTCTGTTTTTTAATTCATG
Found at i:65731422 original size:267 final size:267
Alignment explanation
Indices: 65730835--65731508 Score: 786
Period size: 267 Copynumber: 2.5 Consensus size: 267
65730825 CGCTGAGGTA
* * * * * *
65730835 TTTTCAATTTTTGTTTTTCAAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-GCAC
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCAC
* * * *
65730899 --GCTGAGGTATGTTCAATTTTTGTTTTTTAATTTATGTTTCAAAAAATCAACTCATATTGCGAG
65 GTGCTGAGCTATTTTCAATTTCTGTTTTTTAATTCATGTTTCAAAAAATCAACTCATATTGCGAG
* *
65730962 AGGTGAGTTGAGCCTCAGGACACGTTGAGGCATTTTCAATTTCTGTTTTTTTTTTTCAATTTATA
130 AGGTGAGTTGAGCCTCAGGACACGTTGAGGCATTTTCAATTTC----TTATTTTTTCAATTTACA
* * *
65731027 TTTTTTAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCATATGTCGAGGTATT
191 TGTTTTAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGCTCACATGTCGAGGTATT
65731092 TTCAAAATCTGC
256 TTCAAAATCTGC
* * *
65731104 TTTTCAAATTA-A-GTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
65731167 TGCTGAGCTATTTTCAATTTCTGTTTTTCTAATTCATGTTTTC-AAAAATCAACTCATATTGCGA
66 TGCTGAGCTATTTTCAATTTCTGTTTTT-TAATTCATG-TTTCAAAAAATCAACTCATATTGCGA
* *
65731231 GAGGTGAGTTGAGCCT-TGGCTCACGTGCTGA-GCTATTTTCAATTTC-TATTTTTT-AA-TT-C
129 GAGGTGAGTTGAGCCTCAGG-ACACGT--TGAGGC-ATTTTCAATTTCTTATTTTTTCAATTTAC
* * ** *
65731290 ATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATG-CTGAGGTA
190 ATGTTTTAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGCTCACATGTC-GAGGTA
* ** *
65731354 TTTTCTATTTCTGT
254 TTTTCAAAATCTGC
*
65731368 TTTTCAATTTATATTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTCAATTTATATTTTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
* * * *
65731433 GTGCTGAGCTATTTTCAATTTCTG-TTTTTAATGTC-TGTTT-AAAGAGTCAATTCATATTCCGA
65 GTGCTGAGCTATTTTCAATTTCTGTTTTTTAAT-TCATGTTTCAAAAAATCAACTCATATTGCGA
**
65731495 GAAATGAGTTGAGC
129 GAGGTGAGTTGAGC
65731509 TCAAGATCAC
Statistics
Matches: 351, Mismatches: 39, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
263 1 0.00
264 106 0.30
265 9 0.03
266 17 0.05
267 112 0.32
269 35 0.10
270 50 0.14
271 6 0.02
272 15 0.04
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (267 bp):
TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
TGCTGAGCTATTTTCAATTTCTGTTTTTTAATTCATGTTTCAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCAGGACACGTTGAGGCATTTTCAATTTCTTATTTTTTCAATTTACATGTTT
TAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGCTCACATGTCGAGGTATTTTCAA
AATCTGC
Found at i:65731634 original size:44 final size:44
Alignment explanation
Indices: 65731570--65731672 Score: 188
Period size: 44 Copynumber: 2.3 Consensus size: 44
65731560 CAGATTTGGC
*
65731570 CTCCCTGAAGTTGCAGTGAAGCAGGTCAAAGTTGCAAGTCTTGT
1 CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
*
65731614 CTCCCTAAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
1 CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
65731658 CTCCCTGAAGTTGCA
1 CTCCCTGAAGTTGCA
65731673 GTAGAGCTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
Found at i:65733319 original size:3 final size:3
Alignment explanation
Indices: 65733241--65733303 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
65733231 TTAATTTTGA
* * * **
65733241 TAT TTT TAT TAT TAT TA- TAT TCAC TAT TATT TAT TGT TAT TGG TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT
65733287 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
65733304 ATATATGTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Done.