Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 124 of 168
Found at i:35994764 original size:42 final size:42
Alignment explanation
Indices: 35994705--35994793 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
35994695 ATAAATTTTT
* * *** *
35994705 TAAAGGTTATGTTTTTAGTGGCGTTTTTGTGAGAAGCGCCGC
1 TAAAGGTTATGTTTTTAGCGGCATTTGAATGAAAAGCGCCGC
35994747 TAAAGGTT-TGTTCTTTAGCGGCATTTGAATGAAAAGCGCCGC
1 TAAAGGTTATGTT-TTTAGCGGCATTTGAATGAAAAGCGCCGC
35994789 TAAAG
1 TAAAG
35994794 ATATTATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (42 bp):
TAAAGGTTATGTTTTTAGCGGCATTTGAATGAAAAGCGCCGC
Found at i:35994871 original size:75 final size:75
Alignment explanation
Indices: 35994780--35994943 Score: 294
Period size: 75 Copynumber: 2.2 Consensus size: 75
35994770 TTTGAATGAA
35994780 AAGCGCCGCTAAAGATATTATTTGATTAAAAT-ATTTTTTTTAAAGGTTAGGTTTTTAGCGGCGT
1 AAGCGCCGCTAAAGATATTATTTGATTAAAATAATTTTTTTTAAAGGTTAGGTTTTTAGCGGCG-
35994844 TTTTTTGCGAG
65 TTTTTTGCGAG
*
35994855 AAGCGCCGCTAAAGATATTATTTGATTAAAATAATTTTTTTTAAAGGTTATGTTTTTAGCGGCGT
1 AAGCGCCGCTAAAGATATTATTTGATTAAAATAATTTTTTTTAAAGGTTAGGTTTTTAGCGGCGT
35994920 TTTTTGCGAG
66 TTTTTGCGAG
*
35994930 AAGCGTCGCTAAAG
1 AAGCGCCGCTAAAG
35994944 GTCATGATCT
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
75 56 0.65
76 30 0.35
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (75 bp):
AAGCGCCGCTAAAGATATTATTTGATTAAAATAATTTTTTTTAAAGGTTAGGTTTTTAGCGGCGT
TTTTTGCGAG
Found at i:35995030 original size:42 final size:42
Alignment explanation
Indices: 35994909--35995071 Score: 227
Period size: 43 Copynumber: 3.8 Consensus size: 42
35994899 AGGTTATGTT
* * * * *
35994909 TTTAGCGGCGTTTTTTGCGAGAAGCGTCGCTAAAGGTCATGATC
1 TTTAGCGGCG-TTTGT-CGAAAAGCGCCGCTAAAGGTCGTGGTC
*
35994953 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTCG-AAAAGCGCCGCTAAAGGTCGTGGTC
*
35994996 TATAGCGGCGTTTGTCGAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTCGAAAAGCGCCGCTAAAGGTCGTGGTC
35995038 TTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTC-GAAAAGCGCCGCTAAAG
35995072 TTAGCGACGC
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
42 41 0.38
43 57 0.53
44 10 0.09
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTCGAAAAGCGCCGCTAAAGGTCGTGGTC
Found at i:35995040 original size:85 final size:87
Alignment explanation
Indices: 35994911--35995071 Score: 247
Period size: 85 Copynumber: 1.9 Consensus size: 87
35994901 GTTATGTTTT
* * *
35994911 TAGCGGCGTTTTTTGCGAGAAGCGTCGCTAAAGGTCATGATCTTTAGCGGCGTTTGT-GGCAAAA
1 TAGCGGCGTTTTGTGCGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTCGG-AAAA
35994975 GCGCCGCTAAAGGTCGTGGTCTA
65 GCGCCGCTAAAGGTCGTGGTCTA
* *
35994998 TAGCGGCG-TTTGT-CGAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTCGGAAAAG
1 TAGCGGCGTTTTGTGCGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTCGGAAAAG
35995061 CGCCGCTAAAG
66 CGCCGCTAAAG
35995072 TTAGCGACGC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
85 54 0.79
86 6 0.09
87 8 0.12
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.25
Consensus pattern (87 bp):
TAGCGGCGTTTTGTGCGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTCGGAAAAG
CGCCGCTAAAGGTCGTGGTCTA
Found at i:35995439 original size:3 final size:3
Alignment explanation
Indices: 35995431--35995477 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
35995421 AATAAGAATT
* * *
35995431 TTA TTA TTA TTA TTA TTA TTG TTA ATA TAA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35995478 TTTAATGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:35997383 original size:28 final size:27
Alignment explanation
Indices: 35997350--35997404 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
35997340 TATTACTGAA
*
35997350 ATTGGGCTAAGGCCCACATTGTTACTGT
1 ATTGGGCTAAGGCCCACACTG-TACTGT
35997378 ATTGGGCTAAGGCCCACACTGTACTGT
1 ATTGGGCTAAGGCCCACACTGTACTGT
35997405 TACTGAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (27 bp):
ATTGGGCTAAGGCCCACACTGTACTGT
Found at i:35997424 original size:33 final size:33
Alignment explanation
Indices: 35997306--35997436 Score: 105
Period size: 33 Copynumber: 4.1 Consensus size: 33
35997296 TGACTGATAT
*
35997306 CTGTTACT-ATTATGGGCCAAGGCCC-CACTGATA
1 CTGTTACTGAATA-GGGCCAAGGCCCACACTG-TA
* * *
35997339 CTATTACTGAAATTGGGCTAAGGCCCACA---T-
1 CTGTTACTG-AATAGGGCCAAGGCCCACACTGTA
* * *
35997369 -TGTTACTGTATTGGGCTAAGGCCCACACTGTA
1 CTGTTACTGAATAGGGCCAAGGCCCACACTGTA
* *
35997401 CTGTTACTGAATAGGGCCCAGGCCCAGACTGTA
1 CTGTTACTGAATAGGGCCAAGGCCCACACTGTA
35997434 CTG
1 CTG
35997437 CTTGTTGTAT
Statistics
Matches: 79, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
28 18 0.23
29 7 0.09
31 2 0.03
33 37 0.47
34 11 0.14
35 4 0.05
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (33 bp):
CTGTTACTGAATAGGGCCAAGGCCCACACTGTA
Found at i:35999639 original size:43 final size:44
Alignment explanation
Indices: 35999592--35999717 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 44
35999582 TCTAAGATGT
35999592 GGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATATCGATGCCAACTGTCCCAGACAG
* * * * * *
35999635 GGTCTTACAAGAAATCATATA-CGATGCCGA-TATCCCAGACAT
1 GGTCTTACATGTAATCAAATATCGATGCCAACTGTCCCAGACAG
*
35999677 GGTCTTACATGTAAATCTCAA-ATCGATGCCAAC-GTCCCAGA
1 GGTCTTACATGT-AATC-AAATATCGATGCCAACTGTCCCAGA
35999718 TATGGTCTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
42 27 0.40
43 24 0.36
44 16 0.24
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
GGTCTTACATGTAATCAAATATCGATGCCAACTGTCCCAGACAG
Found at i:36008695 original size:25 final size:26
Alignment explanation
Indices: 36008656--36008708 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
36008646 ACATGATGAA
*
36008656 AAAAAAGAAACTCAGGTACCTAGTTG
1 AAAAAAGAAACTCAGGTACCAAGTTG
*
36008682 AAAAAA-AAATTCAGGTACCAAGTTG
1 AAAAAAGAAACTCAGGTACCAAGTTG
36008707 AA
1 AA
36008709 CATTGAAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (26 bp):
AAAAAAGAAACTCAGGTACCAAGTTG
Found at i:36011400 original size:13 final size:13
Alignment explanation
Indices: 36011382--36011406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36011372 TAATTTAATA
36011382 TTATTTTGTGTGT
1 TTATTTTGTGTGT
36011395 TTATTTTGTGTG
1 TTATTTTGTGTG
36011407 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:36012799 original size:12 final size:12
Alignment explanation
Indices: 36012782--36012814 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36012772 TGAAGTTTGA
36012782 ATATGTATATAT
1 ATATGTATATAT
*
36012794 ATATGTATATCT
1 ATATGTATATAT
36012806 AT-TGTATAT
1 ATATGTATAT
36012815 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:36012899 original size:114 final size:114
Alignment explanation
Indices: 36012536--36012882 Score: 622
Period size: 114 Copynumber: 3.0 Consensus size: 114
36012526 NNNNTATATG
*
36012536 CATAAATCAAGTTCGAATATGTATATATATATATGTATATCTATTGTATATTTGATGAGCTATAA
1 CATAAATGAAGTTCGAATATG--TATATATATATGTATATCTATTGTATATTTGATGAGCTATAA
36012601 TTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACA
64 TTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACA
* * *
36012652 TATAAATGAAGTTCGAATATGTATATATATATGTTTATCTATTGTATATTTGATGAGTTATAATT
1 CATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTTGATGAGCTATAATT
36012717 AAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACA
66 AAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACA
*
36012766 CATAAATGAAGTTTGAATATGTATATATATATGTATATCTATTGTATATTTGATGAGCTATAATT
1 CATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTTGATGAGCTATAATT
*
36012831 AAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATGCA
66 AAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACA
36012880 CAT
1 CAT
36012883 GTGTGAGGTT
Statistics
Matches: 222, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
114 203 0.91
116 19 0.09
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (114 bp):
CATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTTGATGAGCTATAATT
AAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACA
Found at i:36012996 original size:6 final size:6
Alignment explanation
Indices: 36012985--36013014 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
36012975 GAATAGATAT
36012985 AAATAC AAATAC AAATAC AAATAC AAATAC
1 AAATAC AAATAC AAATAC AAATAC AAATAC
36013015 TTGAGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAC
Found at i:36013286 original size:41 final size:41
Alignment explanation
Indices: 36013232--36013381 Score: 210
Period size: 41 Copynumber: 3.7 Consensus size: 41
36013222 TTTCGAACTT
*
36013232 TAAGTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
*
36013273 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATTAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * * *
36013314 TAAACCTAGCAGGCTAAGTGTCGGTGATATGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * * *
36013355 TAAGCTTAGCAAGCTAAATGCCAGTGA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGA
36013382 ATATGTTAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
Found at i:36018735 original size:17 final size:17
Alignment explanation
Indices: 36018713--36018746 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
36018703 CACACGGTCA
36018713 TGTCAC-CAGCCCGTGTG
1 TGTCACACAG-CCGTGTG
36018730 TGTCACACAGCCGTGTG
1 TGTCACACAGCCGTGTG
36018747 CCAGCTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (17 bp):
TGTCACACAGCCGTGTG
Found at i:36022492 original size:24 final size:24
Alignment explanation
Indices: 36022455--36022509 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
36022445 CCATCTAATG
*
36022455 GGAAGCTCATGTGAGTCAATATCA
1 GGAAGCTCAAGTGAGTCAATATCA
* *
36022479 GGAAGTTCAAGTGAGTCAATATCG
1 GGAAGCTCAAGTGAGTCAATATCA
36022503 GGAAGCT
1 GGAAGCT
36022510 TCGGAGAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (24 bp):
GGAAGCTCAAGTGAGTCAATATCA
Found at i:36022593 original size:25 final size:25
Alignment explanation
Indices: 36022417--36022586 Score: 82
Period size: 25 Copynumber: 6.9 Consensus size: 25
36022407 ATGTTCATAT
* **
36022417 GAGCACATA-AACGGGAAGCTCTGTC
1 GAGC-CATATAACGGGAAGCTCAGGA
* * * *
36022442 GAGCCATCTAATGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCAGGA
* * * * * *
36022467 GAGTCA-ATATCAGGAAGTTCAAGT
1 GAGCCATATAACGGGAAGCTCAGGA
* *
36022491 GAGTCA-ATATCGGGAAGCTTC-GGA
1 GAGCCATATAACGGGAAGC-TCAGGA
* *
36022515 GAGCCAT-TAATCGAGAAGCTC-GCAA
1 GAGCCATATAA-CGGGAAGCTCAG-GA
*
36022540 GAACCATATAACGGGAAGCTCAGGA
1 GAGCCATATAACGGGAAGCTCAGGA
* *
36022565 GAGCCATATATCGGGATGCTCA
1 GAGCCATATAACGGGAAGCTCA
36022587 TACGAGCTGC
Statistics
Matches: 111, Mismatches: 27, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
24 42 0.38
25 65 0.59
26 4 0.04
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCAGGA
Found at i:36024860 original size:17 final size:16
Alignment explanation
Indices: 36024824--36024862 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
36024814 GAATGCAAGC
*
36024824 TATTCTTAAATAGAGT
1 TATTCTTAAAAAGAGT
*
36024840 TATTCTTAAACAAGGGT
1 TATTCTTAAA-AAGAGT
36024857 TATTCT
1 TATTCT
36024863 GACATGTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (16 bp):
TATTCTTAAAAAGAGT
Found at i:36025973 original size:22 final size:22
Alignment explanation
Indices: 36025948--36025991 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
36025938 CAATAGCTTA
36025948 AATAATAACTTTT-AAATAATTC
1 AATAA-AACTTTTGAAATAATTC
36025970 AATAAAACTTTTGAAATAATTC
1 AATAAAACTTTTGAAATAATTC
36025992 GGTGACCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (22 bp):
AATAAAACTTTTGAAATAATTC
Found at i:36038101 original size:21 final size:20
Alignment explanation
Indices: 36038077--36038130 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
36038067 ATAAATAAAT
36038077 ATAATAATAATATAACACACA
1 ATAATAATAATA-AACACACA
* *
36038098 ATAATAAACTAATAACCATACA
1 ATAAT-AA-TAATAAACACACA
*
36038120 GTAATAATAAT
1 ATAATAATAAT
36038131 GTAAATAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 7 0.25
22 12 0.43
23 5 0.18
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.26
Consensus pattern (20 bp):
ATAATAATAATAAACACACA
Found at i:36039667 original size:14 final size:14
Alignment explanation
Indices: 36039648--36039678 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
36039638 GTTTATTCCC
36039648 AAATTGTAGAGTAT
1 AAATTGTAGAGTAT
36039662 AAATTGTAGAGTAT
1 AAATTGTAGAGTAT
36039676 AAA
1 AAA
36039679 GTCAATATGA
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:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (14 bp):
AAATTGTAGAGTAT
Found at i:36044961 original size:4 final size:4
Alignment explanation
Indices: 36044947--36044978 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
36044937 CTTTTTATGC
36044947 TTTA GTTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
36044979 GCTATGGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:36061892 original size:32 final size:31
Alignment explanation
Indices: 36061856--36061920 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
36061846 AAAATTTCAA
* *
36061856 AATTCGAAAATTAAAAGAGACTAAAATTGATC
1 AATTCAAAAAGTAAAAGA-ACTAAAATTGATC
* *
36061888 AATTCAAAAAGTATAGGAACTAAAATTGATC
1 AATTCAAAAAGTAAAAGAACTAAAATTGATC
36061919 AA
1 AA
36061921 ATTAAAGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (31 bp):
AATTCAAAAAGTAAAAGAACTAAAATTGATC
Found at i:36061938 original size:29 final size:28
Alignment explanation
Indices: 36061874--36061940 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 28
36061864 AATTAAAAGA
36061874 GACTAAAATTGATCAATTCAAAAAGTATAG
1 GACTAAAATTGATCAATT--AAAAGTATAG
*
36061904 GAACTAAAATTGATCAAATT-AAAGTATAAT
1 G-ACTAAAATTGATC-AATTAAAAGTAT-AG
36061934 GACTAAA
1 GACTAAA
36061941 TCCACAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
29 13 0.39
30 3 0.09
31 13 0.39
32 4 0.12
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (28 bp):
GACTAAAATTGATCAATTAAAAGTATAG
Found at i:36062590 original size:2 final size:2
Alignment explanation
Indices: 36062583--36062614 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36062573 AAATAGAATG
36062583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36062615 TCTTTTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36064411 original size:32 final size:32
Alignment explanation
Indices: 36064370--36064439 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
36064360 GCCATTTACC
*
36064370 ATGACAACTAGGATGCCAACGTGGCTAGTTGA
1 ATGACAACTAGGATGCCAACGTGGCCAGTTGA
36064402 ATGACAACTAGGATGCCAACGTGGCCAGTTGA
1 ATGACAACTAGGATGCCAACGTGGCCAGTTGA
36064434 ATGACA
1 ATGACA
36064440 GGTCTGCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (32 bp):
ATGACAACTAGGATGCCAACGTGGCCAGTTGA
Found at i:36065566 original size:6 final size:6
Alignment explanation
Indices: 36065555--36065579 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36065545 TTGGGTTTTG
36065555 GAAAAT GAAAAT GAAAAT GAAAAT G
1 GAAAAT GAAAAT GAAAAT GAAAAT G
36065580 GGAGTCGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
GAAAAT
Found at i:36066063 original size:109 final size:109
Alignment explanation
Indices: 36065867--36066172 Score: 458
Period size: 109 Copynumber: 2.8 Consensus size: 109
36065857 AAAATTCAAG
* * *
36065867 AGGATATTT-GACAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCT
1 AGGATATTTAG-CAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCT
* * *
36065928 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
65 CGAATTTCCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
* *
36065973 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACTTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
36066038 GAATTTTCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
* *
36066082 AGGATATTTAGCTATTTGATTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
36066147 GAATTTCCAAACGCTAAATATTGCCT
66 GAATTTCCAAACGCAAAACATTGCCT
36066173 CAATTAGAAA
Statistics
Matches: 180, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
106 25 0.14
107 1 0.01
108 25 0.14
109 129 0.72
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (109 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
Found at i:36066476 original size:41 final size:39
Alignment explanation
Indices: 36066428--36066516 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 39
36066418 TAAAGGGGAC
36066428 TATATATATGTATATA-CATAAAATTA-TAAAAATATAAAAAA
1 TATATATATGTATATATCATAAAATTACT----ATATAAAAAA
* **
36066469 TATATATAAGTATATATTTTAAAATTACTATATAAAAAA
1 TATATATATGTATATATCATAAAATTACTATATAAAAAA
36066508 TATATATAT
1 TATATATAT
36066517 AAGTAAGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
39 18 0.43
41 15 0.36
42 8 0.19
43 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (39 bp):
TATATATATGTATATATCATAAAATTACTATATAAAAAA
Found at i:36066477 original size:13 final size:13
Alignment explanation
Indices: 36066459--36066515 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
36066449 AATTATAAAA
36066459 ATATAAAAAATAT
1 ATATAAAAAATAT
**
36066472 ATAT-AAGTATAT
1 ATATAAAAAATAT
* * *
36066484 ATTTTAAAATTACT
1 ATATAAAAAATA-T
36066498 ATATAAAAAATAT
1 ATATAAAAAATAT
36066511 ATATA
1 ATATA
36066516 TAAGTAAGCA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
12 9 0.27
13 14 0.42
14 10 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATAAAAAATAT
Found at i:36066620 original size:13 final size:13
Alignment explanation
Indices: 36066602--36066629 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36066592 GAATCATAAA
36066602 ATATAAAATACAT
1 ATATAAAATACAT
36066615 ATATAAAATACAT
1 ATATAAAATACAT
36066628 AT
1 AT
36066630 TTTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:36066704 original size:2 final size:2
Alignment explanation
Indices: 36066654--36066685 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36066644 GAATATGTAA
36066654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36066686 GAAAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36066812 original size:3 final size:3
Alignment explanation
Indices: 36066804--36066834 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
36066794 ACTCCTATAT
36066804 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36066835 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:36068030 original size:20 final size:21
Alignment explanation
Indices: 36067989--36068030 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
36067979 TCTTGTGTGA
*
36067989 TTTGGGCTATTAGGGTTTGTT
1 TTTGGGCTATTAGGGTTGGTT
36068010 TTTGGG-TATT-GGGCTTGGTT
1 TTTGGGCTATTAGGG-TTGGTT
36068030 T
1 T
36068031 AATTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.07, C:0.05, G:0.36, T:0.52
Consensus pattern (21 bp):
TTTGGGCTATTAGGGTTGGTT
Found at i:36068771 original size:175 final size:175
Alignment explanation
Indices: 36068552--36069089 Score: 811
Period size: 175 Copynumber: 3.1 Consensus size: 175
36068542 GCTCCACTTT
* ** *
36068552 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
* *
36068617 TCCGTTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTACTCTGCTGTAATCTCAG
66 TCCGTTCCACTGTAATCTCAGGGAGATAGGATTACTGTCTTCAATCTGCTCTGCTGTAATCTCAG
36068682 GGAGATAAGATCTGAAATTCTTTGGTCTGCTCCACTGTAATCTCA
131 GGAGATAAGATCTGAAATTCTTTGGTCTGCTCCACTGTAATCTCA
*
36068727 GGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
* *
36068792 TCCGCTT-CACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCTGTTGTAATCTCA
66 TCCG-TTCCACTGTAATCTCAGGGAGATAGGATTACTGTCTTCAATCTGCTCTGCTGTAATCTCA
36068856 GGGAGATAAGATCTGAAA-TCTTTAGGTCTGCTCCACTGTAATCTCA
130 GGGAGATAAGATCTGAAATTCTTT-GGTCTGCTCCACTGTAATCTCA
36068902 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
* * * *
36068967 TCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGTAATCTCA
66 TCCGTTCCACTGTAATC-TCAGGGAGATAGGATTACTGTCTTCAATCTGCTCTGCTGTAATCTCA
* * * ** *
36069030 GGAAGATAAGATCT---CTGGCTTTAATCTGCTCCACTGTAACCTCA
130 GGGAGATAAGATCTGAAAT-TCTTTGGTCTGCTCCACTGTAATCTCA
*
36069074 GGGAGATAAGATCTGA
1 GGGAGATAAGACCTGA
36069090 AATTCTTCGG
Statistics
Matches: 334, Mismatches: 23, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
172 34 0.10
173 4 0.01
174 47 0.14
175 247 0.74
176 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (175 bp):
GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
TCCGTTCCACTGTAATCTCAGGGAGATAGGATTACTGTCTTCAATCTGCTCTGCTGTAATCTCAG
GGAGATAAGATCTGAAATTCTTTGGTCTGCTCCACTGTAATCTCA
Found at i:36069023 original size:87 final size:86
Alignment explanation
Indices: 36068570--36069081 Score: 475
Period size: 87 Copynumber: 5.9 Consensus size: 86
36068560 AGATCTGAAA
* * *
36068570 CGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCT-TTATTTTAATCCGTTCCACTGTAATC
1 CGATCTACTCTGCTGTAATCTCAGAGAGATAAGAT-CTGTTATTTTAATCCGCTCCACTGTAATC
36068634 TCAGGGAGATAGGATTACTGGCTT
65 TCAGGGAGATAGGA-TACT-GCTT
* * ** ** *
36068658 CAATCTACTCTGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGCTCCACTGTAAT
1 CGATCTACTCTGCTGTAATCTCAGAGAGATAAGATCTGTTA-T-TTTAATCCGCTCCACTGTAAT
* * * *
36068723 CTCAGGGAGATAAGA-CCTGATG
64 CTCAGGGAGATAGGATACTGCTT
*
36068745 CGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTTCACTGTAAT
1 CGATCTACTCTGCTGTAATC-TCAGAGAGATAAGAT-CTGTTATTTTAATCCGCTCCACTGTAAT
*
36068808 CTCAGGGAGATAGGATTACTATCTT
64 CTCAGGGAGATAGGA-TACT-GCTT
* * * * ** * *
36068833 CAATCTGCTCTGTTGTAATCTCAGGGAGATAAGATCTGAAATCTTTAGGTCTGCTCCACTGTAAT
1 CGATCTACTCTGCTGTAATCTCAGAGAGATAAGATCTGTTAT-TTTA-ATCCGCTCCACTGTAAT
* * * *
36068898 CTCAGGGAGATAAGA-CCTGATG
64 CTCAGGGAGATAGGATACTGCTT
*
36068920 CGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCCACTGTAA-
1 CGATCTACTCTGCTGTAATC-TCAGAGAGATAAGAT-CTGTTATTTTAATCCGCTCCACTGTAAT
*
36068982 CTTCAGGGAGATAGGATAGTGTCTT
64 C-TCAGGGAGATAGGATACTG-CTT
* * * *** * *
36069007 CGATCTGCTCCGCTGTAATCTCAG-GAAGATAAGATCTCTGGCTTTAATCTGCTCCACTGTAACC
1 CGATCTACTCTGCTGTAATCTCAGAG-AGATAAGATCTGTTATTTTAATCCGCTCCACTGTAATC
36069071 TCAGGGAGATA
65 TCAGGGAGATA
36069082 AGATCTGAAA
Statistics
Matches: 341, Mismatches: 62, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
84 1 0.00
85 58 0.17
86 12 0.04
87 131 0.38
88 74 0.22
89 6 0.02
90 59 0.17
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (86 bp):
CGATCTACTCTGCTGTAATCTCAGAGAGATAAGATCTGTTATTTTAATCCGCTCCACTGTAATCT
CAGGGAGATAGGATACTGCTT
Found at i:36069077 original size:218 final size:219
Alignment explanation
Indices: 36068801--36069259 Score: 672
Period size: 218 Copynumber: 2.1 Consensus size: 219
36068791 ATCCGCTTCA
* * *** *
36068801 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCTGTTGTAATCTCAGGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
* * *
36068866 ATCTGAAA-TCTTTAGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTC
66 ATCTGAAATTC-TTAGGTCTACTCCACTGTAACCTCAGGGAGACAAGACCTGATGCGATCTACTC
** *
36068930 TACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATA
130 TACTGTAACTTCAGAGAGATAAGATAATTTATTTTAATCCGCTCCACTGTAACATCAGGGAGATA
* * *
36068995 GGA-TAGTGTCTTCGATCTGCTCCG
195 GGATTACTATCTTCAATCTGCTCCG
* * *
36069019 CTGTAATCTCAGGAAGATAAGATCT-CTGGCTTTAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGAT-TACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
*
36069083 GATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGACAAGACCTGATGCGATCTACTC
65 GATCTGAAATTCTTAGGTCTACTCCACTGTAACCTCAGGGAGACAAGACCTGATGCGATCTACTC
*
36069148 TGCTGTAACTTCAGAGAGATAAGATAATTTATTTTAATCCGCTCCACTGTAACATCAGGGAGATA
130 TACTGTAACTTCAGAGAGATAAGATAATTTATTTTAATCCGCTCCACTGTAACATCAGGGAGATA
*
36069213 GGATTACTATCTTTAATCTGCTCCG
195 GGATTACTATCTTCAATCTGCTCCG
* *
36069238 CTGTAACCTTAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
36069260 CCTGTATAAT
Statistics
Matches: 214, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
218 175 0.82
219 39 0.18
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (219 bp):
CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
ATCTGAAATTCTTAGGTCTACTCCACTGTAACCTCAGGGAGACAAGACCTGATGCGATCTACTCT
ACTGTAACTTCAGAGAGATAAGATAATTTATTTTAATCCGCTCCACTGTAACATCAGGGAGATAG
GATTACTATCTTCAATCTGCTCCG
Found at i:36069087 original size:44 final size:43
Alignment explanation
Indices: 36068572--36069259 Score: 279
Period size: 44 Copynumber: 15.7 Consensus size: 43
36068562 ATCTGAAACG
* * * *
36068572 ATCTACTCTACTGTAACCTCAGAGAGATAAGATC-CTTTATTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TT-CTTTA
* * * * * *
36068616 ATCCGTTCCACTGTAATCTCAGGGAGATAGGAT-TACTGGCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-CT-TCTTTA
* ** * * *
36068660 ATCTACTCTGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTTCTTTA
* * ** ***
36068706 GTCTGCTCCACTGTAATCTCAGGGAGATAAGA-C-CTGATGCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTCTTTA
* ** * * *
36068747 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATC-CTTTATTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TT-CTTTA
* * * * *
36068791 ATCCGCTTCACTGTAATCTCAGGGAGATAGGAT-TACTATCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-CT-TCTTTA
*** * **
36068835 ATCTGCTCTGTTGTAATCTCAGGGAGATAAGATCTGAAATCTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT--CTTCTTTA
* * ** ***
36068880 GGTCTGCTCCACTGTAATCTCAGGGAGATAAGA-C-CTGATGCG
1 -ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTCTTTA
* * * * *
36068922 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TT-CTTTA
* * * * * **
36068966 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGT-GTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTCTTCTTTA
* * * *
36069009 ATCTGCTCCGCTGTAATCTCAGGAAGATAAGATCTCTGGCTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCT-TCTTTA
* **
36069053 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTTCTTTA
* * * ** ***
36069099 GTCTACTCCACTGTAACCTCAGGGAGACAAGA-C-CTGATGCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTCTTTA
* ** * * * *
36069140 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATAAT-TTATTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTCTT-CTTTA
* * *
36069184 ATCCGCTCCACTGTAACATCAGGGAGATAGGAT-TACTATCTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-CT-TCTTTA
* *
36069228 ATCTGCTCCGCTGTAACCTTAGGGAGATAAGA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA
36069260 CCTGTATAAT
Statistics
Matches: 469, Mismatches: 143, Indels: 64
0.69 0.21 0.09
Matches are distributed among these distances:
41 84 0.18
42 7 0.01
43 32 0.07
44 237 0.51
45 14 0.03
46 92 0.20
47 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTCTTTA
Found at i:36070460 original size:7 final size:7
Alignment explanation
Indices: 36070448--36070490 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
36070438 TTAGCCTCTC
36070448 CATTTTT
1 CATTTTT
36070455 CATTTTT
1 CATTTTT
36070462 CATTTTTTT
1 CA--TTTTT
36070471 CATTTTT
1 CATTTTT
36070478 CA-TTTT
1 CATTTTT
36070484 CATTTTT
1 CATTTTT
36070491 TTGACTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.18
7 20 0.61
9 7 0.21
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:36070475 original size:23 final size:22
Alignment explanation
Indices: 36070448--36070492 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
36070438 TTAGCCTCTC
36070448 CATTTTTCATTTTTCATTTTTTT
1 CATTTTTCA-TTTTCATTTTTTT
36070471 CATTTTTCATTTTCATTTTTTT
1 CATTTTTCATTTTCATTTTTTT
36070493 GACTCAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (22 bp):
CATTTTTCATTTTCATTTTTTT
Found at i:36070492 original size:16 final size:16
Alignment explanation
Indices: 36070450--36070483 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
36070440 AGCCTCTCCA
36070450 TTTTTCATTTTTCATT
1 TTTTTCATTTTTCATT
36070466 TTTTTCATTTTTCATT
1 TTTTTCATTTTTCATT
36070482 TT
1 TT
36070484 CATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTTCATT
Found at i:36075754 original size:109 final size:108
Alignment explanation
Indices: 36075546--36075851 Score: 418
Period size: 109 Copynumber: 2.8 Consensus size: 108
36075536 AAAATTCAAG
* * * ** * *
36075546 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACGTTCCCCG
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCAATTTTCTCG
* ** * * *
36075609 AATTTCCAAACGCAAAACATTAACTTATTTTGAAATTTTTGAA
66 AATTTCCAAACGCAAAATATTGCCTTATTGTAAAATTTTTAAA
*
36075652 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATTGACACCCAGCACCTTAGGGCATATTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCA-ATTTTCTC
36075717 GAATTTCCAAACGCAAAATATTGCCTTATTGTAAAATTTTTAAA
65 GAATTTCCAAACGCAAAATATTGCCTTATTGTAAAATTTTTAAA
* *
36075761 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCA-ATTTTCTC
* *
36075826 GAATTTCTAAACGCTAAATATTGCCT
65 GAATTTCCAAACGCAAAATATTGCCT
36075852 CAATTAGAAA
Statistics
Matches: 177, Mismatches: 20, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
106 26 0.15
108 24 0.14
109 127 0.72
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCAATTTTCTCG
AATTTCCAAACGCAAAATATTGCCTTATTGTAAAATTTTTAAA
Found at i:36076163 original size:43 final size:41
Alignment explanation
Indices: 36076107--36076202 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 41
36076097 TAAAGGGGAC
*
36076107 TATATATATGTATATA-CATAAAATTA-TAAAAATATAAAAAATA
1 TATATATAAGTATATATCATAAAATTACT----ATATAAAAAATA
**
36076150 TATATATAAGTATATATTTTAAAATTACTATATAAAAAATA
1 TATATATAAGTATATATCATAAAATTACTATATAAAAAATA
36076191 TATATATAAGTA
1 TATATATAAGTA
36076203 AGCATATTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 24 0.50
43 15 0.31
44 8 0.17
45 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (41 bp):
TATATATAAGTATATATCATAAAATTACTATATAAAAAATA
Found at i:36076301 original size:13 final size:13
Alignment explanation
Indices: 36076283--36076310 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36076273 GAATCATAAA
36076283 ATATAAAATACAT
1 ATATAAAATACAT
36076296 ATATAAAATACAT
1 ATATAAAATACAT
36076309 AT
1 AT
36076311 TTTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:36078205 original size:20 final size:21
Alignment explanation
Indices: 36078164--36078201 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
36078154 TCTTTTGTGA
36078164 TTTGGGCTATTAGGGTTTGTT
1 TTTGGGCTATTAGGGTTTGTT
36078185 TTTGGG-TATT-GGGTTTG
1 TTTGGGCTATTAGGGTTTG
36078202 GTTTAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.08, C:0.03, G:0.37, T:0.53
Consensus pattern (21 bp):
TTTGGGCTATTAGGGTTTGTT
Found at i:36079981 original size:15 final size:15
Alignment explanation
Indices: 36079961--36079991 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36079951 TTGATCTTTC
36079961 TAGTATTATATATTA
1 TAGTATTATATATTA
36079976 TAGTATTATATATTA
1 TAGTATTATATATTA
36079991 T
1 T
36079992 GATTTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
TAGTATTATATATTA
Found at i:36080246 original size:28 final size:29
Alignment explanation
Indices: 36080198--36080252 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
36080188 ATTAGGATCC
36080198 AAATTATATTTTTAATAATTAT-TATTTT
1 AAATTATATTTTTAATAATTATATATTTT
*
36080226 AAATTATATTTTATAGT-ATTATATATT
1 AAATTATATTTT-TAATAATTATATATT
36080253 ATGATTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
AAATTATATTTTTAATAATTATATATTTT
Found at i:36080390 original size:120 final size:120
Alignment explanation
Indices: 36080174--36080588 Score: 686
Period size: 120 Copynumber: 3.4 Consensus size: 120
36080164 NNNNNNNNNN
*** * * *
36080174 TTATTAAATTATATATTAGGATCCAAATTATATTTTTAATAATTATTATTTTAAATTATATTTTA
1 TTATTAAATTATATATTTTTAT-TAAATTATA--TTTAATAATAATTATGTTAAATTATATTTTA
*
36080239 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATT
63 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATT
* *
36080297 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAG
1 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAG
* *
36080362 TATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAAAT
66 TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATT
36080417 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAG
1 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAG
* *
36080482 TATTATATATTATGGTTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATT
66 TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATT
36080537 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
36080589 ATAAGATTAA
Statistics
Matches: 277, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
120 250 0.90
122 8 0.03
123 19 0.07
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAG
TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATT
Found at i:36080808 original size:45 final size:44
Alignment explanation
Indices: 36080725--36080820 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 44
36080715 ATTACAACAT
*
36080725 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
*
36080769 TATTACATTCAACCAAACA-ATTA-AATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA--AGAA-TACTATTACGCCTCTATTC
36080814 CATTACA
1 CATTACA
36080821 GCTCTATTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.02
44 19 0.41
45 26 0.57
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:36080825 original size:16 final size:16
Alignment explanation
Indices: 36080806--36080854 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
36080796 ACTATTACGC
36080806 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
**
36080822 CTCTATTCCATTACTC
1 CTCTATTCCATTACAG
36080838 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
36080854 C
1 C
36080855 GAACCAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:36090420 original size:22 final size:22
Alignment explanation
Indices: 36090388--36090437 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
36090378 ATTATAAAAG
*
36090388 TAAAAAGATTA-AATATATATTT
1 TAAAAAGATTACAATAAAT-TTT
36090410 TAGAAAA-ATTACAATAAATTTT
1 TA-AAAAGATTACAATAAATTTT
36090432 TAAAAA
1 TAAAAA
36090438 TATTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 11 0.44
23 10 0.40
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (22 bp):
TAAAAAGATTACAATAAATTTT
Found at i:36090510 original size:19 final size:19
Alignment explanation
Indices: 36090488--36090530 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
36090478 AAAAATTCAA
* * *
36090488 AACAATATTTAAAATTTTT
1 AACAAAATTGAAAATTTTC
36090507 AACAAAAATTGAAAATTTTC
1 AAC-AAAATTGAAAATTTTC
36090527 AACA
1 AACA
36090531 CGATATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (19 bp):
AACAAAATTGAAAATTTTC
Found at i:36098536 original size:14 final size:14
Alignment explanation
Indices: 36098517--36098544 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36098507 TTAAATAAGC
36098517 TGTTTTTATATATT
1 TGTTTTTATATATT
36098531 TGTTTTTATATATT
1 TGTTTTTATATATT
36098545 AATTTCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
TGTTTTTATATATT
Found at i:36116538 original size:3 final size:3
Alignment explanation
Indices: 36116530--36116561 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36116520 ATATTTTGCT
36116530 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36116562 TGATAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36116762 original size:21 final size:18
Alignment explanation
Indices: 36116692--36116780 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
36116682 AGTGATTATA
**
36116692 TATATTTATATATAAATT
1 TATATTTATATATATTTT
36116710 TATGATTT-TATA-ATTTT
1 TAT-ATTTATATATATTTT
36116727 TATATTTA-A-ATATTTT
1 TATATTTATATATATTTT
36116743 TATAAATTTATATCATATTTT
1 TAT--ATTTATAT-ATATTTT
36116764 TATATTTATATATATTT
1 TATATTTATATATATTT
36116781 CAAAATAACA
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
15 1 0.02
16 13 0.21
17 6 0.10
18 18 0.30
19 13 0.21
21 10 0.16
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (18 bp):
TATATTTATATATATTTT
Found at i:36117876 original size:18 final size:18
Alignment explanation
Indices: 36117853--36117890 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
36117843 TTTCGTGTAA
36117853 AACCGAATT-AATTCGGTT
1 AACCG-ATTGAATTCGGTT
36117871 AACCGATTGAATTCGGTT
1 AACCGATTGAATTCGGTT
36117889 AA
1 AA
36117891 TTGGTTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (18 bp):
AACCGATTGAATTCGGTT
Found at i:36120484 original size:12 final size:12
Alignment explanation
Indices: 36120467--36120494 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36120457 ACAATTGAGG
36120467 ATTCACAAAAGA
1 ATTCACAAAAGA
36120479 ATTCACAAAAGA
1 ATTCACAAAAGA
36120491 ATTC
1 ATTC
36120495 CTCCAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (12 bp):
ATTCACAAAAGA
Found at i:36122105 original size:2 final size:2
Alignment explanation
Indices: 36122098--36122128 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36122088 CATGAATTTA
36122098 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 A
36122129 GTTAATTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36126634 original size:34 final size:36
Alignment explanation
Indices: 36126566--36126640 Score: 109
Period size: 34 Copynumber: 2.1 Consensus size: 36
36126556 CATCTAAAAA
36126566 ATAAGAAGAGACATAAAAGTGAAAACTTAAAAAGACC
1 ATAAGAAGAGA-ATAAAAGTGAAAACTTAAAAAGACC
* *
36126603 ATAAGAAGAG-ATAGAAGTG-AAGCTTAAAAAGACC
1 ATAAGAAGAGAATAAAAGTGAAAACTTAAAAAGACC
36126637 ATAA
1 ATAA
36126641 AATTAACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 18 0.50
35 8 0.22
37 10 0.28
ACGTcount: A:0.57, C:0.09, G:0.19, T:0.15
Consensus pattern (36 bp):
ATAAGAAGAGAATAAAAGTGAAAACTTAAAAAGACC
Found at i:36126714 original size:114 final size:117
Alignment explanation
Indices: 36126506--36126716 Score: 286
Period size: 114 Copynumber: 1.8 Consensus size: 117
36126496 AAAATAAAAA
* * * *
36126506 CTTAACAAGACCATTAAAATCAGCATCTTCCTCAAACATAAACATGCAATCATCTAAAAAATAAG
1 CTTAAAAAGACCATTAAAATCAACATCTTCCTCAAACACAAACATG--ATAATCTAAAAAATAAG
36126571 AAGAGACATAAAAGTGAAAACTTAAAAAGACCATAAGAAGAGATAGAAGTGAAG
64 AAGAGACATAAAAGTGAAAACTTAAAAAGACCATAAGAAGAGATAGAAGTGAAG
* * * *
36126625 CTTAAAAAGACCA-TAAAATTAACATCTTTCTCAAACACAAACATG-TAATC-AGAAAATACGAA
1 CTTAAAAAGACCATTAAAATCAACATCTTCCTCAAACACAAACATGATAATCTAAAAAATAAGAA
*
36126687 GAGACATAGAAGTG-AAACTTAAAAAAGACC
66 GAGACATAAAAGTGAAAACTT-AAAAAGACC
36126717 TTAAAACCAG
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
113 6 0.07
114 32 0.39
115 4 0.05
118 28 0.34
119 12 0.15
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (117 bp):
CTTAAAAAGACCATTAAAATCAACATCTTCCTCAAACACAAACATGATAATCTAAAAAATAAGAA
GAGACATAAAAGTGAAAACTTAAAAAGACCATAAGAAGAGATAGAAGTGAAG
Found at i:36130810 original size:21 final size:21
Alignment explanation
Indices: 36130786--36130841 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
36130776 CACCATTGTT
*
36130786 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
36130807 TCTAATCTCACCGTTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
36130828 ACTAATCTCACCGC
1 TCTAATCTCACCGC
36130842 CACTGCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:36135428 original size:18 final size:18
Alignment explanation
Indices: 36135405--36135447 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36135395 GTCGATAACA
36135405 AAGAGGAAACTGAGAACG
1 AAGAGGAAACTGAGAACG
* **
36135423 AAGAGGGAGTTGAGAACG
1 AAGAGGAAACTGAGAACG
36135441 AAGAGGA
1 AAGAGGA
36135448 TCTGAAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.07, G:0.40, T:0.07
Consensus pattern (18 bp):
AAGAGGAAACTGAGAACG
Found at i:36136097 original size:84 final size:85
Alignment explanation
Indices: 36135941--36136108 Score: 194
Period size: 84 Copynumber: 2.0 Consensus size: 85
36135931 ATGCTCCACA
* * * * *
36135941 TACTTGTGTTGTTATAGGTATGTCACAGGATCAACCAAAATTGGATTCTAACCTGATCGCTGGCG
1 TACTTGTGTTGTTACAGGTATGTCACAGGATCAACCAAAACTGGATTCTAACCTGACCGCTGACA
* *
36136006 TTGTCTTACGTATGGTGAAG
66 TTATCTTACCTATGGTGAAG
* * * ** * **
36136026 TACTTGTGTTGTTGCAGGTATGTTACA-GATCATCTGAAACTGGATTCTAACTTGACCTTTGACA
1 TACTTGTGTTGTTACAGGTATGTCACAGGATCAACCAAAACTGGATTCTAACCTGACCGCTGACA
36136090 TTATCTTACCTATGGTGAA
66 TTATCTTACCTATGGTGAA
36136109 AATGAGTCCT
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
84 44 0.65
85 24 0.35
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (85 bp):
TACTTGTGTTGTTACAGGTATGTCACAGGATCAACCAAAACTGGATTCTAACCTGACCGCTGACA
TTATCTTACCTATGGTGAAG
Found at i:36143334 original size:19 final size:18
Alignment explanation
Indices: 36143306--36143345 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
36143296 CACCATTTTG
36143306 TTTGCTAATCCATTTCCC
1 TTTGCTAATCCATTTCCC
*
36143324 TTTGTCTAATCCATTTTCC
1 TTTG-CTAATCCATTTCCC
36143343 TTT
1 TTT
36143346 TACTGGGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.15, C:0.28, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTGCTAATCCATTTCCC
Found at i:36146873 original size:25 final size:24
Alignment explanation
Indices: 36146845--36146894 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
36146835 ATATATGCGT
36146845 ATAAAT-ATAGAAATAATAAGTGATA
1 ATAAATAATA-AAATAATAA-TGATA
*
36146870 ATAAATAATATAATAATAATGATA
1 ATAAATAATAAAATAATAATGATA
36146894 A
1 A
36146895 AAGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 14 0.61
26 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (24 bp):
ATAAATAATAAAATAATAATGATA
Found at i:36146884 original size:12 final size:12
Alignment explanation
Indices: 36146856--36146894 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
36146846 TAAATATAGA
36146856 AATAATAAGTGAT
1 AATAATAA-TGAT
36146869 AATAAATAAT-AT
1 AAT-AATAATGAT
36146881 AATAATAATGAT
1 AATAATAATGAT
36146893 AA
1 AA
36146895 AAGTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.25
12 9 0.38
13 4 0.17
14 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:36147845 original size:16 final size:17
Alignment explanation
Indices: 36147820--36147861 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
36147810 TATTTTTTTT
*
36147820 GTTTGTTTTGGGC-TAG
1 GTTTGGTTTGGGCTTAG
36147836 GTTTGGTTTGGGCTTAG
1 GTTTGGTTTGGGCTTAG
*
36147853 GTTTAGTTT
1 GTTTGGTTT
36147862 ATTGGGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.07, C:0.05, G:0.36, T:0.52
Consensus pattern (17 bp):
GTTTGGTTTGGGCTTAG
Found at i:36148313 original size:44 final size:44
Alignment explanation
Indices: 36148254--36148610 Score: 138
Period size: 44 Copynumber: 8.1 Consensus size: 44
36148244 CTGTAACCTC
* * * * *
36148254 AGGGAGGTAAAATCTGCCATCTTCGATTTACTCCACTACTGCCT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCCT
* * * *
36148298 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCCT
* * * * * * * *
36148342 AGGGAGAT-AGAAT-TACTAGCTTCAATATACTTCGCT-GTAACCT
1 AGGGAGATAAG-ATCTGCAATCTTCAATCTACTCCACTACT-GCCT
* * * * *
36148385 CAGGGAGGTAAAATCTGTC-ATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAGATCTG-CAATCTTCAATCTACTCCACTACTGCCT
* * * * * * *
36148430 AGGGAGATAAGATCTGAAATCTTCAATTTATTCCATTGCTACCC
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCCT
* *** * * **
36148474 AGGGAGAT-AGAAT-TACTGGCTTCAATATACTCCACTGCAACCT
1 AGGGAGATAAG-ATCTGCAATCTTCAATCTACTCCACTACTGCCT
* * ** * *
36148517 CAGGGAGGTAAAAT-T-CACCATCTTTGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAGATCTGCA--ATCTTCAATCTACTCCACTACTGCCT
* * * * *
36148562 AGGGAG-TCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCC
1 AGGGAGAT-AAGATCTGCAATCTTCAATCTACTCCACTACTGCCT
36148606 AGGGA
1 AGGGA
36148611 AGTAGAATTA
Statistics
Matches: 222, Mismatches: 75, Indels: 32
0.67 0.23 0.10
Matches are distributed among these distances:
42 1 0.00
43 43 0.19
44 140 0.63
45 35 0.16
46 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCCT
Found at i:36148387 original size:132 final size:132
Alignment explanation
Indices: 36148224--36148942 Score: 952
Period size: 132 Copynumber: 5.4 Consensus size: 132
36148214 TGGATATAGG
* * *
36148224 ACTGACTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATTTACTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCA
* *
36148289 CTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATAGA
66 CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGA
36148353 ATT
130 ATT
* * * * *
36148356 ACTAGCTTCAATATACTTCGCTGTAACCTCAGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCA
* * *
36148421 CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATTTATTCCATTGCTACCCAGGG-AGATAGA
66 CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGA
36148485 ATT
130 ATT
* * * *
36148488 ACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCC
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCC
*
36148552 ACTACTGCTTAGGGAG-TCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAG
65 ACTACTGCTTAGGGAGAT-AAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
36148616 AATT
129 AATT
* * * * *
36148620 ACTGGTTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCCCC
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCC
*
36148684 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
65 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
36148749 ATT
130 ATT
*
36148752 ACTGGCTTCAATGTACTCCACTGTAA-CTACAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTC
1 ACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATCTGCCATCTTCGATCTGC-TC
* * * ** ** **
36148816 GCTGTCTA-TGC--AAGAAGGCAAGATCTGCTATCTTTGATCTATTCCACTGCTGCCCAGGGAAG
64 -C--ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
36148878 TAGAATT
126 TAGAATT
* * *
36148885 ACTGGCATCAATGTTCTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATC
36148943 AGCTTCGCTG
Statistics
Matches: 527, Mismatches: 49, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
131 3 0.01
132 409 0.78
133 107 0.20
134 2 0.00
135 3 0.01
136 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCA
CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
TT
Found at i:36156605 original size:16 final size:17
Alignment explanation
Indices: 36156580--36156621 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
36156570 CTAATTTTTT
*
36156580 GTTTGTTTTGGGC-TAG
1 GTTTGGTTTGGGCTTAG
36156596 GTTTGGTTTGGGCTTAG
1 GTTTGGTTTGGGCTTAG
*
36156613 GTTTAGTTT
1 GTTTGGTTT
36156622 ATTGGGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.07, C:0.05, G:0.36, T:0.52
Consensus pattern (17 bp):
GTTTGGTTTGGGCTTAG
Found at i:36159697 original size:42 final size:42
Alignment explanation
Indices: 36159636--36159716 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
36159626 ACTAATATTG
*
36159636 CAACAAATTCTGGTGTTAGATTGTATCAAAAGTCTTATTTGA
1 CAACAAATTCTGGTATTAGATTGTATCAAAAGTCTTATTTGA
**
36159678 CAACAAATTCTGGTATTAGATTGTATCAGTAGTCTTATT
1 CAACAAATTCTGGTATTAGATTGTATCAAAAGTCTTATT
36159717 CCACAGTCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (42 bp):
CAACAAATTCTGGTATTAGATTGTATCAAAAGTCTTATTTGA
Found at i:36163243 original size:19 final size:17
Alignment explanation
Indices: 36163210--36163242 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36163200 ATATATTTTA
36163210 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
36163227 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
36163243 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:36168004 original size:2 final size:2
Alignment explanation
Indices: 36167997--36168022 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36167987 TCAAATTGTC
36167997 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
36168023 CTTTTTATCC
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:36168232 original size:14 final size:15
Alignment explanation
Indices: 36168215--36168249 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
36168205 ACAGTAAAAA
36168215 TTTAATACTT-AATT
1 TTTAATACTTAAATT
*
36168229 TTTAACACTTAAATT
1 TTTAATACTTAAATT
36168244 TTTAAT
1 TTTAAT
36168250 TTACGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAATACTTAAATT
Found at i:36178544 original size:31 final size:31
Alignment explanation
Indices: 36178509--36178570 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
36178499 TCGGTCATGA
*
36178509 AATTATTAATAATTTTATAATTTAGTCACTC
1 AATTATTAATAAATTTATAATTTAGTCACTC
36178540 AATTATTAATAAATTTATAATTTAGTCACTC
1 AATTATTAATAAATTTATAATTTAGTCACTC
36178571 TCAACGTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (31 bp):
AATTATTAATAAATTTATAATTTAGTCACTC
Found at i:36182171 original size:3 final size:3
Alignment explanation
Indices: 36182154--36182217 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
36182144 TTTATGCAAT
* * * * * * *
36182154 AGA ATA AGA AG- AGA AGA AGA AGA AGA AGA GGA GGA GGA GGA GGA GGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
36182201 AG- AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA
36182218 GAAAAAAATG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
2 4 0.07
3 51 0.93
ACGTcount: A:0.56, C:0.00, G:0.42, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:36186745 original size:18 final size:18
Alignment explanation
Indices: 36186722--36186797 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 18
36186712 TTAATTCTAA
*
36186722 AAAAATAAAGAAATATAT
1 AAAAATAAATAAATATAT
*
36186740 AAAAATACATAAATAT-T
1 AAAAATAAATAAATATAT
* *
36186757 TAAAAT--ATATATA-AT
1 AAAAATAAATAAATATAT
**
36186772 AAATTTAAA-AAATATAT
1 AAAAATAAATAAATATAT
36186789 AAAAATAAA
1 AAAAATAAA
36186798 AACAATTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
15 10 0.23
16 4 0.09
17 16 0.36
18 14 0.32
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (18 bp):
AAAAATAAATAAATATAT
Found at i:36186779 original size:20 final size:19
Alignment explanation
Indices: 36186714--36186794 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 19
36186704 ATTTGATCTT
36186714 AATTCTAAAAAA-ATA-AAGA
1 AATT-TAAAAAATATATAA-A
* *
36186733 AATATATAAAAATACATAAA
1 AATTTA-AAAAATATATAAA
* *
36186753 TATTTAAAATATATATAATA
1 AATTTAAAAAATATATAA-A
36186773 AATTTAAAAAATATATAAA
1 AATTTAAAAAATATATAAA
36186792 AAT
1 AAT
36186795 AAAAACAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.04
19 22 0.44
20 24 0.48
21 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (19 bp):
AATTTAAAAAATATATAAA
Found at i:36186784 original size:9 final size:10
Alignment explanation
Indices: 36186719--36186795 Score: 63
Period size: 10 Copynumber: 7.8 Consensus size: 10
36186709 ATCTTAATTC
*
36186719 TAAAAAAATA
1 TAAAAATATA
36186729 -AAGAAATATA
1 TAA-AAATATA
*
36186739 TAAAAATACA
1 TAAAAATATA
*
36186749 T--AAATATT
1 TAAAAATATA
36186757 TAAAATATATA
1 TAAAA-ATATA
*
36186768 TAATAAATTTA
1 TAA-AAATATA
36186779 -AAAAATATA
1 TAAAAATATA
36186788 TAAAAATA
1 TAAAAATA
36186796 AAAACAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
8 6 0.11
9 8 0.15
10 24 0.45
11 13 0.25
12 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (10 bp):
TAAAAATATA
Found at i:36186799 original size:18 final size:18
Alignment explanation
Indices: 36186719--36186799 Score: 54
Period size: 18 Copynumber: 4.3 Consensus size: 18
36186709 ATCTTAATTC
* * *
36186719 TAAAAAAATAAAGAAATA
1 TAAAAAAATATATAAAAA
* * *
36186737 TATAAAAATACATAAATAT
1 TAAAAAAATATATAAA-AA
* *
36186756 TTAAAATATATATAATAAA
1 TAAAAAAATATATAA-AAA
*
36186775 TTTAAAAAATATATAAAAA
1 -TAAAAAAATATATAAAAA
36186794 TAAAAA
1 TAAAAA
36186800 CAATTTTATA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
18 18 0.38
19 15 0.31
20 15 0.31
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (18 bp):
TAAAAAAATATATAAAAA
Found at i:36186840 original size:25 final size:24
Alignment explanation
Indices: 36186805--36186853 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
36186795 AAAAACAATT
* *
36186805 TTATATTAATATTAAATATAAATAA
1 TTATATCAATATCAAATA-AAATAA
36186830 TTATATCAATATCAAATAAAATAA
1 TTATATCAATATCAAATAAAATAA
36186854 AATAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TTATATCAATATCAAATAAAATAA
Found at i:36188354 original size:20 final size:21
Alignment explanation
Indices: 36188329--36188380 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 21
36188319 AAATGAATTC
36188329 TTTAATTAAAAAT-ATTTTTA
1 TTTAATTAAAAATCATTTTTA
36188349 TTTAATTATCAAAAATCATTTTTA
1 TTTAA-T-T-AAAAATCATTTTTA
*
36188373 TTGAATTA
1 TTTAATTA
36188381 TGGAGACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 5 0.19
21 2 0.07
22 2 0.07
23 7 0.26
24 11 0.41
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTAATTAAAAATCATTTTTA
Found at i:36188370 original size:23 final size:23
Alignment explanation
Indices: 36188336--36188381 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
36188326 TTCTTTAATT
*
36188336 AAAAATATTTTTATTTAATTATC
1 AAAAATATTTTTATTGAATTATC
36188359 AAAAATCATTTTTATTGAATTAT
1 AAAAAT-ATTTTTATTGAATTAT
36188382 GGAGACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
AAAAATATTTTTATTGAATTATC
Found at i:36201968 original size:15 final size:15
Alignment explanation
Indices: 36201948--36201978 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36201938 TTTCCAATTC
36201948 ACCAAGTATCTCCAT
1 ACCAAGTATCTCCAT
*
36201963 ACCAAGTATCTTCAT
1 ACCAAGTATCTCCAT
36201978 A
1 A
36201979 TAAAAAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (15 bp):
ACCAAGTATCTCCAT
Found at i:36206991 original size:46 final size:46
Alignment explanation
Indices: 36206923--36207048 Score: 132
Period size: 44 Copynumber: 2.8 Consensus size: 46
36206913 ATACGTCACC
* ** * *
36206923 TATGAAACCGTCGTTCAGTGAGAGTCGAAGCCAGAGTCATGACACT
1 TATGAAACTGTCACTCAATGAGAGTCGAAGCCAGAGTCACGACACT
*
36206969 TATGAAACTGTCACTCAATGAGAG-C-AA-CTCAGAGTCACGTCACT
1 TATGAAACTGTCACTCAATGAGAGTCGAAGC-CAGAGTCACGACACT
** * *
36207013 TATGAATTTGTCACTCAATGGGAGTCGAAGTCAGAG
1 TATGAAACTGTCACTCAATGAGAGTCGAAGCCAGAG
36207049 CGAGGTATCT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
43 1 0.02
44 36 0.55
45 2 0.03
46 27 0.41
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (46 bp):
TATGAAACTGTCACTCAATGAGAGTCGAAGCCAGAGTCACGACACT
Found at i:36210125 original size:205 final size:205
Alignment explanation
Indices: 36209793--36210352 Score: 924
Period size: 205 Copynumber: 2.7 Consensus size: 205
36209783 AGCTGGAACT
* *
36209793 AGGTACATTGAAACTAGTCTCCTTTTTCCCTTCGATATTGAACAAAAAAATAATTTTGAAATTTG
1 AGGTACATTGAAACTAGTCTCCTATTTCCCTCCGATATTGAACAAAAAAATAATTTTGAAATTTG
* * *
36209858 AATTACAATATGATAATGCTTGGTGCAGTGTAATTAATGAATGGAGATTCTCAATGAAAATTTTG
66 AATTACAATATAATAATGCTTGGTGCGGTGTAATTAATGAATGGAGATTCTCAGTGAAAATTTTG
* * *
36209923 ATTACACGTTTCATTCACATACAAATAATACATCACTTCTGAAACTGTCACTCAGTGAGAGTAGA
131 ATTACACGTTTCATTCACACACAAATAACACATCACTTATGAAACTGTCACTCAGTGAGAGTAGA
36209988 AACCAGAGCC
196 AACCAGAGCC
* * *
36209998 AGGTACATTGAAA-TGAGTCTCCTATTTCACTCCGATAATGAACAAAAAAATAATTTGGAAATTT
1 AGGTACATTGAAACT-AGTCTCCTATTTCCCTCCGATATTGAACAAAAAAATAATTTTGAAATTT
36210062 GAATTACAATATAATAATGCTTGGTGCGGTGTAATTAATGAATGGAGATTCTCAGTGAAAATTTT
65 GAATTACAATATAATAATGCTTGGTGCGGTGTAATTAATGAATGGAGATTCTCAGTGAAAATTTT
* * * *
36210127 TATTACAGGTTTCATTCACACACAAATGACACATCACTTATGAAACTGTCACTCAGTGAGAGTTG
130 GATTACACGTTTCATTCACACACAAATAACACATCACTTATGAAACTGTCACTCAGTGAGAGTAG
36210192 AAACCAGAGCC
195 AAACCAGAGCC
*
36210203 AGGTACATCGAAACTAGTCTCCTATTTCCCTCCGATATTGAACAAAAAAATAATTTTGAAATTTG
1 AGGTACATTGAAACTAGTCTCCTATTTCCCTCCGATATTGAACAAAAAAATAATTTTGAAATTTG
* * *
36210268 AATTACAATATAATAATGCTTAGTGTGGTGTAATTAATAAATGGAGATTCTCAGTGAAAATTTTG
66 AATTACAATATAATAATGCTTGGTGCGGTGTAATTAATGAATGGAGATTCTCAGTGAAAATTTTG
*
36210333 ATTACACATTTCATTCACAC
131 ATTACACGTTTCATTCACAC
36210353 TTATGAAACT
Statistics
Matches: 328, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
204 1 0.00
205 326 0.99
206 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (205 bp):
AGGTACATTGAAACTAGTCTCCTATTTCCCTCCGATATTGAACAAAAAAATAATTTTGAAATTTG
AATTACAATATAATAATGCTTGGTGCGGTGTAATTAATGAATGGAGATTCTCAGTGAAAATTTTG
ATTACACGTTTCATTCACACACAAATAACACATCACTTATGAAACTGTCACTCAGTGAGAGTAGA
AACCAGAGCC
Found at i:36211013 original size:2 final size:2
Alignment explanation
Indices: 36211008--36211037 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36210998 TTAATATTTC
36211008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36211038 GAAATATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36213808 original size:6 final size:6
Alignment explanation
Indices: 36213797--36213822 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36213787 CAGAAGAAGA
36213797 TTTGGG TTTGGG TTTGGG TTTGGG TT
1 TTTGGG TTTGGG TTTGGG TTTGGG TT
36213823 CATAAGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (6 bp):
TTTGGG
Found at i:36226289 original size:15 final size:15
Alignment explanation
Indices: 36226264--36226296 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
36226254 ATATGGTTAT
36226264 TAATATAATTAAATAA
1 TAATATAATTAAA-AA
36226280 TAAT-TAATTAAAAA
1 TAATATAATTAAAAA
36226294 TAA
1 TAA
36226297 ATACTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 8 0.47
16 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATATAATTAAAAA
Found at i:36227790 original size:8 final size:8
Alignment explanation
Indices: 36227777--36227811 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
36227767 CACCCCTTTA
36227777 AAAATTTT
1 AAAATTTT
36227785 AAAATTTT
1 AAAATTTT
36227793 AAAATTTT
1 AAAATTTT
36227801 AAAATTTT
1 AAAATTTT
36227809 AAA
1 AAA
36227812 TTAGTAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAAATTTT
Found at i:36227819 original size:16 final size:16
Alignment explanation
Indices: 36227777--36227820 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
36227767 CACCCCTTTA
*
36227777 AAAATTTTAAAATTTT
1 AAAATTGTAAAATTTT
*
36227793 AAAATTTTAAAATTTT
1 AAAATTGTAAAATTTT
36227809 -AAATTAGTAAAA
1 AAAATT-GTAAAA
36227821 GTAAAATTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AAAATTGTAAAATTTT
Found at i:36229048 original size:29 final size:30
Alignment explanation
Indices: 36229015--36229072 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
36229005 AACCTTTTAT
*
36229015 TTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
36229044 TTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTCCCCCAAAACTTTTACTCCCTTCCCA
36229073 TCTATCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:36229712 original size:26 final size:26
Alignment explanation
Indices: 36229676--36229757 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
36229666 CAAAAATTAT
36229676 TCGATTCGAATTCCATCTCACTCGAC
1 TCGATTCGAATTCCATCTCACTCGAC
36229702 TCGATTCGAATTCCATCTCACTCGAC
1 TCGATTCGAATTCCATCTCACTCGAC
*
36229728 TCGATTCGAATTCTATCTCACTCGAC
1 TCGATTCGAATTCCATCTCACTCGAC
36229754 TCGA
1 TCGA
36229758 GAAAACTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.32
Consensus pattern (26 bp):
TCGATTCGAATTCCATCTCACTCGAC
Found at i:36232937 original size:2 final size:2
Alignment explanation
Indices: 36232930--36232958 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36232920 TGAAAATACG
36232930 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 T
36232959 TGTAAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36233054 original size:38 final size:38
Alignment explanation
Indices: 36232998--36233131 Score: 114
Period size: 38 Copynumber: 3.6 Consensus size: 38
36232988 ATATATATGA
* **
36232998 GTACGTATATGTACATATATATAAGTTATAAAAAATAT
1 GTACGTATATATGTATATATATAAGTTATAAAAAATAT
* * * *
36233036 GTACGTATCTATGTATATATA-GA-TTATAAAAATGTAC
1 GTACGTATATATGTATATATATAAGTTATAAAAA-ATAT
* * *
36233073 ATATGTATATATGTATATATA-GA-TTATAAAAAATAT
1 GTACGTATATATGTATATATATAAGTTATAAAAAATAT
*
36233109 ACGTATGTATATATGTATATATA
1 --GTACGTATATATGTATATATA
36233132 AATTACAAAG
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
36 11 0.14
37 32 0.40
38 37 0.46
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (38 bp):
GTACGTATATATGTATATATATAAGTTATAAAAAATAT
Found at i:36235260 original size:88 final size:88
Alignment explanation
Indices: 36235096--36235261 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 88
36235086 CACTACTGCT
* * * *
36235096 TAGGGAGACAGGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCT
1 TAGGAAGACAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGATGCT
**
36235161 TTCGATCTGCTTCACTGCCAGTA
66 TTAAATCTGCTTCACTGCCAGTA
* *
36235184 TAGGAAGACAAGATCTACAATCTTT-GACCTACTCCGCTGCTGCTCAGGGAGAT-AGGACTGATG
1 TAGGAAGACAAGATCTACAAT-TTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG-CTGAT-
*
36235247 GC-TTAAATTTGCTTC
63 GCTTTAAATCTGCTTC
36235262 CCTACTACCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
87 3 0.05
88 58 0.88
89 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (88 bp):
TAGGAAGACAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGATGCT
TTAAATCTGCTTCACTGCCAGTA
Found at i:36235393 original size:220 final size:219
Alignment explanation
Indices: 36234839--36235378 Score: 893
Period size: 220 Copynumber: 2.5 Consensus size: 219
36234829 CGTCAGGGAA
*
36234839 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATTTTCAAC
1 ATAAGATTCG-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAAC
* * * *
36234904 CTACTCCATTGCTACTCAGAGAGATAAGGCTGGTGCTTTCGATCTACTTCACTGCCAGTACAAGA
65 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAAGA
* *
36234969 AGACAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTTAGGAAGATATGGCTGGTGGCTTAAA
130 AGACAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGAAGATATGGCTGATGGCTTAAA
36235034 TATGCTTCCCTACTACCTTGAGAAG
195 TATGCTTCCCTACTACCTTGAGAAG
* * *
36235059 ATAAGATTCGACATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATTTTCAAC
1 ATAAGATTCG-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAAC
* *
36235124 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTATAGGA
65 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAAGA
* *
36235189 AGACAAGATCTACAATCTTTGACCTACTCCGCTGCTGCTCAGGGAGATA-GGACTGATGGCTTAA
130 AGACAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGAAGATATGG-CTGATGGCTTAA
*
36235253 ATTTGCTTCCCTACTACCTTGAGAAG
194 ATATGCTTCCCTACTACCTTGAGAAG
*
36235279 ATAAGATTCGCTGTCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAAC
1 ATAAGATTCGC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAAC
36235344 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTG
65 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTG
36235379 GCTTAAATCT
Statistics
Matches: 298, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
219 3 0.01
220 295 0.99
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (219 bp):
ATAAGATTCGCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAACC
TACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAAGAA
GACAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGAAGATATGGCTGATGGCTTAAAT
ATGCTTCCCTACTACCTTGAGAAG
Found at i:36236350 original size:8 final size:7
Alignment explanation
Indices: 36236331--36236367 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
36236321 TGGCATCTCC
36236331 TTTTTCT
1 TTTTTCT
36236338 TTTTTCT
1 TTTTTCT
36236345 TCTTTTC-
1 T-TTTTCT
36236352 TTTTTCT
1 TTTTTCT
36236359 TTTTT-T
1 TTTTTCT
36236365 TTT
1 TTT
36236368 CCTTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 9 0.32
7 14 0.50
8 5 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:36236375 original size:11 final size:10
Alignment explanation
Indices: 36236331--36236366 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
36236321 TGGCATCTCC
36236331 TTTTTCTTTT
1 TTTTTCTTTT
*
36236341 TTCTTCTTTT
1 TTTTTCTTTT
36236351 CTTTTTCTTTT
1 -TTTTTCTTTT
36236362 TTTTT
1 TTTTT
36236367 TCCTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:36241783 original size:20 final size:21
Alignment explanation
Indices: 36241740--36241788 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
36241730 ATAGATATAT
*
36241740 ATATATATAGATATGTAAACAA
1 ATATATA-AAATATGTAAACAA
36241762 AT-TATAAAATATGTATAA-AA
1 ATATATAAAATATGTA-AACAA
36241782 ATATATA
1 ATATATA
36241789 TGAGTACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 12 0.50
21 10 0.42
22 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
ATATATAAAATATGTAAACAA
Found at i:36241892 original size:33 final size:33
Alignment explanation
Indices: 36241816--36241893 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
36241806 ATATATAAGT
* *
36241816 TATAAAAAATATGTACGTATCTATGTATATATA
1 TATAAAAAAAATGTACGTATCTATATATATATA
* * * * *
36241849 GATTATAAAAATGTACGTATGTATATATGTATA
1 TATAAAAAAAATGTACGTATCTATATATATATA
36241882 TATAAAAAAAAT
1 TATAAAAAAAAT
36241894 AAAAGAGGGG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (33 bp):
TATAAAAAAAATGTACGTATCTATATATATATA
Found at i:36247929 original size:36 final size:37
Alignment explanation
Indices: 36247882--36247973 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
36247872 GTCTCCAAAT
*
36247882 TCACAATTCAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
* *
36247918 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCAATTC-AATTTCACTTTTCCACTTTCAAG
*
36247956 TCA-ATATTCATTTCAATT
1 TCACA-ATTCAATTCAATT
36247974 CCTCACATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
36 14 0.29
37 23 0.48
38 11 0.23
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.43
Consensus pattern (37 bp):
TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
Found at i:36247974 original size:36 final size:35
Alignment explanation
Indices: 36247882--36247974 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 35
36247872 GTCTCCAAAT
*
36247882 TCACAATTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAA-TTCACTTTTCCACTTTCAA
*
36247918 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAA
1 TCACAATTCAATTC--AATTCACTTTTCCACTTTCAA
*
36247955 GTCA-ATATTCATTTCAATTC
1 -TCACA-ATTCAATTCAATTC
36247975 CTCACATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
36 19 0.38
37 18 0.36
38 13 0.26
ACGTcount: A:0.32, C:0.24, G:0.01, T:0.43
Consensus pattern (35 bp):
TCACAATTCAATTCAATTCACTTTTCCACTTTCAA
Found at i:36248330 original size:22 final size:24
Alignment explanation
Indices: 36248288--36248331 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
36248278 TAACTAAGTT
36248288 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
36248312 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
36248332 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:36249096 original size:11 final size:11
Alignment explanation
Indices: 36249058--36249096 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
36249048 ATATTTGTAA
36249058 TATAATTAATT
1 TATAATTAATT
*
36249069 TAATAATATACTT
1 T-ATAAT-TAATT
36249082 TATAATTAATT
1 TATAATTAATT
36249093 TATA
1 TATA
36249097 TATTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:36258076 original size:25 final size:25
Alignment explanation
Indices: 36258041--36258090 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
36258031 CTTATATATA
36258041 TTGATACCTATGGATAAAATAAATT
1 TTGATACCTATGGATAAAATAAATT
* ** *
36258066 TTGATATCTATTTATTAAATAAATT
1 TTGATACCTATGGATAAAATAAATT
36258091 CCAAGTATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (25 bp):
TTGATACCTATGGATAAAATAAATT
Found at i:36266418 original size:25 final size:25
Alignment explanation
Indices: 36266376--36266484 Score: 98
Period size: 24 Copynumber: 4.4 Consensus size: 25
36266366 AATTCATATT
36266376 CGGGAACGCTCATGTGAG-CATATAAA
1 CGGGAA-GCTCATGTGAGCCATAT-AA
* *
36266402 CGGGAAGCTCTTTTGAGCCATATAA
1 CGGGAAGCTCATGTGAGCCATATAA
** *
36266427 CGGGAAGCTCATAAGAGCCATA-AT
1 CGGGAAGCTCATGTGAGCCATATAA
** *
36266451 CGGGAAGCTCATACGAGCCA-ATAT
1 CGGGAAGCTCATGTGAGCCATATAA
*
36266475 CGGGTAGCTC
1 CGGGAAGCTC
36266485 CGGAGAGCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 1 0.01
24 31 0.42
25 30 0.41
26 11 0.15
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (25 bp):
CGGGAAGCTCATGTGAGCCATATAA
Found at i:36266469 original size:49 final size:49
Alignment explanation
Indices: 36266397--36266568 Score: 143
Period size: 49 Copynumber: 3.4 Consensus size: 49
36266387 ATGTGAGCAT
* * ** **
36266397 ATAAACGGGAAGCTCTTTTGAGCCATATAACGGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCCATATAACGGGAAGCTCCGAAGAGCC
* * * *
36266446 ATAATCGGGAAGCTCATACGAGCCA-ATATCGGGTAGCTCCGGAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCCATATAACGGGAAGCTCCGAAGAGCC
** * *
36266494 ATTAATCAAGAAGCTCATGAAAGAGCC-TTTAATCAGGAAGCTCCGAAGAGCC
1 A-TAATCGGGAAGCTCAT--AAGAGCCATATAA-CGGGAAGCTCCGAAGAGCC
36266546 ATATATC-GGAACGCTCATAAGAG
1 ATA-ATCGGGAA-GCTCATAAGAG
36266569 TTGCGGTGTG
Statistics
Matches: 98, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
48 19 0.19
49 35 0.36
50 5 0.05
51 13 0.13
52 26 0.27
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (49 bp):
ATAATCGGGAAGCTCATAAGAGCCATATAACGGGAAGCTCCGAAGAGCC
Found at i:36266567 original size:25 final size:25
Alignment explanation
Indices: 36266370--36266568 Score: 124
Period size: 25 Copynumber: 8.0 Consensus size: 25
36266360 TCCGTCAATT
**
36266370 CATAT-TCGGGAACGCTCATGTGAG-
1 CATATATCGGGAA-GCTCATAAGAGC
* * **
36266394 CATATAAACGGGAAGCTCTTTTGAGC
1 CATAT-ATCGGGAAGCTCATAAGAGC
*
36266420 CATATAACGGGAAGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
*
36266445 CATA-ATCGGGAAGCTCATACGAGC
1 CATATATCGGGAAGCTCATAAGAGC
* ***
36266469 CA-ATATCGGGTAGCTCCGGAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
**
36266493 CAT-TAATCAAGAAGCTCATGAAAGAGC
1 CATAT-ATCGGGAAGCTCAT--AAGAGC
* * **
36266520 C-TTTAATCAGGAAGCTCCGAAGAGC
1 CATAT-ATCGGGAAGCTCATAAGAGC
36266545 CATATATC-GGAACGCTCATAAGAG
1 CATATATCGGGAA-GCTCATAAGAG
36266569 TTGCGGTGTG
Statistics
Matches: 139, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.01
24 47 0.34
25 58 0.42
26 14 0.10
27 19 0.14
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (25 bp):
CATATATCGGGAAGCTCATAAGAGC
Found at i:36266690 original size:24 final size:24
Alignment explanation
Indices: 36266632--36266714 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
36266622 GAGCTATTAA
* *
36266632 CGGGAAGTTCGTGAGAGCCATATAT
1 CGGGAAGCTCATGAGAGCCA-ATAT
**
36266657 CAAGAAGCTCATGAGAGCCAATAT
1 CGGGAAGCTCATGAGAGCCAATAT
* * * *
36266681 CGGGATGCTCATAAGAGCTAATAA
1 CGGGAAGCTCATGAGAGCCAATAT
*
36266705 CGGGACGCTC
1 CGGGAAGCTC
36266715 TTGCAAGCTA
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
24 31 0.66
25 16 0.34
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCATGAGAGCCAATAT
Found at i:36268851 original size:35 final size:36
Alignment explanation
Indices: 36268811--36268882 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
36268801 ACTAGGATCA
36268811 CATATC-TCCAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTCCAAAGATCACCTTCCATATTTGCCAAG
*** * *
36268846 CATATCTTTGGAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCCAAAGATCACCTTCCATATTTGCCAAG
36268882 C
1 C
36268883 TCTGGAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 6 0.19
36 25 0.81
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (36 bp):
CATATCTTCCAAAGATCACCTTCCATATTTGCCAAG
Found at i:36274800 original size:19 final size:20
Alignment explanation
Indices: 36274778--36274819 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
36274768 TTTTTTTGGG
*
36274778 AAATAACTT-AGTTAATGAA
1 AAATAACTTAAGTCAATGAA
* *
36274797 AAATCATTTAAGTCAATGAA
1 AAATAACTTAAGTCAATGAA
36274817 AAA
1 AAA
36274820 ATAAAGCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATAACTTAAGTCAATGAA
Found at i:36285241 original size:201 final size:199
Alignment explanation
Indices: 36284895--36286208 Score: 1114
Period size: 201 Copynumber: 6.7 Consensus size: 199
36284885 GGAGGAAGTT
* * * * * *
36284895 GAGTTCCTAATATCCCTTTCTTTACCACCACAATAATCTGAAACATTTGGTGTTGAAATTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* *
36284960 TTCAGAGCAACTTGATGCAAGGGTCACCGGACGT-GTCATGTTTCTCATATCCAATTCATCTCTC
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGAC-TAGTCATGTTTCTCATATCCAATTCATCCCTC
* * ** * *
36285024 ACAACATTGATGGGTTCTGGAGATGAGGAAAAGGAGTTGCCGGTATCCATTTCTTTAACAACGGA
130 GCAACATTTATGGGTTCTGGAGATGAGGAAAA-GAGTT-CCAATATCCATTTCTTTAACACCAGA
*
36285089 GGGCATG
193 GGGAATG
*
36285096 GAGTTCCT-ACAATCCATTTCTTTAACACCAGAATAATCCAAAACATTTGGTGTTGAACTTAAAG
1 GAGTTCCTAAC-ATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAG
* * * *
36285160 CTTCAGAGCAGCTTGATGCAAGGGTCACTGAACTAGTCATGTTTCTTACATCCAATTCATCCCTC
65 CTTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTC
* * * ***
36285225 GCAACATTTGTGGGTTCTGGAGATGAGGAAATGGAGTTCCCAATATCCATTTCTTTAAAAGTGGA
130 GCAACATTTATGGGTTCTGGAGATGAGGAAA-AGAGTT-CCAATATCCATTTCTTTAACACCAGA
*
36285290 GGGCATG
193 GGGAATG
** * ** *
36285297 GAGTTCCTAACATCCACCTCTTTAACACAAGAATAATATGAAACATTTGATGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * * *
36285362 TTCATAGCAGCTTGCTGCAAGGGTCACTGGACTAATCCTGTTTCTCATATCTAATTCATCCCTCA
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
* * *
36285427 CAACATTCATGGGTTCTGGAGACGAGGAAATAGAGTTCACAATAAT-CATTTCTTGAACACCAGA
131 CAACATTTATGGGTTCTGGAGATGAGGAAA-AGAGTTC-CAAT-ATCCATTTCTTTAACACCAGA
*
36285491 GGTAAT-
193 GGGAATG
** * * *
36285497 G-G--------A--CATTTCTTCGACACCAGAATAATCCAAAATATTTGGTGTTGAACTTAGAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * ** *
36285551 TCCACAGAAACTTAATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCCCTCG
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
* * * * * * *
36285616 TAACATCTA-----TC---AGTTCA-G--CAGA--TCCAATATCCATATCTTTAACACCGGAGGG
131 CAACATTTATGGGTTCTGGAGATGAGGAAAAGAGTTCCAATATCCATTTCTTTAACACCAGAGGG
**
36285668 AACA
196 AATG
* *
36285672 GAGTTCCTAAAATCCATTTCTTCT-ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAG
1 GAGTTCCTAACATCCATTTCTT-TAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAG
* * * * ** * *
36285736 CTTCAGAGAAACTTGATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATATAGTTCATCCCTT
65 CTTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTC
** *** * * * ** * * * *
36285801 GCTTCATTTACAAGTTTTGGGGATGAAGAAGCTGAGTTACTAATACCCATTTCTTCAACAGCAGA
130 GCAACATTTATGGGTTCTGGAGATGAGGAA-AAGAGTT-CCAATATCCATTTCTTTAACACCAGA
** *
36285866 GCAAATA
193 GGGAATG
* * * *
36285873 GAGTTCCTAACATCCGTTTCTTCAACACCAGAATAATCCGAAACATTTGGTGCTGAGCTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
** * * *
36285938 TTCAGAGCAACTTGACACAAGGGTCACTGGGCTAGTCATGGTTCTCATATCCAATTCATCCCTCA
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
* * ** * * * ** * *
36286003 CATCATCTATAAGTCCTCGAGATGAGGAAACACAGCACCTAGTATCCGTTTCTTTAACACCAGAG
131 CAACATTTATGGGTTCTGGAGATGAGGAAA-AGAGTTCC-AATATCCATTTCTTTAACACCAGAG
36286068 GGAATG
194 GGAATG
* ** * * * *
36286074 GAGTTCCTCACATCCATTTCCGTGAGACCAGAATAAT------CATTTGATGTTGAACTTGAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * * *
36286133 TTCAGTGCAACTTGATGTAAGAGTCAGTGAACTAGTCATGTTTCTCATATACAATTCATTCCTCG
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
36286198 CAACATTTATG
131 CAACATTTATG
36286209 AGTTTCCCAA
Statistics
Matches: 891, Mismatches: 184, Indels: 82
0.77 0.16 0.07
Matches are distributed among these distances:
173 2 0.00
174 23 0.03
175 3 0.00
176 1 0.00
177 3 0.00
180 1 0.00
181 3 0.00
184 3 0.00
186 107 0.12
189 98 0.11
191 2 0.00
194 3 0.00
195 80 0.09
198 3 0.00
199 1 0.00
200 6 0.01
201 548 0.62
202 4 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (199 bp):
GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
CAACATTTATGGGTTCTGGAGATGAGGAAAAGAGTTCCAATATCCATTTCTTTAACACCAGAGGG
AATG
Found at i:36286766 original size:99 final size:99
Alignment explanation
Indices: 36286602--36286852 Score: 351
Period size: 99 Copynumber: 2.5 Consensus size: 99
36286592 ATGGGCATCA
* * * * * *
36286602 TCCCTAATACTTAAACAGCTCATAGGGGCATCATTA-TTGCTACTTGGCCTGCTAACGGGACAAT
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCATCACTT-CTACTTGGCCTGCTAAAGGGACAAT
* *
36286666 CTTCACCAGCAGTTGGTCCACTTACAGGGGCATTT
65 CTTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
* **
36286701 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACTTCTACTTGGCCTGCTAAAGGGGTAATC
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCATCACTTCTACTTGGCCTGCTAAAGGGACAATC
36286766 TTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
66 TTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
* ** *
36286800 TCCCCCATACTTAACCTGCTTATAGGGGCATCATCACCGCTACTAGGCCTGCT
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCATCACTTCTACTTGGCCTGCT
36286853 TATAGGAGCA
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
99 133 0.99
100 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (99 bp):
TCCCCAATACTTAACCTGCTTATAGGGGCATCATCACTTCTACTTGGCCTGCTAAAGGGACAATC
TTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
Found at i:36286856 original size:33 final size:33
Alignment explanation
Indices: 36286814--36286934 Score: 115
Period size: 33 Copynumber: 3.7 Consensus size: 33
36286804 CCATACTTAA
*
36286814 CCTGCTTATAGGGGCATCATCACC-GCTACTAGG
1 CCTGCTTATAGGAGCATCATC-CCAGCTACTAGG
*
36286847 CCTGCTTATAGGAGCATCATCCCAGGTACTTGAGG
1 CCTGCTTATAGGAGCATCATCCCAGCTAC-T-AGG
* * *
36286882 --TGCTCACAGGGGCATCATCCCTA-CTACTAGG
1 CCTGCTTATAGGAGCATCATCCC-AGCTACTAGG
* *
36286913 GCTACTTATAGGAGCATCATCC
1 CCTGCTTATAGGAGCATCATCC
36286935 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:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (33 bp):
CCTGCTTATAGGAGCATCATCCCAGCTACTAGG
Found at i:36286877 original size:66 final size:66
Alignment explanation
Indices: 36286807--36286934 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
36286797 TTTTCCCCCA
* * * *
36286807 TACTTAACCTGCTTATAGGGGCATCATCACC-GCTACTAGGCCTGCTTATAGGAGCATCATCCCA
1 TACTTAACCTGCTCACAGGGGCATCATC-CCTACTACTAGGCCTACTTATAGGAGCATCATCCCA
36286871 GG
65 GG
* ** *
36286873 TACTTGAGGTGCTCACAGGGGCATCATCCCTACTACTAGGGCTACTTATAGGAGCATCATCC
1 TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGCCTACTTATAGGAGCATCATCC
36286935 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:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (66 bp):
TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGCCTACTTATAGGAGCATCATCCCAG
G
Found at i:36286891 original size:99 final size:99
Alignment explanation
Indices: 36286602--36286896 Score: 238
Period size: 99 Copynumber: 3.0 Consensus size: 99
36286592 ATGGGCATCA
* * * * ** ** * * *
36286602 TCCCTAATACTTAAACAGCTCATAGGGGCATCATTATTGCTACTTGGCCTGCTAACGG-GACAAT
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACCGCTACTAGGCCTGCTAAAGGAG-TAAT
* * *
36286666 CTTCACCAGCAGTTG-GTCCACTTACAGGGGCATTT
65 CATCACCAGCACTTGAG-CCACTCACAGGGGCATTT
** * *
36286701 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACTTCTACTTGGCCTGCTAAAGGGGTAATC
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACCGCTACTAGGCCTGCTAAAGGAGTAATC
* * ** * *
36286766 TTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
66 ATCACCAGCACTTGAGCCACTCACAGGGGCATTT
* * * *
36286800 TCCCCCATACTTAACCTGCTTATAGGGGCATCATCACCGCTACTAGGCCTGCTTATAGGAG-CAT
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACCGCTACTAGGCCTGC-TAAAGGAGTAAT
* ***
36286864 CATC-CCAGGTACTTGAGGTGCTCACAGGGGCAT
65 CATCACCA-GCACTTGAGCCACTCACAGGGGCAT
36286897 CATCCCTACT
Statistics
Matches: 162, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
98 3 0.02
99 152 0.94
100 7 0.04
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (99 bp):
TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACCGCTACTAGGCCTGCTAAAGGAGTAATC
ATCACCAGCACTTGAGCCACTCACAGGGGCATTT
Found at i:36293533 original size:17 final size:17
Alignment explanation
Indices: 36293511--36293550 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
36293501 TAAATTTAAT
*
36293511 TTTTAATTTACA-TATTA
1 TTTTAATTTA-ATTATGA
36293528 TTTTAATTTAATTATGA
1 TTTTAATTTAATTATGA
36293545 TTTTAA
1 TTTTAA
36293551 AAAAATGATA
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:36298970 original size:16 final size:18
Alignment explanation
Indices: 36298951--36298984 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36298941 AAGTGAAATA
36298951 AATTTAA-A-AAAATATT
1 AATTTAATATAAAATATT
36298967 AATTTAATATAAAATATT
1 AATTTAATATAAAATATT
36298985 TTTAATACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAATATAAAATATT
Found at i:36298988 original size:16 final size:17
Alignment explanation
Indices: 36298959--36298991 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36298949 TAAATTTAAA
36298959 AAAATATTAATTTAATAT
1 AAAATATT-ATTTAATAT
36298977 AAAATATT-TTTAATA
1 AAAATATTATTTAATA
36298992 CTATAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATTATTTAATAT
Done.