Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 177 of 230
Found at i:52919568 original size:9 final size:9
Alignment explanation
Indices: 52919526--52919571 Score: 51
Period size: 8 Copynumber: 5.1 Consensus size: 9
52919516 TTTTTAAACC
52919526 TTTAAAAT-
1 TTTAAAATA
52919534 TTTAAAAT-
1 TTTAAAATA
*
52919542 TTTAAAAAA
1 TTTAAAATA
52919551 TTTAAAAAATA
1 TTT--AAAATA
52919562 TTTAAAATA
1 TTTAAAATA
52919571 T
1 T
52919572 AAATATGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 15 0.45
9 10 0.30
11 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTAAAATA
Found at i:52921360 original size:16 final size:15
Alignment explanation
Indices: 52921339--52921368 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52921329 CAAACATGCT
52921339 TTAACACATTATCAAA
1 TTAACACATT-TCAAA
52921355 TTAACACATTTCAA
1 TTAACACATTTCAA
52921369 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAACACATTTCAAA
Found at i:52925462 original size:5 final size:5
Alignment explanation
Indices: 52925454--52925480 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
52925444 CTTTTTAACC
52925454 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
52925481 AAATAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:52927341 original size:21 final size:19
Alignment explanation
Indices: 52927309--52927350 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
52927299 ATTCATTTTC
52927309 TATTTATTGTAAATTGGAAAA
1 TATTTATTGTAAA-T-GAAAA
52927330 TATTT-TTGGTAAATGAAAA
1 TATTTATT-GTAAATGAAAA
52927349 TA
1 TA
52927351 GAAATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
TATTTATTGTAAATGAAAA
Found at i:52928376 original size:15 final size:15
Alignment explanation
Indices: 52928356--52928390 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
52928346 TATATATGTC
52928356 ACAATAATAAATACA
1 ACAATAATAAATACA
*
52928371 ACAATAATAAATATA
1 ACAATAATAAATACA
52928386 ACAAT
1 ACAAT
52928391 GGCATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:52928439 original size:23 final size:22
Alignment explanation
Indices: 52928407--52928449 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
52928397 GAAATAATGT
*
52928407 ATATAAATAAATAAATGAAACTA
1 ATATAAATAAAAAAAT-AAACTA
*
52928430 ATATACATAAAAAAATAAAC
1 ATATAAATAAAAAAATAAAC
52928450 AATGACATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (22 bp):
ATATAAATAAAAAAATAAACTA
Found at i:52928844 original size:23 final size:22
Alignment explanation
Indices: 52928810--52928853 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
52928800 ATACATGTAA
52928810 AATATATCAAAAATAATTAAAT
1 AATATATCAAAAATAATTAAAT
*
52928832 AATATTATCAAAATTAATTAAA
1 AATA-TATCAAAAATAATTAAA
52928854 AAAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATATCAAAAATAATTAAAT
Found at i:52930686 original size:2 final size:2
Alignment explanation
Indices: 52930644--52930669 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52930634 AGGTCCACCC
52930644 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
52930670 TAATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52930736 original size:15 final size:15
Alignment explanation
Indices: 52930685--52930737 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
52930675 TAATAAATAT
52930685 ATTTATATTATTTTTA
1 ATTTATA-TATTTTTA
*
52930701 ATTTA-ATATTTAATA
1 ATTTATATATTT-TTA
*
52930716 ATTTTATATATTTTTT
1 A-TTTATATATTTTTA
52930732 ATTTAT
1 ATTTAT
52930738 TAAATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 11 0.35
17 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:52930854 original size:16 final size:17
Alignment explanation
Indices: 52930822--52930854 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52930812 TGTTATAAAT
52930822 TTACATAATGCATAAAAA
1 TTACATAAT-CATAAAAA
52930840 TTACATAAT-ATAAAA
1 TTACATAATCATAAAA
52930855 CAAGCCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (17 bp):
TTACATAATCATAAAAA
Found at i:52931356 original size:31 final size:29
Alignment explanation
Indices: 52931287--52931367 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 29
52931277 AATAATAAAT
*
52931287 TATTTTATTAA-ATATAAATAATTAAATATG
1 TATTTTAATAATAT-TAAA-AATTAAATATG
*
52931317 TATGTTTAATAATATTAAAAATTATAATATT
1 TAT-TTTAATAATATTAAAAATTA-AATATG
* *
52931348 TGATTTTAATATTTTTAAAA
1 T-ATTTTAATAATATTAAAA
52931368 TTTTCAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
30 8 0.19
31 31 0.72
32 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TATTTTAATAATATTAAAAATTAAATATG
Found at i:52941828 original size:13 final size:14
Alignment explanation
Indices: 52941810--52941838 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
52941800 GATGCTTATG
52941810 TTTAATTCA-TGAT
1 TTTAATTCATTGAT
52941823 TTTAATTCATTGAT
1 TTTAATTCATTGAT
52941837 TT
1 TT
52941839 CATTGTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTAATTCATTGAT
Found at i:52949626 original size:16 final size:16
Alignment explanation
Indices: 52949605--52949635 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
52949595 CACATTAAAC
52949605 TTATATTAAAAAACAT
1 TTATATTAAAAAACAT
52949621 TTATATTAAAAAACA
1 TTATATTAAAAAACA
52949636 CTACCACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TTATATTAAAAAACAT
Found at i:52949666 original size:41 final size:38
Alignment explanation
Indices: 52949621--52949708 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 38
52949611 TAAAAAACAT
* *
52949621 TTATATTAAAAAACACTACCACAAATATAATAAATGTTTTA
1 TTATATTAAAAAA-A-TACAACAAATATAA-AAATATTTTA
*
52949662 TTATATT-AAAAAATACAATAAATATAAAAATATTTTA
1 TTATATTAAAAAAATACAACAAATATAAAAATATTTTA
*
52949699 TTGTATTAAA
1 TTATATTAAA
52949709 TATAATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 15 0.36
38 14 0.33
39 1 0.02
40 5 0.12
41 7 0.17
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (38 bp):
TTATATTAAAAAAATACAACAAATATAAAAATATTTTA
Found at i:52954550 original size:17 final size:17
Alignment explanation
Indices: 52954514--52954552 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
52954504 ATCATCATGC
*
52954514 TAAAATAAATTTTTTAT
1 TAAAATAAATTTTGTAT
52954531 TAAAATAATATTTTGT-T
1 TAAAATAA-ATTTTGTAT
52954548 TAAAA
1 TAAAA
52954553 GAATTCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TAAAATAAATTTTGTAT
Found at i:52954917 original size:13 final size:14
Alignment explanation
Indices: 52954892--52954928 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
52954882 TGATTTATGT
52954892 AAATATGTTGAAAA
1 AAATATGTTGAAAA
52954906 AAATAT-TTG-AAA
1 AAATATGTTGAAAA
*
52954918 AATTATGTTGA
1 AAATATGTTGA
52954929 TTTTCTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 8 0.40
13 6 0.30
14 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (14 bp):
AAATATGTTGAAAA
Found at i:52964769 original size:16 final size:17
Alignment explanation
Indices: 52964748--52964779 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
52964738 AAATATGCAA
52964748 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
52964764 TCACATAACTTCATAT
1 TCACATAACTTCATAT
52964780 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:52965039 original size:41 final size:42
Alignment explanation
Indices: 52964941--52965053 Score: 140
Period size: 41 Copynumber: 2.7 Consensus size: 42
52964931 GGCCCGTACA
* ** *
52964941 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACA-CAAATCAAATATCG
*
52964984 ATGCCACTGTCCCAGACAGGGTCTTACACAAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAATATCG
*
52965025 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACAGGGTCTTACAC
52965054 GTATACACAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 29 0.47
42 8 0.13
43 24 0.39
44 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAATATCG
Found at i:52965090 original size:43 final size:42
Alignment explanation
Indices: 52964941--52965097 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 42
52964931 GGCCCGTACA
*
52964941 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-ATCAC-ATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACAATAT
** *
52964982 CGATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAT-CA-AATACG
1 --ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAATA-T
* *
52965025 ATGCCAATGTCCCAGACATGGTCTTACACGTATACACAAGTAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAA-TAT
*
52965068 ATGCCAACGTCCCAAACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
52965098 AAAATACATA
Statistics
Matches: 92, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
41 26 0.28
42 10 0.11
43 53 0.58
44 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATAT
Found at i:52965091 original size:84 final size:83
Alignment explanation
Indices: 52964941--52965096 Score: 194
Period size: 84 Copynumber: 1.9 Consensus size: 83
52964931 GGCCCGTACA
* * *
52964941 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATC-ATGCCACTGTCCCAAACAGGGT
52965006 CTTACACAAATCAAATACG
65 CTTACACAAATCAAATACG
*
52965025 ATGCCAATGTCCCAGACATGGTCTTACACGT-ATACACAAGTAT-ATGCCAAC-GTCCCAAAC-G
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAT-CAC-A-TATCATGCC-ACTGTCCCAAACAG
52965086 TGGTCTTACAC
62 -GGTCTTACAC
52965097 GAAAATACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
83 3 0.05
84 54 0.86
85 3 0.05
86 3 0.05
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (83 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCATGCCACTGTCCCAAACAGGGTC
TTACACAAATCAAATACG
Found at i:52972204 original size:16 final size:17
Alignment explanation
Indices: 52972183--52972214 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
52972173 AAATATGCAA
52972183 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
52972199 TCACATAACTTCATAT
1 TCACATAACTTCATAT
52972215 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:52972526 original size:84 final size:84
Alignment explanation
Indices: 52972376--52972531 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 84
52972366 GGCCCGTACA
* * *
52972376 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAGGGT
52972441 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
*
52972460 ATGCCAATGTCCCAGACATGGTCTTACACGT-ATACACA-AGTCGATGCCAAC-GTCCCAAAC-G
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAT-CACATA-TCGATGCC-ACTGTCCCAAACAG
52972521 TGGTCTTACAC
63 -GGTCTTACAC
52972532 GAAAATACAT
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
83 4 0.06
84 58 0.91
85 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAGGGT
CTTACACAAATCAAATACG
Found at i:52972531 original size:43 final size:42
Alignment explanation
Indices: 52972376--52972532 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
52972366 GGCCCGTACA
*
52972376 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACA-ATCG
**
52972419 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAAT-CG
* *
52972460 ATGCCAATGTCCCAGACATGGTCTTACACGTATACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAA-TCG
*
52972503 ATGCCAACGTCCCAAACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
52972533 AAAATACATA
Statistics
Matches: 95, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 7 0.07
43 55 0.58
44 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATCG
Found at i:52974278 original size:15 final size:15
Alignment explanation
Indices: 52974258--52974293 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
52974248 TAAATATAAG
52974258 TATTTTGTTAAGCAA
1 TATTTTGTTAAGCAA
52974273 TATTTTGTTAAGCAA
1 TATTTTGTTAAGCAA
52974288 T-TTTTG
1 TATTTTG
52974294 ATGATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.53
Consensus pattern (15 bp):
TATTTTGTTAAGCAA
Found at i:52985022 original size:15 final size:15
Alignment explanation
Indices: 52985002--52985037 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
52984992 GCCCTTGTAG
*
52985002 TCGTTGGAAAAGTTA
1 TCGTTGGAAAAATTA
52985017 TCGTTGGAAAAATTA
1 TCGTTGGAAAAATTA
52985032 TCGTTG
1 TCGTTG
52985038 AAAGGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (15 bp):
TCGTTGGAAAAATTA
Found at i:52989726 original size:21 final size:22
Alignment explanation
Indices: 52989702--52989750 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
52989692 ACTAGATAAA
52989702 TTGTAGAAGTGG-AAAACATCG
1 TTGTAGAAGTGGAAAAACATCG
*
52989723 TTGTAAAAGTGGAAAAACATCG
1 TTGTAGAAGTGGAAAAACATCG
52989745 TTGTAG
1 TTGTAG
52989751 TGTTTGTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (22 bp):
TTGTAGAAGTGGAAAAACATCG
Found at i:52990102 original size:13 final size:13
Alignment explanation
Indices: 52990084--52990108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52990074 TTTTAATAAA
52990084 ATTTTAGGTTTGT
1 ATTTTAGGTTTGT
52990097 ATTTTAGGTTTG
1 ATTTTAGGTTTG
52990109 GGTTCGGTTT
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:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (13 bp):
ATTTTAGGTTTGT
Found at i:52996080 original size:11 final size:11
Alignment explanation
Indices: 52996050--52996082 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
52996040 ATTTTTCCTA
52996050 GGATGTGAATT
1 GGATGTGAATT
52996061 GGATG-GAATT
1 GGATGTGAATT
52996071 GGATGTGAATT
1 GGATGTGAATT
52996082 G
1 G
52996083 TATTAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.33
Consensus pattern (11 bp):
GGATGTGAATT
Found at i:52996536 original size:26 final size:26
Alignment explanation
Indices: 52996507--52996587 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 26
52996497 ATACCGCAGT
*
52996507 TCTTTGTGAGCGTC-TCG-TTATATGGC
1 TCTTTGTGAGCGTCAT-GATTA-AAGGC
* *
52996533 TCTTTGTAAGCTTCATGATTAAAGGC
1 TCTTTGTGAGCGTCATGATTAAAGGC
* * * *
52996559 TCTTTGTGAGCTTCCTAATTAATGGC
1 TCTTTGTGAGCGTCATGATTAAAGGC
52996585 TCT
1 TCT
52996588 CCGAAGCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 42 0.91
27 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (26 bp):
TCTTTGTGAGCGTCATGATTAAAGGC
Found at i:53003305 original size:26 final size:25
Alignment explanation
Indices: 53003264--53003417 Score: 136
Period size: 26 Copynumber: 6.1 Consensus size: 25
53003254 ATACCACAAT
53003264 TCTTTGTGAG-TGTCCCGTTATATGGC
1 TCTTTGTGAGCT-TCCCGTTA-ATGGC
*
53003290 TCTTTGTGAGCTTCCCGATTAAAGGC
1 TCTTTGTGAGCTTCCCG-TTAATGGC
**
53003316 TCTTTGTGAGCTTCTTGATTAATGGC
1 TCTTTGTGAGCTTCCCG-TTAATGGC
* * *
53003342 TCTTCG-AAGCTTCCCGATAATGGC
1 TCTTTGTGAGCTTCCCGTTAATGGC
** * *
53003366 TCGCT-TGAACTTCCCGATATATGGC
1 TCTTTGTGAGCTTCCCGTTA-ATGGC
*
53003391 TATTTG-GAGCTTCCCGTTAATGGC
1 TCTTTGTGAGCTTCCCGTTAATGGC
53003415 TCT
1 TCT
53003418 CTGAAGCTAC
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
24 27 0.26
25 25 0.24
26 47 0.46
27 4 0.04
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (25 bp):
TCTTTGTGAGCTTCCCGTTAATGGC
Found at i:53003365 original size:24 final size:24
Alignment explanation
Indices: 53003298--53003425 Score: 91
Period size: 24 Copynumber: 5.2 Consensus size: 24
53003288 GCTCTTTGTG
* * *
53003298 AGCTTCCCGATTAAAGGCTCTTTGTG
1 AGCTTCCCGA-TAATGGCTCTTCG-A
**
53003324 AGCTTCTTGATTAATGGCTCTTCGA
1 AGCTTCCCGA-TAATGGCTCTTCGA
53003349 AGCTTCCCGATAATGGCTCGCTT-GA
1 AGCTTCCCGATAATGGCT--CTTCGA
* * *
53003374 A-CTTCCCGATATATGGCTATTTGG
1 AGCTTCCCGATA-ATGGCTCTTCGA
*
53003398 AGCTTCCCGTTAATGGCTC-TCTGA
1 AGCTTCCCGATAATGGCTCTTC-GA
53003422 AGCT
1 AGCT
53003426 ACCTGTTATT
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
23 3 0.04
24 31 0.37
25 26 0.31
26 23 0.28
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (24 bp):
AGCTTCCCGATAATGGCTCTTCGA
Found at i:53003402 original size:49 final size:50
Alignment explanation
Indices: 53003276--53003416 Score: 142
Period size: 49 Copynumber: 2.8 Consensus size: 50
53003266 TTTGTGAGTG
* * ** *
53003276 TCCCGTTATATGGCTCTTTGTGAGCTTCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATATATGGCTCTTTG-GAGCTTCCCGA-TAATGGCTCGCTGTGAACT
** * *
53003328 TCTTGAT-TAATGGCTCTTCGAAGCTTCCCGATAATGGCTCGCT-TGAACT
1 TCCCGATAT-ATGGCTCTTTGGAGCTTCCCGATAATGGCTCGCTGTGAACT
* *
53003377 TCCCGATATATGGCTATTTGGAGCTTCCCGTTAATGGCTC
1 TCCCGATATATGGCTCTTTGGAGCTTCCCGATAATGGCTC
53003417 TCTGAAGCTA
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
49 37 0.51
50 10 0.14
51 11 0.15
52 14 0.19
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (50 bp):
TCCCGATATATGGCTCTTTGGAGCTTCCCGATAATGGCTCGCTGTGAACT
Found at i:53003415 original size:73 final size:72
Alignment explanation
Indices: 53003334--53003481 Score: 167
Period size: 73 Copynumber: 2.0 Consensus size: 72
53003324 AGCTTCTTGA
* *
53003334 TTAATGGCTCT-TCGAAGCTTCCCGATAATGGCTCGCTTGA-ACTTCCCGATATATGGCTATT-T
1 TTAATGGCTCTCT-GAAGCTACCCGATAATGGCTCGCATGATA-TTCCCGAT-TATGGCTATTAT
*
53003396 GGAGCTTCCCG
63 -GAGCTTACCG
* * * * *
53003407 TTAATGGCTCTCTGAAGCTACCTGTTATTGGTTCGCATGATATTCCCGATTATGGCTCTTATGAG
1 TTAATGGCTCTCTGAAGCTACCCGATAATGGCTCGCATGATATTCCCGATTATGGCTATTATGAG
53003472 CTTACCG
66 CTTACCG
53003479 TTA
1 TTA
53003482 GACAGCCCAG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
72 21 0.33
73 41 0.64
74 2 0.03
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (72 bp):
TTAATGGCTCTCTGAAGCTACCCGATAATGGCTCGCATGATATTCCCGATTATGGCTATTATGAG
CTTACCG
Found at i:53004277 original size:13 final size:13
Alignment explanation
Indices: 53004259--53004299 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
53004249 AAGTCTAGTA
53004259 TATATATTAAGTC
1 TATATATTAAGTC
53004272 TATATATTAAGTC
1 TATATATTAAGTC
53004285 TATATATTAAGTC
1 TATATATTAAGTC
53004298 TA
1 TA
53004300 GTATGCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
TATATATTAAGTC
Found at i:53020647 original size:32 final size:32
Alignment explanation
Indices: 53020601--53020673 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
53020591 TGCATGTGTG
53020601 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
* *
53020633 TAACACTTCATCTTCAAGTTTCTTCACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
53020665 TAACTCTTC
1 TAACTCTTC
53020674 TTAATTTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.23, C:0.30, G:0.03, T:0.44
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTCTCTTCACATTTC
Found at i:53022702 original size:28 final size:28
Alignment explanation
Indices: 53022558--53022702 Score: 168
Period size: 28 Copynumber: 5.2 Consensus size: 28
53022548 CTATTCAGTA
* *
53022558 ACAGT-ACAATGCGGGTCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
**
53022585 ACAACAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* * *
53022613 ACAGCAACAATGTGGGGCTTAGCCCAAA
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
53022641 ATAGTAACAATGTGGGTCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
53022669 ATAGTAACAATGTTGGCCTTAGCCCTAA-
1 ACAGTAACAATGTGGGCCTTAGCCC-AAT
53022697 ACAGTA
1 ACAGTA
53022703 TCAGTACCGT
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
27 3 0.03
28 97 0.95
29 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:53022834 original size:23 final size:24
Alignment explanation
Indices: 53022811--53022858 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
53022801 ACACATCAAT
*
53022811 ATCACAGCAACGCTGCCAGTAATAGA
1 ATCACAGCAAAGCTGCCAGTAAT--A
*
53022837 ATCGCAGCAAAGCTGCCAGTAA
1 ATCACAGCAAAGCTGCCAGTAA
53022859 CAATATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.38, C:0.27, G:0.21, T:0.15
Consensus pattern (24 bp):
ATCACAGCAAAGCTGCCAGTAATA
Found at i:53023042 original size:27 final size:26
Alignment explanation
Indices: 53023012--53023743 Score: 319
Period size: 27 Copynumber: 27.2 Consensus size: 26
53023002 GGTATAATAG
*
53023012 TCATCTTACCTTATGGGGGTATTTCGA
1 TCATTTTACCTT-TGGGGGTATTTCGA
* *
53023039 TCATTTTATCCTATGGGGGTAATTCGA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* ** * *
53023066 TTATTTTACCCAATGGGGGTATTTTGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*
53023093 TCATTTTACCCTTTGGGGGTATTTCGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * * *
53023120 TCATTTCACCCTTT-AGGATATTTCAA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
** * *
53023146 TCATTTCGCCTTTCGGGGTATTTCGG
1 TCATTTTACCTTTGGGGGTATTTCGA
* * *
53023172 TCATTTTACCCTATGGGGGTAATTCGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*
53023199 TCATTTTACGTTTCGGGAGGTATTTC-A
1 TCATTTTACCTTT-GGG-GGTATTTCGA
* *
53023226 GTTATTTTACCCTTTGAGGGTATTTCGA
1 -TCATTTTA-CCTTTGGGGGTATTTCGA
** *
53023254 TCATTTTACCTTTTGAAGGCATTTC-A
1 TCATTTTACC-TTTGGGGGTATTTCGA
* * * *
53023280 GTCATTTTACCCTTAGAGGTATTTCAA
1 -TCATTTTACCTTTGGGGGTATTTCGA
* * * ** * * *
53023307 TCATTTTACCCATCGAGAATTTTTTGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * ** *
53023334 TCATTTTACCCTTCGAGGCCATTTCGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * * *
53023361 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * *
53023388 TCATTTTACCCTTCGAGGATATTTCGA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * * *
53023415 TCATTTTACCATTCGAGGGCATTT-TA
1 TCATTTTACC-TTTGGGGGTATTTCGA
** * *
53023441 GTCATTTTACCTTTTTAGAGTATTTTGA
1 -TCATTTTACC-TTTGGGGGTATTTCGA
* * **** * *
53023469 TCATTTTACCCATCGATAATATTTTGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * *
53023496 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*
53023523 TCATTTTACCCTTTGAGGGTATTTCGA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*** *
53023550 TCATTTTACCCTTCAAGGATATTTC-A
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*
53023576 GTCATTTTACCTTTGAGGGTATTTC-A
1 -TCATTTTACCTTTGGGGGTATTTCGA
* *
53023602 GTCATTTTACCCTCTGAGGGTATTTC-A
1 -TCATTTTA-CCTTTGGGGGTATTTCGA
* *
53023629 GTCATTTTACCCTCTGAGGGTATTTC-A
1 -TCATTTTA-CCTTTGGGGGTATTTCGA
** * *
53023656 GTCATTTTACCCTCCGAGGGTATTTCGG
1 -TCATTTTA-CCTTTGGGGGTATTTCGA
* * *
53023684 TCATTTTACCCTATAGGAGTATTTCGA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * *
53023711 TCATTTTACCTGTCGGAGGTATTTCGG
1 TCATTTTACCT-TTGGGGGTATTTCGA
53023738 TCATTT
1 TCATTT
53023744 GCCCACAAAT
Statistics
Matches: 577, Mismatches: 108, Indels: 40
0.80 0.15 0.06
Matches are distributed among these distances:
25 5 0.01
26 83 0.14
27 462 0.80
28 23 0.04
29 4 0.01
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (26 bp):
TCATTTTACCTTTGGGGGTATTTCGA
Found at i:53023708 original size:161 final size:161
Alignment explanation
Indices: 53023028--53023743 Score: 693
Period size: 161 Copynumber: 4.4 Consensus size: 161
53023018 TACCTTATGG
* * ** * * * * * *
53023028 GGGTATTTCGATCATTTTATCCTATGGGGGTAATTCGATTATTTTACCCAAT-GGGGGTATTTTG
1 GGGTATTTCGGTCATTTTACCCTATCAGGGTATTTCGATCATTTTACCC-TTCGAGGATATTTCG
* * * * * * * ** *
53023092 GTCATTTTACCCTTTGGGGGTATTTCGGTCATTTCACCCTTTAGGATATTTCAATCATTTCGCCT
65 ATCATTTTACCATTTGAGGGCATTTCAGTCATTTTACCCTTTAGGGTATTTCAATCATTTTACCC
* ** *
53023157 TTCG-GGGTATTTCGGTCATTTTACCCTAT-GG
130 ATCGAGAATATTTCGGTCATTTTACCCT-TCGA
* * * * * * *
53023188 GGGTAATTCGGTCATTTTA-CGTTTCGGGAGGTATTTC-AGTTATTTTACCCTTTGAGGGTATTT
1 GGGTATTTCGGTCATTTTACCCTATC-AG-GGTATTTCGA-TCATTTTACCCTTCGAGGATATTT
* *
53023251 CGATCATTTTACCTTTTGAAGGCATTTCAGTCATTTTACCC-TTAGAGGTATTTCAATCATTTTA
63 CGATCATTTTACCATTTGAGGGCATTTCAGTCATTTTACCCTTTAG-GGTATTTCAATCATTTTA
* *
53023315 CCCATCGAGAATTTTTTGGTCATTTTACCCTTCGA
127 CCCATCGAGAATATTTCGGTCATTTTACCCTTCGA
** * *
53023350 GGCCATTTCGGTCATTTTACCCT-TCGAGGGTATTTTGGTCATTTTACCCTTCGAGGATATTTCG
1 GGGTATTTCGGTCATTTTACCCTATC-AGGGTATTTCGATCATTTTACCCTTCGAGGATATTTCG
* * * * **
53023414 ATCATTTTACCATTCGAGGGCATTTTAGTCATTTTACCTTTTTAGAGTATTTTGATCATTTTACC
65 ATCATTTTACCATTTGAGGGCATTTCAGTCATTTTACC-CTTTAGGGTATTTCAATCATTTTACC
* *
53023479 CATCGATAATATTTTGGTCATTTTACCCTTCGA
129 CATCGAGAATATTTCGGTCATTTTACCCTTCGA
* * *
53023512 GGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCCTTCAAGGATATTTC-A
1 GGGTATTTCGGTCATTTTACCCTATCAGGGTATTTCGATCATTTTACCCTTCGAGGATATTTCGA
* * *
53023576 GTCATTTTACC-TTTGAGGGTATTTCAGTCATTTTACCCTCTGAGGGTATTTCAGTCATTTTACC
66 -TCATTTTACCATTTGAGGGCATTTCAGTCATTTTACCCT-TTAGGGTATTTCAATCATTTTACC
** * *
53023640 C-TCTGAGGGTATTTCAGTCATTTTACCCTCCGA
129 CATC-GAGAATATTTCGGTCATTTTACCCTTCGA
53023673 GGGTATTTCGGTCATTTTACCCTAT-AGGAGTATTTCGATCATTTTA-CCTGTCGGAGG-TATTT
1 GGGTATTTCGGTCATTTTACCCTATCAGG-GTATTTCGATCATTTTACCCT-TC-GAGGATATTT
*
53023735 CGGTCATTT
63 CGATCATTT
53023744 GCCCACAAAT
Statistics
Matches: 467, Mismatches: 70, Indels: 37
0.81 0.12 0.06
Matches are distributed among these distances:
159 3 0.01
160 34 0.07
161 267 0.57
162 156 0.33
163 7 0.01
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (161 bp):
GGGTATTTCGGTCATTTTACCCTATCAGGGTATTTCGATCATTTTACCCTTCGAGGATATTTCGA
TCATTTTACCATTTGAGGGCATTTCAGTCATTTTACCCTTTAGGGTATTTCAATCATTTTACCCA
TCGAGAATATTTCGGTCATTTTACCCTTCGA
Found at i:53028089 original size:43 final size:41
Alignment explanation
Indices: 53028041--53028144 Score: 162
Period size: 39 Copynumber: 2.6 Consensus size: 41
53028031 CAACTCTTTA
53028041 TATAGGAGTTGTAAGTGACTATTCATCTACATCACTTAAATGC
1 TATAGGAGTTGT--GTGACTATTCATCTACATCACTTAAATGC
53028084 TATAGGAG-T-TGTGACTATTCATCTACATCACTTAAATGC
1 TATAGGAGTTGTGTGACTATTCATCTACATCACTTAAATGC
53028123 TATAGGAG-T-TGTGACTATTCAT
1 TATAGGAGTTGTGTGACTATTCAT
53028145 GCATGTGTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
39 51 0.84
41 1 0.02
42 1 0.02
43 8 0.13
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (41 bp):
TATAGGAGTTGTGTGACTATTCATCTACATCACTTAAATGC
Found at i:53028105 original size:39 final size:39
Alignment explanation
Indices: 53028055--53028144 Score: 180
Period size: 39 Copynumber: 2.3 Consensus size: 39
53028045 GGAGTTGTAA
53028055 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
53028094 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
53028133 GTGACTATTCAT
1 GTGACTATTCAT
53028145 GCATGTGTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
Found at i:53028192 original size:16 final size:16
Alignment explanation
Indices: 53028173--53028227 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
53028163 ATCTTCAAGT
53028173 CTCTTCACATTTCTAA
1 CTCTTCACATTTCTAA
*
53028189 CTCTT--CATCTTCAAA
1 CTCTTCACAT-TTCTAA
* *
53028204 TTTCTTTACATTTCTAA
1 -CTCTTCACATTTCTAA
53028221 CTCTTCA
1 CTCTTCA
53028228 TAATTTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 3 0.10
15 5 0.17
16 14 0.47
17 5 0.17
18 3 0.10
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (16 bp):
CTCTTCACATTTCTAA
Found at i:53028195 original size:32 final size:32
Alignment explanation
Indices: 53028154--53028228 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
53028144 TGCATGTGTG
*
53028154 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
1 TAACTCTTCATCTTCAAATCTCTTCACATTTC
* *
53028186 TAACTCTTCATCTTCAAATTTCTTTACATTTC
1 TAACTCTTCATCTTCAAATCTCTTCACATTTC
53028218 TAACTCTTCAT
1 TAACTCTTCAT
53028229 AATTTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.24, C:0.28, G:0.01, T:0.47
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAATCTCTTCACATTTC
Found at i:53030719 original size:7 final size:7
Alignment explanation
Indices: 53030707--53030737 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
53030697 TAGTATATAC
53030707 GTGTGTG
1 GTGTGTG
53030714 GTGTGTG
1 GTGTGTG
53030721 GTGTGTG
1 GTGTGTG
53030728 GTGTG-G
1 GTGTGTG
53030734 GTGT
1 GTGT
53030738 ATTTCTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (7 bp):
GTGTGTG
Found at i:53055516 original size:30 final size:30
Alignment explanation
Indices: 53055422--53055523 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 30
53055412 GATTGTCACC
** * * * *
53055422 ATCCCTTTTCATAGCTCGATTGCTGAAGCT
1 ATCCCTTTTCATAATTTGATAGTTGAAACT
* * * ** *
53055452 ATCCCTTTTCATATTTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGTTGAAACT
53055482 ATCCCTTTTCATAATTTGATAGTTGAAACT
1 ATCCCTTTTCATAATTTGATAGTTGAAACT
*
53055512 ATCCCTTGTCAT
1 ATCCCTTTTCAT
53055524 TGATCGATGA
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTTGAAACT
Found at i:53059438 original size:11 final size:11
Alignment explanation
Indices: 53059424--53059448 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53059414 GTCTTTTTCC
53059424 TTTCTTATTCT
1 TTTCTTATTCT
53059435 TTTCTTATTCT
1 TTTCTTATTCT
53059446 TTT
1 TTT
53059449 TCCTTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTATTCT
Found at i:53064163 original size:17 final size:17
Alignment explanation
Indices: 53064141--53064182 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
53064131 TAATATAACA
*
53064141 TTAATTTGATATATTTT
1 TTAATTTAATATATTTT
53064158 TTAATTTAATATATTTT
1 TTAATTTAATATATTTT
53064175 TTAATTTA
1 TTAATTTA
53064183 TGCCTATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTAATTTAATATATTTT
Found at i:53064406 original size:58 final size:58
Alignment explanation
Indices: 53064344--53064484 Score: 171
Period size: 59 Copynumber: 2.4 Consensus size: 58
53064334 ATATATTTTT
* * *
53064344 TAATTTGATACTTAAACTTTTCTTTGTCCAATTTGGTACCTAAACTT-ACATTTTTTCC
1 TAATTTGATACCTAATCTTTTCTTTGTCCAATTTGATACCTAAACTTGAC-TTTTTTCC
* * *
53064402 TAATTTAATACCTAATCTTTT-TGGTAGTCCAATTTGATACCTGAACTTGACTTTTTTCC
1 TAATTTGATACCTAATCTTTTCT--TTGTCCAATTTGATACCTAAACTTGACTTTTTTCC
*
53064461 TAATTTG-TACCTAATCTCTTCTTT
1 TAATTTGATACCTAATCTTTTCTTT
53064485 TTTTCGATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
57 2 0.03
58 30 0.43
59 36 0.51
60 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (58 bp):
TAATTTGATACCTAATCTTTTCTTTGTCCAATTTGATACCTAAACTTGACTTTTTTCC
Found at i:53064591 original size:7 final size:7
Alignment explanation
Indices: 53064581--53064624 Score: 72
Period size: 7 Copynumber: 6.3 Consensus size: 7
53064571 ATATATGACC
53064581 GACATGT
1 GACATGT
53064588 GACATGT
1 GACATGT
53064595 GACATGT
1 GACATGT
53064602 GACATGT
1 GACATGT
53064609 GA-ATTGT
1 GACA-TGT
53064616 GACATGT
1 GACATGT
53064623 GA
1 GA
53064625 TATGATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 1 0.03
7 33 0.94
8 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (7 bp):
GACATGT
Found at i:53065032 original size:59 final size:59
Alignment explanation
Indices: 53064903--53065054 Score: 166
Period size: 59 Copynumber: 2.6 Consensus size: 59
53064893 ATTGAATCTA
** * * * *
53064903 AAAAAAGAGCTTAGATATCAAATTAAGAAAAAGTATCAAGTTCAAGTACCAAATTGGGCC
1 AAAAAAGAATTTAGATACCAAATTAA-AAAAAATGTCAAGTTCAAATACCAAATTGGGCC
* * *
53064963 CAAAAA-AATTTAGATACCAAATTAGAAAAAAATGTCAAGTTCAAATATCAAATTGGG-T
1 AAAAAAGAATTTAGATACCAAATTA-AAAAAAATGTCAAGTTCAAATACCAAATTGGGCC
* *
53065021 AAAAAAGAATTTAGGTACTAAA-TAAAAAAAATGT
1 AAAAAAGAATTTAGATACCAAATTAAAAAAAATGT
53065055 AAAATTCACA
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
57 10 0.13
58 7 0.09
59 55 0.71
60 6 0.08
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.24
Consensus pattern (59 bp):
AAAAAAGAATTTAGATACCAAATTAAAAAAAATGTCAAGTTCAAATACCAAATTGGGCC
Found at i:53067100 original size:16 final size:17
Alignment explanation
Indices: 53067076--53067118 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
53067066 CCCACATTTA
53067076 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
53067092 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
53067108 TTCAATAAAAT
1 TTAAATAAAAT
53067119 GTTTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:53070816 original size:23 final size:23
Alignment explanation
Indices: 53070789--53070963 Score: 143
Period size: 23 Copynumber: 7.6 Consensus size: 23
53070779 AAACAAAACT
* *
53070789 TACCACAAAGACATTGCAGAATA
1 TACCACAAAGGCATTACAGAATA
* * **
53070812 CACCACAAAGGCACTGTAGAATA
1 TACCACAAAGGCATTACAGAATA
* ** **
53070835 TGCCACAAAGATATTGTAGAATA
1 TACCACAAAGGCATTACAGAATA
** ** *
53070858 CGCCACAAATACATTACAAAATA
1 TACCACAAAGGCATTACAGAATA
* *
53070881 TGCCATAAAGGCATTACAGAATA
1 TACCACAAAGGCATTACAGAATA
*
53070904 TGCCACAAAGGCATTACAGAATA
1 TACCACAAAGGCATTACAGAATA
* * * *
53070927 CACCATAATGGCATTACAAAATA
1 TACCACAAAGGCATTACAGAATA
53070950 TACCACAAAGGCAT
1 TACCACAAAGGCAT
53070964 CTCAAGTAAC
Statistics
Matches: 123, Mismatches: 29, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 123 1.00
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.19
Consensus pattern (23 bp):
TACCACAAAGGCATTACAGAATA
Found at i:53070925 original size:69 final size:69
Alignment explanation
Indices: 53070790--53070963 Score: 181
Period size: 69 Copynumber: 2.5 Consensus size: 69
53070780 AACAAAACTT
* * * * ** * **
53070790 ACCACAAA-GACATTGCAGAATACACCACAAAGGCACTGTAGAATATGCCACAAAGATATTGTAG
1 ACCA-AAATGACATTACAAAATATACCACAAAGGCATTACAGAATATGCCACAAAGACATTACAG
53070854 AATAC
65 AATAC
* * * *
53070859 GCCACAAAT-ACATTACAAAATATGCCATAAAGGCATTACAGAATATGCCACAAAGGCATTACAG
1 ACCA-AAATGACATTACAAAATATACCACAAAGGCATTACAGAATATGCCACAAAGACATTACAG
53070923 AATAC
65 AATAC
* *
53070928 ACCATAATGGCATTACAAAATATACCACAAAGGCAT
1 ACCAAAATGACATTACAAAATATACCACAAAGGCAT
53070964 CTCAAGTAAC
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
68 3 0.04
69 82 0.96
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (69 bp):
ACCAAAATGACATTACAAAATATACCACAAAGGCATTACAGAATATGCCACAAAGACATTACAGA
ATAC
Found at i:53073360 original size:23 final size:21
Alignment explanation
Indices: 53073319--53073371 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
53073309 AAGAAAAAGA
53073319 AAAAGAAAAAAAAGGAGAGAT
1 AAAAGAAAAAAAAGGAGAGAT
* *
53073340 AAAAGATAAGAAAAGGAAGAGAA
1 AAAAGA-AAAAAAAGG-AGAGAT
53073363 AGAAAGAAA
1 A-AAAGAAA
53073372 TATATCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 8 0.30
23 8 0.30
24 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.04
Consensus pattern (21 bp):
AAAAGAAAAAAAAGGAGAGAT
Found at i:53088129 original size:21 final size:21
Alignment explanation
Indices: 53088104--53088148 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
53088094 TTTATTAAAT
*
53088104 TTTATTCATCGAAGCTGCCAA
1 TTTATTCACCGAAGCTGCCAA
53088125 TTTATTCACCGAAGCTGCCAA
1 TTTATTCACCGAAGCTGCCAA
53088146 TTT
1 TTT
53088149 TCAAGCTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (21 bp):
TTTATTCACCGAAGCTGCCAA
Found at i:53088338 original size:17 final size:17
Alignment explanation
Indices: 53088316--53088350 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53088306 AGAATTACGA
53088316 GCAGAATTTCTGAACGG
1 GCAGAATTTCTGAACGG
53088333 GCAGAATTTCTGAACGG
1 GCAGAATTTCTGAACGG
53088350 G
1 G
53088351 ATTATGACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (17 bp):
GCAGAATTTCTGAACGG
Found at i:53088919 original size:12 final size:12
Alignment explanation
Indices: 53088904--53088938 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
53088894 TTTTCCATTA
53088904 TCTTCTTTATTT
1 TCTTCTTTATTT
53088916 TCTTCTTTATTT
1 TCTTCTTTATTT
53088928 TCTTCTTTATT
1 TCTTCTTTATT
53088939 GTTCCAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (12 bp):
TCTTCTTTATTT
Found at i:53090724 original size:19 final size:20
Alignment explanation
Indices: 53090696--53090735 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
53090686 TTCTAAATTA
*
53090696 TTATCCACATGA-TTTAAAT
1 TTATCAACATGATTTTAAAT
*
53090715 TTATCAACATTATTTTAAAT
1 TTATCAACATGATTTTAAAT
53090735 T
1 T
53090736 CTTTTTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATCAACATGATTTTAAAT
Found at i:53091488 original size:33 final size:33
Alignment explanation
Indices: 53091446--53091513 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
53091436 AAAAGGGACG
53091446 AATCTAACTTCGAAGATGGAATTGTTGCACTCT
1 AATCTAACTTCGAAGATGGAATTGTTGCACTCT
*
53091479 AATCTAACTTCGAAGATGGAATTGTTTCACTCT
1 AATCTAACTTCGAAGATGGAATTGTTGCACTCT
53091512 AA
1 AA
53091514 CTCACTGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (33 bp):
AATCTAACTTCGAAGATGGAATTGTTGCACTCT
Found at i:53092985 original size:25 final size:25
Alignment explanation
Indices: 53092957--53093014 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
53092947 CAAGCCAATA
53092957 GCTCTCCCTGTACAACCAACCTAAG
1 GCTCTCCCTGTACAACCAACCTAAG
* *
53092982 GCTCTTCCTGTACAACCAACCTACG
1 GCTCTCCCTGTACAACCAACCTAAG
53093007 GCCTCTCC
1 G-CTCTCC
53093015 TCGCGAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.22, C:0.43, G:0.12, T:0.22
Consensus pattern (25 bp):
GCTCTCCCTGTACAACCAACCTAAG
Found at i:53097417 original size:18 final size:18
Alignment explanation
Indices: 53097378--53097417 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
53097368 TATGCTATGT
*
53097378 TTTTGAAATTTTTAATAT
1 TTTTGAAATTTTTAATAA
* *
53097396 TTTTGCAATTTTTATTAA
1 TTTTGAAATTTTTAATAA
53097414 TTTT
1 TTTT
53097418 TTATATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTGAAATTTTTAATAA
Found at i:53110517 original size:19 final size:19
Alignment explanation
Indices: 53110493--53110531 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
53110483 CTTGCAGATA
53110493 TCTTCCATCTGAAAAGCTT
1 TCTTCCATCTGAAAAGCTT
53110512 TCTTCCATCTGAAAAGCTT
1 TCTTCCATCTGAAAAGCTT
53110531 T
1 T
53110532 ATACTTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTTCCATCTGAAAAGCTT
Found at i:53111082 original size:14 final size:14
Alignment explanation
Indices: 53111059--53111091 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
53111049 ATCAAGCTAT
53111059 TGAGAAAAGCTAAA
1 TGAGAAAAGCTAAA
*
53111073 TGAGAGAAGCTAAA
1 TGAGAAAAGCTAAA
53111087 TGAGA
1 TGAGA
53111092 TCCCCATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.27, T:0.15
Consensus pattern (14 bp):
TGAGAAAAGCTAAA
Found at i:53115641 original size:25 final size:24
Alignment explanation
Indices: 53115613--53115768 Score: 107
Period size: 25 Copynumber: 6.2 Consensus size: 24
53115603 AAGCTCTTTC
*
53115613 GAGCCATGTAACGGGAAGCTCATGT
1 GAGCCAT-TAACGGGAAGCTCATGA
** * *
53115638 GAGCTGTATAACTGGAAGCTCAAT-C
1 GAGCCAT-TAACGGGAAGCTC-ATGA
** * *
53115663 GAGCTGTTTATCGGGAAGCTCATAA
1 GAGC-CATTAACGGGAAGCTCATGA
*
53115688 GAGCCATTAATCGGGAAGCTCATGC
1 GAGCCATTAA-CGGGAAGCTCATGA
* ** *
53115713 GAGCCAATTATCAAGAAGCTCAAGA
1 GAGCC-ATTAACGGGAAGCTCATGA
*
53115738 GAGCCATTAATCGGGAAGCTCGTGA
1 GAGCCATTAA-CGGGAAGCTCATGA
53115763 GAGCCA
1 GAGCCA
53115769 AATATTAGGA
Statistics
Matches: 100, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
24 9 0.09
25 84 0.84
26 7 0.07
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCATGA
Found at i:53115791 original size:50 final size:50
Alignment explanation
Indices: 53115677--53115791 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 50
53115667 TGTTTATCGG
* *
53115677 GAAGCTCATAAGAGCCATTAATCGGGAAGCTCATGCGAGCCAATTATCAA
1 GAAGCTCATAAGAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCAA
* * *
53115727 GAAGCTCA-AGAGAGCCATTAATCGGGAAGCTCGTGAGAGCCAAATATTAG
1 GAAGCTCATA-AGAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCAA
*
53115777 GATGCTCATAAGAGC
1 GAAGCTCATAAGAGC
53115792 TGTGGTGTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
49 1 0.02
50 55 0.96
51 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (50 bp):
GAAGCTCATAAGAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCAA
Found at i:53123632 original size:36 final size:36
Alignment explanation
Indices: 53123561--53123682 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
53123551 GCACATCTTC
* * *
53123561 AATCCAACCATAACACGCCAAATGCTCATACGAGCT
1 AATCCAACCAAAACACACCAAATGCTCATAAGAGCT
** * *
53123597 AATCCCTCCAAAACACACCAAATGCTTACAAGAGCT
1 AATCCAACCAAAACACACCAAATGCTCATAAGAGCT
* * *
53123633 AGTCCAACCGAAACAAACC-AATGCTCATAAGAGCT
1 AATCCAACCAAAACACACCAAATGCTCATAAGAGCT
* * *
53123668 AGTCTAACCGAAACA
1 AATCCAACCAAAACA
53123683 TGCCAAACAA
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
35 28 0.39
36 43 0.61
ACGTcount: A:0.42, C:0.31, G:0.11, T:0.16
Consensus pattern (36 bp):
AATCCAACCAAAACACACCAAATGCTCATAAGAGCT
Found at i:53123665 original size:35 final size:36
Alignment explanation
Indices: 53123578--53123682 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 36
53123568 CCATAACACG
* * ** * *
53123578 CCAAATGCTCATACGAGCTAATCCCTCCAAAACACA
1 CCAAATGCTCATAAGAGCTAGTCCAACCGAAACAAA
* *
53123614 CCAAATGCTTACAAGAGCTAGTCCAACCGAAACAAA
1 CCAAATGCTCATAAGAGCTAGTCCAACCGAAACAAA
*
53123650 CC-AATGCTCATAAGAGCTAGTCTAACCGAAACA
1 CCAAATGCTCATAAGAGCTAGTCCAACCGAAACA
53123683 TGCCAAACAA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 28 0.48
36 30 0.52
ACGTcount: A:0.41, C:0.30, G:0.12, T:0.16
Consensus pattern (36 bp):
CCAAATGCTCATAAGAGCTAGTCCAACCGAAACAAA
Found at i:53137184 original size:14 final size:15
Alignment explanation
Indices: 53137165--53137194 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
53137155 TTACAGTTCT
53137165 ATAATAATTT-TTTA
1 ATAATAATTTATTTA
53137179 ATAATAATTTATTTA
1 ATAATAATTTATTTA
53137194 A
1 A
53137195 ATTTATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATAATTTATTTA
Found at i:53137925 original size:155 final size:153
Alignment explanation
Indices: 53137646--53138056 Score: 646
Period size: 155 Copynumber: 2.7 Consensus size: 153
53137636 AAATTTTGTA
* * * *
53137646 TATAAAATAACTGTTGATTCGGTTTACACGAAAACCGAGTCATTCTAT-G-GTGTATACGTCGCA
1 TATAAAATAACTGTTGATTCAGTTT-CACGAAAACTGAGTCATACTATGGTGTGTATACGTTGCA
* *
53137709 GAAGTGAGAAGAGGAAGGAGAAGTGCATTAACCGCTCTACCCATTAAGCCATAGAGTCATGTTCT
65 GAAATGGGAAGAGGAAGGAGAAGTGCATTAACCGCTCTACCCATTAAGCCATAGAGTCATGTTCT
*
53137774 GCGAGATTCTTTGAAATGTTTTAC
130 GCAAGATTCTTTGAAATGTTTTAC
* * *
53137798 TATAAAATAACTGTTGATTTAGTTTCTACGAAAACTGAGTCATACTATGGTGTGTATACATTACA
1 TATAAAATAACTGTTGATTCAGTTTC-ACGAAAACTGAGTCATACTATGGTGTGTATACGTTGCA
*
53137863 GAAATGGGAAGAGGGAAGGAGAAGTGCATTAACCGCTCTACCCATTAGGCCATAGAGTCATGTTC
65 GAAATGGGAAGA-GGAAGGAGAAGTGCATTAACCGCTCTACCCATTAAGCCATAGAGTCATGTTC
53137928 TGCAAGATTCTTTGAAATGTTTTAC
129 TGCAAGATTCTTTGAAATGTTTTAC
*
53137953 TATAAAATAACTGTTGATTCAGTTTCCACGAAAACTGAATCATACTATGGTGTGTATACGTTGCA
1 TATAAAATAACTGTTGATTCAGTTT-CACGAAAACTGAGTCATACTATGGTGTGTATACGTTGCA
* *
53138018 GAAATGGGAAGAGGAAAGAGAAATGCATTAACCGCTCTA
65 GAAATGGGAAGAGGAAGGAGAAGTGCATTAACCGCTCTA
53138057 TCTCTCACTC
Statistics
Matches: 237, Mismatches: 17, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
151 1 0.00
152 42 0.18
153 1 0.00
154 46 0.19
155 146 0.62
156 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (153 bp):
TATAAAATAACTGTTGATTCAGTTTCACGAAAACTGAGTCATACTATGGTGTGTATACGTTGCAG
AAATGGGAAGAGGAAGGAGAAGTGCATTAACCGCTCTACCCATTAAGCCATAGAGTCATGTTCTG
CAAGATTCTTTGAAATGTTTTAC
Found at i:53139747 original size:16 final size:16
Alignment explanation
Indices: 53139726--53139765 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
53139716 CGTTTAGTTC
53139726 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
53139742 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
*
53139758 GCTATAAT
1 GCTGTAAT
53139766 AAGTAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:53149883 original size:51 final size:50
Alignment explanation
Indices: 53149769--53149984 Score: 342
Period size: 51 Copynumber: 4.3 Consensus size: 50
53149759 CTTACGTATG
* *
53149769 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
*
53149819 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
*
53149870 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTTAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGC-TAAGCTACCACTT
* * *
53149921 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
53149972 ATCACTTGTCACT
1 ATCACTTGTCACT
53149985 GATCAGAAGT
Statistics
Matches: 153, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
50 36 0.24
51 116 0.76
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (50 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
Found at i:53154458 original size:11 final size:11
Alignment explanation
Indices: 53154442--53154466 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53154432 TATAGTATAA
53154442 ATATTTAAAAT
1 ATATTTAAAAT
53154453 ATATTTAAAAT
1 ATATTTAAAAT
53154464 ATA
1 ATA
53154467 AAACCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATTTAAAAT
Found at i:53155081 original size:19 final size:19
Alignment explanation
Indices: 53155057--53155105 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
53155047 TTTTTATAAA
53155057 TATTTTGACTCTTAAAAAT
1 TATTTTGACTCTTAAAAAT
* * *
53155076 TATTTTGAATTTTTGAAAAT
1 TATTTTG-ACTCTTAAAAAT
53155096 TATTTTGACT
1 TATTTTGACT
53155106 ATTTTTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (19 bp):
TATTTTGACTCTTAAAAAT
Found at i:53157720 original size:15 final size:16
Alignment explanation
Indices: 53157700--53157732 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53157690 ATAGGGATAT
53157700 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
53157715 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
53157731 AA
1 AA
53157733 AGAGACATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:53157899 original size:191 final size:194
Alignment explanation
Indices: 53157395--53157924 Score: 561
Period size: 191 Copynumber: 2.7 Consensus size: 194
53157385 AAAGTGCACA
* * * * ** * * * *
53157395 CAAGTATACTAAATATTAACCTTTAAGAGAAATTATTTGGTATGCTGTTAATGGAATTTTTAGAC
1 CAAGTGTACAAAATACTAACCCTTAAGAGAAATTATTTGGTACACTGCTAGTGGAGTTTTTAAAC
* * * * *
53157460 TCTACAAGTAAAGTCCGAGGTTGACAAGTGTCTTATAGAGATATAGTAAAATATT-AAAAATAAA
66 TC-ACAAGTAAGGTCAGGGGTTGACAAGTGTCTTATAAAGGTATAGTAAAATATTAAAAAATAAA
*
53157524 TA-TTTAAAAGAAGGAGACACATGCCAATTTTTTAAGGTTGTTTGTGAAATAAAAAAAGTAGTAC
130 TATTTTAAAA-AA--AGACACATGCCAATTTTTCAAGGTTGTTTGTGAAATAAAAAAAG-AGTAC
53157588 ATTG
191 ATTG
** * * * * ** *
53157592 CAAGTGTATTAAATACTAACCCTTAA-AGAAATTATATGGTACATTACCAGTAAAGGTTTTAAAT
1 CAAGTGTACAAAATACTAACCCTTAAGAGAAATTATTTGGTACACTGCTAGTGGAGTTTTTAAA-
* * * * * * *
53157656 TTCACAAGCAAGATAAGGGATTGACAAGTGTCTTAT-AGGGATATAATAAAATATTAAAAAATAA
65 CTCACAAGTAAGGTCAGGGGTTGACAAGTGTCTTATAAAGG-TATAGTAAAATATTAAAAAATAA
* * *
53157720 ATATTTTAAAAAAAGAGACATGCTAATTTTTCAAGGTTGTTTGTGGAAT-AAAAAA-AGTACATT
129 ATATTTTAAAAAAAGACACATGCCAATTTTTCAAGGTTGTTTGTGAAATAAAAAAAGAGTACATT
53157783 G
194 G
* * *
53157784 CCA-TGTACAAAATACTAACCCTTAAGGGAAATTATTTGATACACTGCTAGTGGAGTTTTTAAAC
1 CAAGTGTACAAAATACTAACCCTTAAGAGAAATTATTTGGTACACTGCTAGTGGAGTTTTTAAAC
* * * * *
53157848 TCCCAAGTAGGGTCAGGGGTTGACAAGTGTTTTATAAAGGCATAGTAAAATAATAAAAAATAAAT
66 TCACAAGTAAGGTCAGGGGTTGACAAGTGTCTTATAAAGGTATAGTAAAATATTAAAAAATAAAT
53157913 ATTTTAAAAAAA
131 ATTTTAAAAAAA
53157925 ATACATATAA
Statistics
Matches: 270, Mismatches: 57, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
191 82 0.30
192 42 0.16
194 6 0.02
195 33 0.12
196 63 0.23
197 37 0.14
198 7 0.03
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (194 bp):
CAAGTGTACAAAATACTAACCCTTAAGAGAAATTATTTGGTACACTGCTAGTGGAGTTTTTAAAC
TCACAAGTAAGGTCAGGGGTTGACAAGTGTCTTATAAAGGTATAGTAAAATATTAAAAAATAAAT
ATTTTAAAAAAAGACACATGCCAATTTTTCAAGGTTGTTTGTGAAATAAAAAAAGAGTACATTG
Found at i:53157990 original size:34 final size:34
Alignment explanation
Indices: 53157952--53158020 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
53157942 AAGACTACTT
53157952 TTGGAATAAAAACATACATTGTTCGTGTACTAAA
1 TTGGAATAAAAACATACATTGTTCGTGTACTAAA
53157986 TTGGAATAAAAACATACATTGTTCGTGTACTAAA
1 TTGGAATAAAAACATACATTGTTCGTGTACTAAA
53158020 T
1 T
53158021 AGTAACCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (34 bp):
TTGGAATAAAAACATACATTGTTCGTGTACTAAA
Found at i:53168167 original size:20 final size:20
Alignment explanation
Indices: 53168123--53168169 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
53168113 GGCCGTGTGG
**
53168123 TTAGGCCGTGTGACATGGCC
1 TTAGGCCGTGTGACATGAAC
* *
53168143 CTAGGCCGTGTGGCATGAAC
1 TTAGGCCGTGTGACATGAAC
53168163 TTAGGCC
1 TTAGGCC
53168170 ATGTAACTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.26, G:0.34, T:0.23
Consensus pattern (20 bp):
TTAGGCCGTGTGACATGAAC
Found at i:53168296 original size:25 final size:25
Alignment explanation
Indices: 53168250--53168298 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
53168240 AGGGTTACAC
* *
53168250 GACCATGTCACACGCCCTTGTGCCT
1 GACCATGTCACACACCCGTGTGCCT
* *
53168275 GACCATGTCACATACTCGTGTGCC
1 GACCATGTCACACACCCGTGTGCC
53168299 AGCTTGTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.18, C:0.37, G:0.20, T:0.24
Consensus pattern (25 bp):
GACCATGTCACACACCCGTGTGCCT
Found at i:53172185 original size:69 final size:71
Alignment explanation
Indices: 53172093--53172276 Score: 241
Period size: 71 Copynumber: 2.6 Consensus size: 71
53172083 TGAACCTACA
* *
53172093 AGCCTTAGAATGACAGCTGGGAGCTTTTAACTATCACTAACTGTTTGGA-GGCTGCA-ATATT-A
1 AGCCTTAGAATGACAGCTAGGAGCTTTTAACTCTCACTAACTGTTTGGAGGGCTGCAGA-ATTGA
53172155 ACCTGAG
65 ACCTGAG
* * * *
53172162 AGCCTTAGAATGATAGCTAGGAGCTTTTAACTCTCGCTAACTATTTTGAGGGCTGCAGAATTGAA
1 AGCCTTAGAATGACAGCTAGGAGCTTTTAACTCTCACTAACTGTTTGGAGGGCTGCAGAATTGAA
*
53172227 CCTGTG
66 CCTGAG
* *
53172233 AGCCTTAGAATGACAG-TTGAGAGCTTTTAACTCTTACTAACTGT
1 AGCCTTAGAATGACAGCTAG-GAGCTTTTAACTCTCACTAACTGT
53172277 ATGGGTTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
69 43 0.43
70 12 0.12
71 44 0.44
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (71 bp):
AGCCTTAGAATGACAGCTAGGAGCTTTTAACTCTCACTAACTGTTTGGAGGGCTGCAGAATTGAA
CCTGAG
Found at i:53172244 original size:71 final size:71
Alignment explanation
Indices: 53172061--53172274 Score: 242
Period size: 69 Copynumber: 3.1 Consensus size: 71
53172051 GTGTTAAAAA
* * * * *
53172061 AACTATTTTG-GGGTTGTAGTATTGAACCT-ACAAGCCTTAGAATGACAGCTGGGAGCTTTTAAC
1 AACTATTTTGAGGGCTGCAGAATTGAACCTGA-GAGCCTTAGAATGACAGCTAGGAGCTTTTAAC
*
53172124 TATCACT
65 TCTCACT
* * *
53172131 AACTGTTTGGA-GGCTGCA-ATATT-AACCTGAGAGCCTTAGAATGATAGCTAGGAGCTTTTAAC
1 AACTATTTTGAGGGCTGCAGA-ATTGAACCTGAGAGCCTTAGAATGACAGCTAGGAGCTTTTAAC
*
53172193 TCTCGCT
65 TCTCACT
* *
53172200 AACTATTTTGAGGGCTGCAGAATTGAACCTGTGAGCCTTAGAATGACAG-TTGAGAGCTTTTAAC
1 AACTATTTTGAGGGCTGCAGAATTGAACCTGAGAGCCTTAGAATGACAGCTAG-GAGCTTTTAAC
*
53172264 TCTTACT
65 TCTCACT
53172271 AACT
1 AACT
53172275 GTATGGGTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
69 48 0.40
70 29 0.24
71 43 0.36
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (71 bp):
AACTATTTTGAGGGCTGCAGAATTGAACCTGAGAGCCTTAGAATGACAGCTAGGAGCTTTTAACT
CTCACT
Found at i:53178273 original size:42 final size:41
Alignment explanation
Indices: 53178207--53178301 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 41
53178197 GGCCCTGCAT
* *
53178207 AGCTTGTGTGAGCAACATCGTGTAGTTTACATTCTGACCCAC
1 AGCTTGTGTGAGCAACATCATGTAGCTTACATTCTGA-CCAC
* *
53178249 AGCTCGTGTGAGCAACATCATGTAGCTTACATTTTGACCAC
1 AGCTTGTGTGAGCAACATCATGTAGCTTACATTCTGACCAC
*
53178290 AACTTGTGTGAG
1 AGCTTGTGTGAG
53178302 TAGGCCCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 14 0.30
42 33 0.70
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
AGCTTGTGTGAGCAACATCATGTAGCTTACATTCTGACCAC
Found at i:53186587 original size:31 final size:31
Alignment explanation
Indices: 53186562--53186769 Score: 301
Period size: 31 Copynumber: 6.7 Consensus size: 31
53186552 ATCCAATGAT
*
53186562 CAAATC-AATTCGGCAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* ** *
53186592 CAAATCAAATTCAGCAATGTATATTTATGTA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
53186623 CAAATTAAATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
53186654 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
53186685 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
53186716 CAAATCAAATTCAGCAATTTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
53186747 CAAATCAAATTCGGAAATGTATA
1 CAAATCAAATTCGGCAATGTATA
53186770 AAACATATAC
Statistics
Matches: 157, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 6 0.04
31 151 0.96
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:53190376 original size:27 final size:27
Alignment explanation
Indices: 53190331--53190416 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
53190321 TATAACGGTT
*
53190331 ATTTTACCCTATG-GTGGTATTTTAGTC
1 ATTTTACCCTATGAG-GGTATTTTGGTC
* *
53190358 ATTTTACCCTACGAGGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTTTGGTC
**
53190385 A-TTTAGTCTATGAGGGTATTTTGGTC
1 ATTTTACCCTATGAGGGTATTTTGGTC
*
53190411 ACTTTA
1 ATTTTA
53190417 TTGACCTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.44
27 27 0.54
28 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTTGGTC
Found at i:53197227 original size:26 final size:27
Alignment explanation
Indices: 53197183--53197256 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
53197173 TAATCTCCTA
** *
53197183 GGGGTATAACAGTCATTTTACCTTA-T
1 GGGGTATTTCAGTCATTTTACCTTACG
* *
53197209 GGGGTATTTCATTCGTTTTACCTTACG
1 GGGGTATTTCAGTCATTTTACCTTACG
53197236 GGGGTATTTCAGTCATTTTAC
1 GGGGTATTTCAGTCATTTTAC
53197257 ACCATGGGGG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 21 0.52
27 19 0.47
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCTTACG
Found at i:53197265 original size:27 final size:27
Alignment explanation
Indices: 53197183--53197280 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
53197173 TAATCTCCTA
**
53197183 GGGGTATAACAGTCATTTTACCTTAT-
1 GGGGTATTTCAGTCATTTTACCTTATG
* * *
53197209 GGGGTATTTCATTCGTTTTACCTTACG
1 GGGGTATTTCAGTCATTTTACCTTATG
*
53197236 GGGGTATTTCAGTCATTTTACAC-CATG
1 GGGGTATTTCAGTCATTTTAC-CTTATG
53197263 GGGGTATTTC-GATCATTT
1 GGGGTATTTCAG-TCATTT
53197281 CATTGACCTC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 22 0.37
27 37 0.62
28 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCTTATG
Found at i:53203518 original size:31 final size:31
Alignment explanation
Indices: 53203489--53203653 Score: 231
Period size: 31 Copynumber: 5.3 Consensus size: 31
53203479 AATCAATTTA
* * *
53203489 GCAATATATATCCATATACGAATCAAATTTG
1 GCAATGTATATCCATATACAAATCAAATTCG
* *
53203520 ACAATGTATATCTATATACAAATCAAATTCG
1 GCAATGTATATCCATATACAAATCAAATTCG
* *
53203551 GCAATGAATATCCATATACAAATCAAATTTG
1 GCAATGTATATCCATATACAAATCAAATTCG
* *
53203582 GTAATGTATAACCATATACAAATCAAATTCG
1 GCAATGTATATCCATATACAAATCAAATTCG
* *
53203613 GCAATGTATATCTATATACAAATCAAATTCA
1 GCAATGTATATCCATATACAAATCAAATTCG
53203644 GCAATGTATA
1 GCAATGTATA
53203654 AAACATATAC
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 117 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (31 bp):
GCAATGTATATCCATATACAAATCAAATTCG
Found at i:53203626 original size:93 final size:92
Alignment explanation
Indices: 53203478--53203649 Score: 263
Period size: 93 Copynumber: 1.9 Consensus size: 92
53203468 TCCAATGCTG
* * *
53203478 AAATCAATTTAGCAATATATATCCATATACGAATCAAATTTGACAATGTATATCTATATACAAAT
1 AAATCAATTTAGCAATATATAACCATATACAAATCAAATTCGACAATGTATATCTATATACAAAT
*
53203543 CAAATTCGGCAATGAATATCCATATAC
66 CAAATTCAGCAATGAATATCCATATAC
* * * *
53203570 AAATCAAATTTGGTAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAA
1 AAATC-AATTTAGCAATATATAACCATATACAAATCAAATTCGACAATGTATATCTATATACAAA
53203635 TCAAATTCAGCAATG
65 TCAAATTCAGCAATG
53203650 TATAAAACAT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 5 0.07
93 66 0.93
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (92 bp):
AAATCAATTTAGCAATATATAACCATATACAAATCAAATTCGACAATGTATATCTATATACAAAT
CAAATTCAGCAATGAATATCCATATAC
Found at i:53207010 original size:19 final size:19
Alignment explanation
Indices: 53206986--53207022 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
53206976 AAAGAAAAGT
53206986 ATAAAATTGAATTTGTACA
1 ATAAAATTGAATTTGTACA
53207005 ATAAAATTGAATTTGTAC
1 ATAAAATTGAATTTGTAC
53207023 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (19 bp):
ATAAAATTGAATTTGTACA
Found at i:53207487 original size:34 final size:34
Alignment explanation
Indices: 53207444--53207514 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
53207434 AAATAAAATT
*
53207444 TTTATTTGTTAAAAATCAAATTTATCCTCCATGA
1 TTTATTTGTTAAAAATCAAACTTATCCTCCATGA
* *
53207478 TTTATTTGTTAAAAATTAAACTTATCCTTCATGA
1 TTTATTTGTTAAAAATCAAACTTATCCTCCATGA
53207512 TTT
1 TTT
53207515 TTCATTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.48
Consensus pattern (34 bp):
TTTATTTGTTAAAAATCAAACTTATCCTCCATGA
Found at i:53209216 original size:77 final size:77
Alignment explanation
Indices: 53209119--53209275 Score: 242
Period size: 77 Copynumber: 2.0 Consensus size: 77
53209109 CAAGTTTGAT
* * * * *
53209119 ATTTTAGATCTCAGTTTTATCCATACATGTGATTTATAATGAACTCCATGCATGACTTGGCTATT
1 ATTTTAAATATCAGTTTTATCCATACATGTGATTTAGAATAAACTCCATGCATGACTTGACTATT
53209184 TATTTCTAATTA
66 TATTTCTAATTA
* *
53209196 ATTTTAAATATCAGTTTTATCCATACATTTGATTTGGAATAAACTCCATGCATGACTTGACTATT
1 ATTTTAAATATCAGTTTTATCCATACATGTGATTTAGAATAAACTCCATGCATGACTTGACTATT
*
53209261 TCTTTCTAATTA
66 TATTTCTAATTA
53209273 ATT
1 ATT
53209276 GATGATGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (77 bp):
ATTTTAAATATCAGTTTTATCCATACATGTGATTTAGAATAAACTCCATGCATGACTTGACTATT
TATTTCTAATTA
Found at i:53211678 original size:13 final size:13
Alignment explanation
Indices: 53211662--53211686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53211652 AAAAATATTT
53211662 TAAAAATAAAAAA
1 TAAAAATAAAAAA
53211675 TAAAAATAAAAA
1 TAAAAATAAAAA
53211687 TATTTTTAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:53218583 original size:27 final size:28
Alignment explanation
Indices: 53218545--53218614 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
53218535 AATATATATT
*
53218545 TATATATTATATAATAAAACCCACGCATA
1 TATATATTATATAA-AAAACCCACGCAAA
*
53218574 TA-ATA-TATATACAACAACCCACGCAAA
1 TATATATTATATA-AAAAACCCACGCAAA
53218601 TATATATTATATAA
1 TATATATTATATAA
53218615 CACAACACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 20 0.56
28 8 0.22
29 8 0.22
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (28 bp):
TATATATTATATAAAAAACCCACGCAAA
Found at i:53218612 original size:31 final size:31
Alignment explanation
Indices: 53218545--53218676 Score: 93
Period size: 29 Copynumber: 4.5 Consensus size: 31
53218535 AATATATATT
*
53218545 TATATATTATATA-ATAA-AACCCACGC--A
1 TATATATTATATATACAACAACCCACGCAAA
53218572 TATA-A-TATATATACAACAACCCACGCAAA
1 TATATATTATATATACAACAACCCACGCAAA
* *
53218601 TATATATTATATA-AC-ACAACACC-CACTAA
1 TATATATTATATATACAACAAC-CCACGCAAA
* * * * *
53218630 TATATATTTTGTATACAACAGAACCATGCATA
1 TATATATTATATATACAACA-ACCCACGCAAA
* *
53218662 TGTATAGTATATATA
1 TATATATTATATATA
53218677 TTATATAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
25 6 0.08
26 4 0.05
27 13 0.16
29 25 0.31
30 7 0.09
31 11 0.14
32 14 0.17
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.30
Consensus pattern (31 bp):
TATATATTATATATACAACAACCCACGCAAA
Found at i:53218619 original size:29 final size:29
Alignment explanation
Indices: 53218545--53218637 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
53218535 AATATATATT
* * *
53218545 TATATATTATATAATAAAACCCACGCATA
1 TATATATTATATAACACAACCCACGCAAA
53218574 TA-ATA-TATAT-ACAACAACCCACGCAAA
1 TATATATTATATAAC-ACAACCCACGCAAA
* *
53218601 TATATATTATATAACACAACACC-CACTAA
1 TATATATTATATAACACAAC-CCACGCAAA
53218630 TATATATT
1 TATATATT
53218638 TTGTATACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
26 1 0.02
27 19 0.35
28 6 0.11
29 24 0.44
30 4 0.07
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.29
Consensus pattern (29 bp):
TATATATTATATAACACAACCCACGCAAA
Found at i:53219206 original size:18 final size:19
Alignment explanation
Indices: 53219183--53219224 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
53219173 TGTTTTAAAG
53219183 TTTATAG-T-TTAATTTTAT
1 TTTATAGATATTAATTTT-T
53219201 TTTATAGATATTAATTTTT
1 TTTATAGATATTAATTTTT
53219220 TTTAT
1 TTTAT
53219225 CTTTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTATAGATATTAATTTTT
Found at i:53221711 original size:18 final size:18
Alignment explanation
Indices: 53221674--53221736 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
53221664 TCTTTCTAGT
*
53221674 TTATTTTTATTT-ATTAAA
1 TTATTTTTCTTTAATT-AA
53221692 TTATTTTTCTTTAATTAA
1 TTATTTTTCTTTAATTAA
*
53221710 TT-TTTATT-TTTAAATTTA
1 TTATTT-TTCTTT-AATTAA
53221728 TTATTTTTC
1 TTATTTTTC
53221737 ATTATCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 6 0.16
18 26 0.68
19 6 0.16
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTTCTTTAATTAA
Found at i:53221731 original size:15 final size:14
Alignment explanation
Indices: 53221676--53221735 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
53221666 TTTCTAGTTT
53221676 ATTTTTATTTATTAA
1 ATTTTTATTT-TTAA
53221691 ATTATTT-TTCTTTAATTA
1 ATT-TTTATT-TTT-A--A
53221709 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
53221723 ATTTATTATTTTT
1 ATTT-TTATTTTT
53221736 CATTATCTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
14 5 0.13
15 15 0.39
16 6 0.16
17 6 0.16
18 6 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:53223732 original size:50 final size:49
Alignment explanation
Indices: 53223678--53224057 Score: 196
Period size: 50 Copynumber: 7.6 Consensus size: 49
53223668 ACATCGCCAA
* * *
53223678 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGG
1 GGAAATAAGATTCGCCGTCGTAGCTTCAATCTT-TTAATTGCAATGTCAG
* * ** * * ** *
53223728 GGAAATCAA-ATTCGCCATCGCAGCTTCAATCTATTCCACTACACCGCCAG
1 GGAAAT-AAGATTCGCCGTCGTAGCTTCAATCT-TTTAATTGCAATGTCAG
* * * * * *
53223778 GGAAGTAATATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCAATATC-G
1 GGAAATAAGATTCGCCGTCGTAGCTTCAATC-TTTTAATTGCAATGTCAG
* * ** * **
53223827 GGAAAATCAGATTCACCGTCGTAGCTTCAATCTGTTCCACTGCACCG-CTA-
1 GG-AAATAAGATTCGCCGTCGTAGCTTCAATCT-TTTAATTGCAATGTC-AG
* * * * *
53223877 AGAAAGTAAGATTCGCCGTTGTGGCTTCAGTCTTTTTAATTGCAATGT-GG
1 GGAAA-TAAGATTCGCCGTCGTAGCTTCAATC-TTTTAATTGCAATGTCAG
* * ** * ** *
53223927 GAGAAATCAGATTTGCCGTCGTAGCTTCAATCTATTCCACTGCACCG-CTAA
1 G-GAAATAAGATTCGCCGTCGTAGCTTCAATCT-TTTAATTGCAATGTC-AG
* * * * *
53223978 GGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGTAATGTCAG
1 GGAAATAAGATTCGCCGTCGTAGCTTCAATC-TTTTAATTGCAATGTCAG
* *
53224028 GGAAACAAGATTCGCCGTCGTGGCTTCAAT
1 GGAAATAAGATTCGCCGTCGTAGCTTCAAT
53224058 TTGTTCCACT
Statistics
Matches: 229, Mismatches: 83, Indels: 36
0.66 0.24 0.10
Matches are distributed among these distances:
49 11 0.05
50 206 0.90
51 12 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (49 bp):
GGAAATAAGATTCGCCGTCGTAGCTTCAATCTTTTAATTGCAATGTCAG
Found at i:53223741 original size:100 final size:100
Alignment explanation
Indices: 53223601--53224109 Score: 619
Period size: 100 Copynumber: 5.1 Consensus size: 100
53223591 GATTCGTCGT
* * * * * * *
53223601 CTTCAACCTGTTTAACTGTAATGTCGGGGAAA-CAAGATTCGCTGTCGTAGCTTCGACCTGTTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAA-ATTCGCCGTCGTAGCTTCAATCTGTTCC
* *
53223665 ACTACATCGCCAAGGAAATAAGATTCGCCGTTGTGG
65 ACTACACCGCCAAGGAAGTAAGATTCGCCGTTGTGG
* * * *
53223701 CTTCAATCTTCTTAATTGCAATGTCGGGGAAATCAAATTCGCCATCGCAGCTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAAATTCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
53223766 CTACACCGCCAGGGAAGTAATATTCGCTGTTGTGG
66 CTACACCGCCAAGGAAGTAAGATTCGCCGTTGTGG
* * * *
53223801 CTTCAATCTTTTTAATTGCAATATCGGGAAAATCAGATTCACCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAAATTCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
53223866 CTGCACCGCTAAGAAAGTAAGATTCGCCGTTGTGG
66 CTACACCGCCAAGGAAGTAAGATTCGCCGTTGTGG
* * * *
53223901 CTTCAGTCTTTTTAATTGCAATGT-GGGAGAAATCAGATTTGCCGTCGTAGCTTCAATCTATTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGG-GAAATCAAATTCGCCGTCGTAGCTTCAATCTGTTCC
* * * *
53223965 ACTGCACCGCTAAGGAAGTAAGATTCACCGTTGTAG
65 ACTACACCGCCAAGGAAGTAAGATTCGCCGTTGTGG
* * * * *
53224001 CTTAAATCTTTTTAATTGTAATGTCAGGGAAA-CAAGATTCGCCGTCGTGGCTTCAATTTGTTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAA-ATTCGCCGTCGTAGCTTCAATCTGTTCC
* * *
53224065 ACTACACCGCCATGGGAGTAAGATTCGCCGTCGTGG
65 ACTACACCGCCAAGGAAGTAAGATTCGCCGTTGTGG
53224101 CTTCAATCT
1 CTTCAATCT
53224110 GTTCCACTAC
Statistics
Matches: 349, Mismatches: 56, Indels: 8
0.85 0.14 0.02
Matches are distributed among these distances:
99 5 0.01
100 339 0.97
101 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAAATTCGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAAGGAAGTAAGATTCGCCGTTGTGG
Found at i:53224113 original size:50 final size:50
Alignment explanation
Indices: 53224034--53224167 Score: 232
Period size: 50 Copynumber: 2.7 Consensus size: 50
53224024 TCAGGGAAAC
*
53224034 AAGATTCGCCGTCGTGGCTTCAATTTGTTCCACTACACCGCCATGGGAGT
1 AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATGGGAGT
53224084 AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATGGGAGT
1 AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATGGGAGT
* * *
53224134 AAGATTCGCTGTTGTGGCTTCAATCCGTTCCACT
1 AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACT
53224168 GTAATGCCAA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.29
Consensus pattern (50 bp):
AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATGGGAGT
Found at i:53224156 original size:200 final size:197
Alignment explanation
Indices: 53223624--53224168 Score: 497
Period size: 200 Copynumber: 2.7 Consensus size: 197
53223614 AACTGTAATG
* * * * * *
53223624 TCGGGGAAACAAGATTCGCTGTCGTAGCTTCGACCTGTTCCACTACATCGCCAAGGAAA-TAAGA
1 TCGGGAAAAC-AGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAA-GAAAGTAAGA
* * * * * * * *
53223688 TTCGCCGTTGTGGCTTCAATCT-TCTTAATTGCAATGTCGGGGAAATCAA-ATTCGCCATCGCAG
64 TTCGCCGTCGTGGCTTCAATCTGT-TCAACTACAACGT--GGGAGAT-AAGATTCGCCGTCGTAG
* * * * * * *
53223751 CTTCAATCTATTCCACTACACCGCCAGGGAAGTAATATTCGCTGTTGTGGCTTCAATCTTTTTAA
125 CTTCAATCTATTCCACTGCACCGCCAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAA
53223816 TTGCAATA
190 TTGCAATA
* *
53223824 TCGGGAAAATCAGATTCACCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGAAAGTAAGAT
1 TCGGGAAAA-CAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGAAAGTAAGAT
* * * * * * * * *
53223889 TCGCCGTTGTGGCTTCAGTCTTTTTAATTGCAATGTGGGAGAAATCAGATTTGCCGTCGTAGCTT
65 TCGCCGTCGTGGCTTCAATCTGTTCAACTACAACGTGGGAG--ATAAGATTCGCCGTCGTAGCTT
*
53223954 CAATCTATTCCACTGCACCGCTAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTG
128 CAATCTATTCCACTGCACCGCCAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTG
* *
53224019 TAATG
193 CAATA
* * * * **
53224024 TCAGGG-AAACAAGATTCGCCGTCGTGGCTTCAATTTGTTCCACTACACCGCCATGGGAGTAAGA
1 TC-GGGAAAAC-AGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGAAAGTAAGA
* * * * *
53224088 TTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATGGGAG-TAAGATTCGCTGTTGTGGC
64 TTCGCCGTCGTGGCTTCAATCTGTTCAACTACAACG---TGGGAGATAAGATTCGCCGTCGTAGC
**
53224152 TTCAATCCGTTCCACTG
126 TTCAATCTATTCCACTG
53224169 TAATGCCAAA
Statistics
Matches: 286, Mismatches: 48, Indels: 22
0.80 0.13 0.06
Matches are distributed among these distances:
198 4 0.01
199 6 0.02
200 265 0.93
201 5 0.02
203 6 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (197 bp):
TCGGGAAAACAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGAAAGTAAGATT
CGCCGTCGTGGCTTCAATCTGTTCAACTACAACGTGGGAGATAAGATTCGCCGTCGTAGCTTCAA
TCTATTCCACTGCACCGCCAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGCAA
TA
Found at i:53224354 original size:50 final size:48
Alignment explanation
Indices: 53224248--53224354 Score: 106
Period size: 50 Copynumber: 2.1 Consensus size: 48
53224238 ACGCCAGGGA
* * *
53224248 GATAAGATTCATCGTCATGGCTTCAATCTACTCCGCTACAACGCCAGG
1 GATAAGATTCACCGTCATGGCTTCAATCTACTCCACTACAACGCAAGG
* ** * *
53224296 GAAGTAAGATTCACCGTCGTGGCTTCAATCTTTTCCATTGCAACGTCAAGG
1 G-A-TAAGATTCACCGTCATGGCTTCAATCTACTCCACTACAACG-CAAGG
53224347 CGATAAGA
1 -GATAAGA
53224355 CTAATGTCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
48 1 0.02
49 1 0.02
50 39 0.83
51 5 0.11
52 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATAAGATTCACCGTCATGGCTTCAATCTACTCCACTACAACGCAAGG
Found at i:53224424 original size:45 final size:44
Alignment explanation
Indices: 53224375--53224513 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
53224365 CGATCTGCTT
* *
53224375 CACTGCCAGCACAAGAAGGCGAGATCTGCTATCTTCAACGTACTC
1 CACTGCCAGCACAAGAAGACAAGATCTGCTATCTTCAAC-TACTC
* * * * * * *
53224420 CACTG-CTGCTCAAGGAGACAAG-GCTGGTATCTTCGATCTACTT
1 CACTGCCAGCACAAGAAGACAAGATCTGCTATCTTC-AACTACTC
** * *
53224463 CACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
1 CACTGCCAGCACAAGAAGACAAGATCTGCTATCTTCAA-CTACTC
53224508 CACTGC
1 CACTGC
53224514 TGCTCAGGGA
Statistics
Matches: 70, Mismatches: 20, Indels: 8
0.71 0.20 0.08
Matches are distributed among these distances:
43 19 0.27
44 26 0.37
45 25 0.36
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (44 bp):
CACTGCCAGCACAAGAAGACAAGATCTGCTATCTTCAACTACTC
Found at i:53224465 original size:88 final size:88
Alignment explanation
Indices: 53224361--53224533 Score: 256
Period size: 88 Copynumber: 2.0 Consensus size: 88
53224351 AAGACTAATG
* * * * *
53224361 TCTTCGATCTGCTTCACTGCCAGCACAAGAAGGCGAGATCTGCTATCTTCAACGTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
53224426 TGCTCAAGGAGACAAGGCTGGTA
66 TGCTCAAGGAGACAAGGCTGGTA
* * *
53224449 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
* *
53224514 TGCTCAGGGAGATAAGGCTG
66 TGCTCAAGGAGACAAGGCTG
53224534 AAGTTTCACC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
TGCTCAAGGAGACAAGGCTGGTA
Found at i:53238224 original size:29 final size:29
Alignment explanation
Indices: 53238150--53238242 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
53238140 CATATATATT
* * * *
53238150 TATATATTATAGAATAAAACCCACGCATA
1 TATATATTATATAACACAACCCACGCAAA
53238179 TA-ATA-TATAT-ACAACAACCCACGCAAA
1 TATATATTATATAAC-ACAACCCACGCAAA
* *
53238206 TATATATTATATAACACAACACC-CACTAA
1 TATATATTATATAACACAAC-CCACGCAAA
53238235 TATATATT
1 TATATATT
53238243 CTGTATACAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.02
27 18 0.34
28 6 0.11
29 24 0.45
30 4 0.08
ACGTcount: A:0.48, C:0.20, G:0.03, T:0.28
Consensus pattern (29 bp):
TATATATTATATAACACAACCCACGCAAA
Found at i:53238809 original size:18 final size:19
Alignment explanation
Indices: 53238786--53238827 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
53238776 TGTTTTAAAG
53238786 TTTATAG-T-TTAATTTTAT
1 TTTATAGATATTAATTTT-T
53238804 TTTATAGATATTAATTTTT
1 TTTATAGATATTAATTTTT
53238823 TTTAT
1 TTTAT
53238828 CTTTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTATAGATATTAATTTTT
Found at i:53251473 original size:18 final size:19
Alignment explanation
Indices: 53251452--53251513 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
53251442 TCTTTCTAGT
53251452 TTATTTTTATTT-ATTAAA
1 TTATTTTTATTTAATTAAA
* *
53251470 TTATTTTTCTTTAATTAAT
1 TTATTTTTATTTAATTAAA
* *
53251489 TTATATTT-TTAAATT-AA
1 TTATTTTTATTTAATTAAA
53251506 TTATTTTT
1 TTATTTTT
53251514 CATTATCTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 8 0.22
18 17 0.46
19 12 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTATTTAATTAAA
Found at i:53280382 original size:28 final size:28
Alignment explanation
Indices: 53280343--53280400 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
53280333 GTGATATTTT
*
53280343 ATAATAATTAATA-TT-ATATATAAACTTA
1 ATAATAAATAATACTTAAT-TA-AAACTTA
53280371 ATAATAAATAATACTTAATTAAAACTTA
1 ATAATAAATAATACTTAATTAAAACTTA
53280399 AT
1 AT
53280401 TTAAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 21 0.78
29 4 0.15
30 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (28 bp):
ATAATAAATAATACTTAATTAAAACTTA
Found at i:53283806 original size:44 final size:44
Alignment explanation
Indices: 53283758--53284216 Score: 253
Period size: 44 Copynumber: 10.5 Consensus size: 44
53283748 GGAGTAGGTC
* * *
53283758 GAAGATAGCAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
** * *
53283802 GAAGACGGTAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATT
1 GAAGATAGCAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATT
* ** ** * * * *
53283846 TAAG-CCGCCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGCAGGTT
1 GAAGATAG-CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* *
53283890 GAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATC
1 GAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* * *
53283934 GAAGATGGCAAATCTTATATTTCC-AAG-A-TAGTGGGAAGCAGATT
1 GAAGATAGCAAATCTTAT-CTCCCTAAGCAGTAGT-GG-AGCAGATT
* ** * ** * * * * *
53283978 TAAGCCACCAAGCCTTGTTTCCCTGAA-CAGCAG-GAGAGTAGGTT
1 GAAGATAGCAAATCTTATCTCCCT-AAGCAGTAGTG-GAGCAGATT
*
53284022 GAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
** *
53284066 GAAGACGGCAAATCTTATCTTTCC-AAG-A-TAGTAGGAAGCAGATT
1 GAAGATAGCAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATT
* * * ** * * * * *
53284110 TAAGCTACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGTAGGTT
1 GAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* *
53284154 GAAGATTA-CAAATCTTATCTCCCTAAGCCGTAGTGGAGCAGATC
1 GAAGA-TAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* *
53284198 AAAGACA-CAAATCTTATCT
1 GAAGATAGCAAATCTTATCT
53284217 TTCCAAGATA
Statistics
Matches: 303, Mismatches: 87, Indels: 51
0.69 0.20 0.12
Matches are distributed among these distances:
42 12 0.04
43 36 0.12
44 225 0.74
45 23 0.08
46 7 0.02
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (44 bp):
GAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
Found at i:53283970 original size:132 final size:132
Alignment explanation
Indices: 53283733--53284327 Score: 892
Period size: 132 Copynumber: 4.5 Consensus size: 132
53283723 TCGTAAAATG
* * * *
53283733 TCCCTGAGCAACAGCGGAGTAGGTCGAAGATAGCAGACCTTATCTCCCTAAGCAGTAGTGGAGCA
1 TCCCTGAGCAGCAGCGGAGTAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCA
* *
53283798 GATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCGCCAAGCCTTG
66 GATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTG
53283863 TC
131 TC
* * *
53283865 TCCCTGAGCAGCAGTGGAGCAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGTA
1 TCCCTGAGCAGCAGCGGAGTAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCA
* *
53283930 GATCGAAGATGGCAAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTG
66 GATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTG
*
53283995 TT
131 TC
*
53283997 TCCCTGAACAGCAG-GAGAGTAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGC
1 TCCCTGAGCAGCAGCG-GAGTAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGC
* *
53284061 AGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCTACCAAGCCTT
65 AGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTT
53284126 GTC
130 GTC
* *
53284129 TCCCTAAGCAGCAGCGGAGTAGGTTGAAGATTA-CAAATCTTATCTCCCTAAGCCGTAGTGGAGC
1 TCCCTGAGCAGCAGCGGAGTAGGTTGAAGA-TAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGC
* *
53284193 AGATCAAAGAC-ACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTT
65 AGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTT
53284257 GTC
130 GTC
* * * * ** *
53284260 TCCTTGAGCAGTAGCGGAGTAGGTTGAAGATTA-AAAATCCTATCTCCCTCAAGTTGCAGTGGAG
1 TCCCTGAGCAGCAGCGGAGTAGGTTGAAGA-TAGCAAATCTTATCTCCCT-AAGCAGTAGTGGAG
53284324 CAGA
64 CAGA
53284328 CTAAGTATAG
Statistics
Matches: 424, Mismatches: 35, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
131 98 0.23
132 323 0.76
133 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (132 bp):
TCCCTGAGCAGCAGCGGAGTAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCA
GATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTG
TC
Found at i:53286391 original size:19 final size:21
Alignment explanation
Indices: 53286357--53286403 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
53286347 ATAATACATT
53286357 TTTTAAATTGTTATCAATATG
1 TTTTAAATTGTTATCAATATG
53286378 TTTTAAA-T-TTATCAATAT-
1 TTTTAAATTGTTATCAATATG
53286396 TATTTAAA
1 T-TTTAAA
53286404 AATACATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 1 0.04
21 7 0.28
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTAAATTGTTATCAATATG
Found at i:53288983 original size:14 final size:16
Alignment explanation
Indices: 53288958--53288993 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
53288948 TTTAATTTTC
53288958 AAAATTTCAAAAAA-A
1 AAAATTTCAAAAAATA
53288973 AAAATTT-AAAAAATA
1 AAAATTTCAAAAAATA
53288988 AAAATT
1 AAAATT
53288994 GCATTTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTTCAAAAAATA
Found at i:53289052 original size:30 final size:29
Alignment explanation
Indices: 53288989--53289105 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 29
53288979 TAAAAAATAA
* *
53288989 AAATTGCATTTTGACACCTAAACTTT-TCCT
1 AAATTTCATTTTGAC-CCTAAACTTTCT-TT
53289019 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCTTT
* * *
53289049 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCTTT
* * *
53289079 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTGACCCTAAACTTTCT
53289106 AAAAATTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 12 0.16
30 57 0.78
31 4 0.05
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCTTT
Found at i:53289342 original size:20 final size:20
Alignment explanation
Indices: 53289319--53289376 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
53289309 AAAAATAAAA
53289319 AAAAAGAGAAAAAGAAGAGG
1 AAAAAGAGAAAAAGAAGAGG
* *
53289339 AAAAGGAGAGAAAG-AGAGG
1 AAAAAGAGAAAAAGAAGAGG
* *
53289358 AGAAAG-G-AGAAGAAGAGG
1 AAAAAGAGAAAAAGAAGAGG
53289376 A
1 A
53289377 GAGCCTCCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 3 0.10
18 7 0.23
19 9 0.29
20 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
AAAAAGAGAAAAAGAAGAGG
Found at i:53289418 original size:18 final size:17
Alignment explanation
Indices: 53289395--53289437 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
53289385 GACAGCGGCT
53289395 CGACGGCGAAGACGACGG
1 CGACGGCGAAG-CGACGG
*
53289413 CGACGGCACAAGCGACGG
1 CGACGGC-GAAGCGACGG
53289431 CG-CGGCG
1 CGACGGCG
53289438 CGGCGGCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.23, C:0.33, G:0.44, T:0.00
Consensus pattern (17 bp):
CGACGGCGAAGCGACGG
Found at i:53289461 original size:3 final size:3
Alignment explanation
Indices: 53289455--53289523 Score: 90
Period size: 3 Copynumber: 24.0 Consensus size: 3
53289445 TAGGGCTCGT
*
53289455 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GGA GAA GAA GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
53289502 -AA GAA AAA GAA AAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA
53289524 AAAGGAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 6 0.10
3 52 0.90
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:53289526 original size:6 final size:6
Alignment explanation
Indices: 53289459--53289533 Score: 62
Period size: 6 Copynumber: 12.3 Consensus size: 6
53289449 GCTCGTGAAG
* * * * * * *
53289459 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG GAGAAG AAGAAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA
53289508 AAGAAA AAG-AA AAGAAA AAGGAAA AA
1 AAGAAA AAGAAA AAGAAA AA-GAAA AA
53289534 ATAAAAAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.08
6 47 0.75
7 11 0.17
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:53289600 original size:18 final size:18
Alignment explanation
Indices: 53289577--53289619 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
53289567 CGGGTCAAAC
53289577 CGACCCGATCCGGCGACA
1 CGACCCGATCCGGCGACA
* *
53289595 CGACCCGATCCGGTGACC
1 CGACCCGATCCGGCGACA
53289613 CGACCCG
1 CGACCCG
53289620 CAACCCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.47, G:0.28, T:0.07
Consensus pattern (18 bp):
CGACCCGATCCGGCGACA
Found at i:53289692 original size:25 final size:24
Alignment explanation
Indices: 53289639--53289695 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
53289629 CCCAAAAACC
*
53289639 CAAAAAAAAAAAGAAATTAGGCAAA
1 CAAAAAAAAAAAGAAA-TAAGCAAA
53289664 -AAAAAAGAAAAAGAAA-AAGCAATA
1 CAAAAAA-AAAAAGAAATAAGCAA-A
53289688 CAAAAAAA
1 CAAAAAAA
53289696 TCAAAACAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 5 0.18
24 8 0.29
25 15 0.54
ACGTcount: A:0.77, C:0.07, G:0.11, T:0.05
Consensus pattern (24 bp):
CAAAAAAAAAAAGAAATAAGCAAA
Found at i:53290454 original size:17 final size:18
Alignment explanation
Indices: 53290406--53290643 Score: 140
Period size: 17 Copynumber: 13.3 Consensus size: 18
53290396 AAAAATTTCT
53290406 AATTTTCGTGTTTTTCTAAA
1 AATTTTCGTG-TTTTC-AAA
*
53290426 AA-TTTC-TATGTTTCAAA
1 AATTTTCGTGT-TTTCAAA
53290443 AATTTTCGTGTTTTC-AA
1 AATTTTCGTGTTTTCAAA
*
53290460 AATTTTCGTGTTTTCAAC
1 AATTTTCGTGTTTTCAAA
* *
53290478 AATTCTCGTG-TTTCACA
1 AATTTTCGTGTTTTCAAA
*
53290495 AATTCTCGTGTTTT-AAA
1 AATTTTCGTGTTTTCAAA
* ** *
53290512 ATTTTTTATGTTTTAAAAAAA
1 AATTTTCGTGTTTT---CAAA
*
53290533 AATTTGTCGTGTTTTTTAAAAA
1 AATTT-TCGTG--TTTT-CAAA
* *
53290555 AAATTT-GTGTTTT--TA
1 AATTTTCGTGTTTTCAAA
*
53290570 AATTTTCGTATTTTC-AA
1 AATTTTCGTGTTTTCAAA
* *
53290587 ATTTTTCGTGTTTTCAAT
1 AATTTTCGTGTTTTCAAA
* *
53290605 AATTCTCGTG-TTTCACA
1 AATTTTCGTGTTTTCAAA
*
53290622 AATTTTTGTGTTTT--AA
1 AATTTTCGTGTTTTCAAA
53290638 AATTTT
1 AATTTT
53290644 TTATATATTT
Statistics
Matches: 173, Mismatches: 29, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
15 6 0.03
16 13 0.08
17 77 0.45
18 42 0.24
19 6 0.03
20 5 0.03
21 8 0.05
22 12 0.07
24 4 0.02
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (18 bp):
AATTTTCGTGTTTTCAAA
Done.