Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 121 of 230
Found at i:35217394 original size:23 final size:23
Alignment explanation
Indices: 35217368--35217489 Score: 156
Period size: 23 Copynumber: 5.3 Consensus size: 23
35217358 ATAAGTGACA
35217368 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
35217391 CACTGATACGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
35217414 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35217437 CACTGATATGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
* * * *
35217460 TATTGAAATGTAACCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35217483 CACTGAT
1 CACTGAT
35217490 CAATAACACT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
22 1 0.01
23 80 0.98
24 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:35217435 original size:46 final size:46
Alignment explanation
Indices: 35217368--35217489 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
35217358 ATAAGTGACA
* * *
35217368 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
*
35217414 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
* * *
35217460 TATTGAAATGTAACCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
35217490 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
Found at i:35232978 original size:108 final size:108
Alignment explanation
Indices: 35232789--35233007 Score: 402
Period size: 108 Copynumber: 2.0 Consensus size: 108
35232779 ATACAACATA
*
35232789 CTTGTAAAATAAAATATGTTATGTTTTATTCTTTAGTCGATTGTTAAAAAATGAACCTTGTCGCA
1 CTTGTAAAATAAAATATGTTATGTTTTATTCTTTAGTCGATTGTTAAAAAACGAACCTTGTCGCA
35232854 TAAGTAAAATTTCAAATAAGATTACTGGAACAACTATTGTTCC
66 TAAGTAAAATTTCAAATAAGATTACTGGAACAACTATTGTTCC
35232897 CTTGTAAAATAAAATATGTTATGTTTTATTCTTTAGTCGATTGTTAAAAAACGAACCTTGTCGCA
1 CTTGTAAAATAAAATATGTTATGTTTTATTCTTTAGTCGATTGTTAAAAAACGAACCTTGTCGCA
* * *
35232962 TAAGTAAATTTTCAAATAGGATTACTGGAGCAACTATTGTTCC
66 TAAGTAAAATTTCAAATAAGATTACTGGAACAACTATTGTTCC
35233005 CTT
1 CTT
35233008 TCAGAAATTC
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (108 bp):
CTTGTAAAATAAAATATGTTATGTTTTATTCTTTAGTCGATTGTTAAAAAACGAACCTTGTCGCA
TAAGTAAAATTTCAAATAAGATTACTGGAACAACTATTGTTCC
Found at i:35234866 original size:28 final size:28
Alignment explanation
Indices: 35234826--35234881 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
35234816 GTATACTCTG
35234826 ACAATATTTATATATAAATTCATGAGTA
1 ACAATATTTATATATAAATTCATGAGTA
35234854 ACAATATTTATATATAAATTCATGAGTA
1 ACAATATTTATATATAAATTCATGAGTA
35234882 TGAGGAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (28 bp):
ACAATATTTATATATAAATTCATGAGTA
Found at i:35241461 original size:23 final size:22
Alignment explanation
Indices: 35241431--35241477 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
35241421 TTTTAGCGTT
35241431 TGAAGAAGAACCACTTGTAGGTC
1 TGAAGAAGAACCACTTGTA-GTC
*
35241454 TGAAGAAGAACCTCTTGTAGTC
1 TGAAGAAGAACCACTTGTAGTC
35241476 TG
1 TG
35241478 TGTTATACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
TGAAGAAGAACCACTTGTAGTC
Found at i:35242268 original size:17 final size:17
Alignment explanation
Indices: 35242241--35242286 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
35242231 AAAGTTTAGG
35242241 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
35242259 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
35242274 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
35242287 TAGGGGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:35242656 original size:9 final size:9
Alignment explanation
Indices: 35242638--35242674 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
35242628 TATAGTTTGA
*
35242638 TATTCAAAT
1 TATTCGAAT
35242647 TATTCGAAT
1 TATTCGAAT
*
35242656 TATTCGAGT
1 TATTCGAAT
35242665 TATTCGAAT
1 TATTCGAAT
35242674 T
1 T
35242675 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:35242743 original size:9 final size:9
Alignment explanation
Indices: 35242726--35242765 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
35242716 TCGAGTTGAT
35242726 TCGAATAAC
1 TCGAATAAC
*
35242735 TCGATTAAC
1 TCGAATAAC
35242744 TCGAATAAC
1 TCGAATAAC
35242753 TCGAATAAC
1 TCGAATAAC
35242762 TCGA
1 TCGA
35242766 TTCGTTTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (9 bp):
TCGAATAAC
Found at i:35242893 original size:74 final size:71
Alignment explanation
Indices: 35242767--35242914 Score: 242
Period size: 74 Copynumber: 2.0 Consensus size: 71
35242757 ATAACTCGAT
35242767 TCGTTTAACTCGAAATACGATTTTTTTTTATTTTTCCGAGTCGAATCAAGTTTTGCTCACTCCTA
1 TCGTTTAACTCGAAATACGATTTTTTTTTATTTTTCCGAGTCGAATCAAGTTTTGCTCACTCCTA
35242832 GCTACA
66 GCTACA
* *
35242838 TCGTTTAACTCGAAATACGAATTTTTTTTTTGATTTTTTCGAGTCGAATCGAGTTTTGCTCACTC
1 TCGTTTAACTCGAAATACG-A-TTTTTTTTT-ATTTTTCCGAGTCGAATCAAGTTTTGCTCACTC
*
35242903 CTAGTTACA
63 CTAGCTACA
35242912 TCG
1 TCG
35242915 CCTTCAAGTC
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
71 19 0.27
72 1 0.01
73 9 0.13
74 42 0.59
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (71 bp):
TCGTTTAACTCGAAATACGATTTTTTTTTATTTTTCCGAGTCGAATCAAGTTTTGCTCACTCCTA
GCTACA
Found at i:35246471 original size:22 final size:23
Alignment explanation
Indices: 35246446--35246488 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
35246436 CTTATGGTAT
*
35246446 AATAATCTTGA-AATTTTTTTAA
1 AATAATCTTCACAATTTTTTTAA
*
35246468 AATATTCTTCACAATTTTTTT
1 AATAATCTTCACAATTTTTTT
35246489 TTAATATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.53
Consensus pattern (23 bp):
AATAATCTTCACAATTTTTTTAA
Found at i:35257654 original size:26 final size:26
Alignment explanation
Indices: 35257625--35257696 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
35257615 GAGCCATGAT
35257625 CGGTAAGCTCATTCTGAGCTGA-AGAA
1 CGGTAAGCTCATTC-GAGCTGATAGAA
** * *
35257651 CGGTAAGCTCATAAGAGCTGATATAT
1 CGGTAAGCTCATTCGAGCTGATAGAA
*
35257677 CGGTAAGCTCATACGAGCTG
1 CGGTAAGCTCATTCGAGCTG
35257697 TGGTGAGTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.17
26 33 0.82
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (26 bp):
CGGTAAGCTCATTCGAGCTGATAGAA
Found at i:35258484 original size:43 final size:42
Alignment explanation
Indices: 35258315--35258484 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 42
35258305 CATAATAGCT
* * * *
35258315 CATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* * * * *
35258356 CATATCGATGCCACTG-CCCAGACAGGGTCTTATACGAAATCA
1 CATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* *
35258398 TATGACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
1 CAT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* *
35258441 CAATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCA
1 C-ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
35258484 C
1 C
35258485 CTCTCAGTAA
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 4 0.04
42 38 0.36
43 62 0.58
44 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
Found at i:35262373 original size:24 final size:23
Alignment explanation
Indices: 35262290--35262371 Score: 98
Period size: 23 Copynumber: 3.6 Consensus size: 23
35262280 TTATTATTGG
* *
35262290 TTTTATAAAATTTTAAATGTATA
1 TTTTTTAAAATTTTAAATATATA
*
35262313 --TTTTAAATGTTTTATAATAT-TA
1 TTTTTTAAA-ATTTTA-AATATATA
35262335 TTTTTTAAAATTTTAAATATATA
1 TTTTTTAAAATTTTAAATATATA
35262358 TTTTTTAAAATTTT
1 TTTTTTAAAATTTT
35262372 TATTTTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
21 6 0.12
22 12 0.24
23 25 0.50
24 7 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTTTAAAATTTTAAATATATA
Found at i:35262384 original size:15 final size:15
Alignment explanation
Indices: 35262345--35262384 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
35262335 TTTTTTAAAA
*
35262345 TTTTAAATATATATT
1 TTTTAAATTTATATT
*
35262360 TTTTAAAATTTTTATT
1 TTTT-AAATTTATATT
35262376 TTTTAAATT
1 TTTTAAATT
35262385 CTAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTAAATTTATATT
Found at i:35262418 original size:21 final size:22
Alignment explanation
Indices: 35262324--35262417 Score: 69
Period size: 22 Copynumber: 4.5 Consensus size: 22
35262314 TTTAAATGTT
*
35262324 TTAT-AATATTATTTTTTAAAA
1 TTATAAATATTATTTTTTTAAA
*
35262345 TTTTAAATA-TATATTTTTTAAA
1 TTATAAATATTAT-TTTTTTAAA
*
35262367 --AT---TTTTA-TTTTTTAAA
1 TTATAAATATTATTTTTTTAAA
*
35262383 TTCTAAATATTATTTTTTTAATA
1 TTATAAATATTATTTTTTTAA-A
35262406 TTATAAAATATT
1 TTAT-AAATATT
35262418 TAAATATATT
Statistics
Matches: 55, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
16 9 0.16
17 1 0.02
18 3 0.05
20 1 0.02
21 10 0.18
22 20 0.36
23 4 0.07
24 7 0.13
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATAAATATTATTTTTTTAAA
Found at i:35262498 original size:22 final size:22
Alignment explanation
Indices: 35262464--35262530 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
35262454 TTATTATTTG
* *
35262464 TTTTATAATATTTTAAATGTATA
1 TTTTA-AAAATTTTAAATATATA
35262487 TTTTAAAAATTTTAAATATATA
1 TTTTAAAAATTTTAAATATATA
35262509 TTTT---AATTTTAAATATA-A
1 TTTTAAAAATTTTAAATATATA
35262527 TTTT
1 TTTT
35262531 TTAATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 5 0.12
19 13 0.31
22 19 0.45
23 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TTTTAAAAATTTTAAATATATA
Found at i:35268314 original size:30 final size:30
Alignment explanation
Indices: 35268278--35268379 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
35268268 CATAGAGCAA
* *
35268278 TTCATATCATCTGGATATGGGCGATTTGAG
1 TTCATATCACCCGGATATGGGCGATTTGAG
* * * * *
35268308 TTCATATCACCCGAACATGGGTGGTTCGAG
1 TTCATATCACCCGGATATGGGCGATTTGAG
* *
35268338 TTCATATCAGCCGGATATGGGC-AGCTTGAG
1 TTCATATCACCCGGATATGGGCGA-TTTGAG
35268368 TTCATATCACCC
1 TTCATATCACCC
35268380 AGAGCAACCA
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (30 bp):
TTCATATCACCCGGATATGGGCGATTTGAG
Found at i:35270714 original size:23 final size:24
Alignment explanation
Indices: 35270686--35270745 Score: 95
Period size: 23 Copynumber: 2.5 Consensus size: 24
35270676 TGAAGTTGGA
*
35270686 TTTGGTACGAAATGGTATGG-GGT
1 TTTGGTACGAAATGGTATGGAAGT
*
35270709 TTTGGTACGAAATGGTATGGAATT
1 TTTGGTACGAAATGGTATGGAAGT
35270733 TTTGGTACGAAAT
1 TTTGGTACGAAAT
35270746 AAACCAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.37
Consensus pattern (24 bp):
TTTGGTACGAAATGGTATGGAAGT
Found at i:35274932 original size:20 final size:20
Alignment explanation
Indices: 35274897--35274951 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
35274887 TTTCTCACTT
*
35274897 TTTTTCACTCTCTTTTT-TCGA
1 TTTTT-ACTTTCTTTTTCTC-A
35274918 TTTTT-CTTTCTTTTTCTCA
1 TTTTTACTTTCTTTTTCTCA
*
35274937 TTTTTATTTTCTTTT
1 TTTTTACTTTCTTTT
35274952 GTAGTTTCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.50
20 10 0.33
21 5 0.17
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTACTTTCTTTTTCTCA
Found at i:35276716 original size:13 final size:13
Alignment explanation
Indices: 35276698--35276722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35276688 TGAAAAATGA
35276698 AAAACCTCACAAC
1 AAAACCTCACAAC
35276711 AAAACCTCACAA
1 AAAACCTCACAA
35276723 ATCTCTCAAA
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:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAACCTCACAAC
Found at i:35277504 original size:24 final size:24
Alignment explanation
Indices: 35277448--35277508 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
35277438 ATAGAGTTGG
*
35277448 TTTTGGTACGAAATGGTATGGGGA
1 TTTTGGTACGAAATGGTATGGGAA
35277472 -TTTGGTACGAAATGGTAT-GGAA
1 TTTTGGTACGAAATGGTATGGGAA
35277494 TTTTTGGTACGAAAT
1 -TTTTGGTACGAAAT
35277509 AAACCAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 3 0.09
23 18 0.53
24 13 0.38
ACGTcount: A:0.28, C:0.05, G:0.31, T:0.36
Consensus pattern (24 bp):
TTTTGGTACGAAATGGTATGGGAA
Found at i:35280274 original size:14 final size:15
Alignment explanation
Indices: 35280241--35280289 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
35280231 TTTGAATATC
35280241 TTTAAAAATA--AT-
1 TTTAAAAATATTATA
*
35280253 TTTAAAAA-ATCATAA
1 TTTAAAAATATTAT-A
35280268 TTTAAAAATATTATA
1 TTTAAAAATATTATA
35280283 TTTAAAA
1 TTTAAAA
35280290 TTTAATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 1 0.03
12 8 0.26
13 2 0.06
15 16 0.52
16 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAAAATATTATA
Found at i:35280294 original size:22 final size:21
Alignment explanation
Indices: 35280266--35280360 Score: 81
Period size: 22 Copynumber: 4.5 Consensus size: 21
35280256 AAAAAATCAT
35280266 AATTTAAAAATATTATATTTAA
1 AATTTAAAAATA-TATATTTAA
*
35280288 AATTT---AATA-ATAATTAA
1 AATTTAAAAATATATATTTAA
*
35280305 AATTAAAAATATATATATTTAAA
1 AATTTAAAA-ATATATATTT-AA
* *
35280328 AATTTTAAAATATACATTTAA
1 AATTTAAAAATATATATTTAA
35280349 AATATTATAAAA
1 AAT-TTA-AAAA
35280361 CAAATAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
17 11 0.19
19 4 0.07
20 1 0.02
21 8 0.14
22 21 0.36
23 13 0.22
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTAAAAATATATATTTAA
Found at i:35280329 original size:23 final size:22
Alignment explanation
Indices: 35280303--35280360 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
35280293 AATAATAATT
*
35280303 AAAATTAAAAATATATATATTTA
1 AAAATTAAAAA-ATATACATTTA
**
35280326 AAAATTTTAAAATATACATTTA
1 AAAATTAAAAAATATACATTTA
*
35280348 AAATATTATAAAA
1 AAA-ATTAAAAAA
35280361 CAAATAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATTAAAAAATATACATTTA
Found at i:35280349 original size:38 final size:35
Alignment explanation
Indices: 35280258--35280357 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 35
35280248 ATAATTTTAA
*
35280258 AAAATCATAATTTAAAAATATTATATTTAAAATTT
1 AAAATAATAATTTAAAAATATTATATTTAAAATTT
*
35280293 AATAATAATTAAAATTAAAAATATATATATTTAAAAATTTT
1 AA-AATAA-T-AATTTAAAAATAT-TATATTT-AAAA-TTT
35280334 AAAAT-ATACATTT-AAAATATTATA
1 AAAATAATA-ATTTAAAAATATTATA
35280358 AAACAAATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
35 2 0.04
36 8 0.15
37 9 0.16
38 16 0.29
39 8 0.15
40 7 0.13
41 5 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (35 bp):
AAAATAATAATTTAAAAATATTATATTTAAAATTT
Found at i:35280433 original size:12 final size:12
Alignment explanation
Indices: 35280416--35280441 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35280406 TTAATATTTT
35280416 ATAATATTTAAA
1 ATAATATTTAAA
35280428 ATAATATTTAAA
1 ATAATATTTAAA
35280440 AT
1 AT
35280442 TTTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAATATTTAAA
Found at i:35280447 original size:20 final size:20
Alignment explanation
Indices: 35280407--35280480 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
35280397 AATATATTTT
*
35280407 TAATATTTTATAATATTTAAAA
1 TAATA-TTTAAAAT-TTTAAAA
35280429 TAATATTTAAAATTTTAAAAA
1 TAATATTTAAAATTTT-AAAA
*
35280450 TAACATTT-AAATTTTAAAA
1 TAATATTTAAAATTTTAAAA
35280469 -AATAATTTAAAA
1 TAAT-ATTTAAAA
35280481 AAATACATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.04
19 8 0.17
20 13 0.28
21 18 0.39
22 5 0.11
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATATTTAAAATTTTAAAA
Found at i:35280448 original size:54 final size:55
Alignment explanation
Indices: 35280388--35280510 Score: 132
Period size: 54 Copynumber: 2.3 Consensus size: 55
35280378 AGCTCATATC
* *
35280388 TTTAAAAATAATATATTTTTAATATTTT-ATAAT-ATTTAAAATAAT-ATTTAAAA-T
1 TTTAAAAATAATATA--TTTAA-ATTTTAAAAATAATTTAAAAAAATAATTTAAAATT
*
35280442 TTTAAAAAT-A-ACATTTAAATTTTAAAAAATAATTTAAAAAAATACATTTAAAATT
1 TTTAAAAATAATATATTTAAATTTT-AAAAATAATTTAAAAAAATA-ATTTAAAATT
35280497 TTTAAAAATAATAT
1 TTTAAAAATAATAT
35280511 TATAAAACAT
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
49 5 0.09
50 5 0.09
51 4 0.07
52 13 0.23
53 1 0.02
54 17 0.30
55 10 0.18
56 1 0.02
57 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (55 bp):
TTTAAAAATAATATATTTAAATTTTAAAAATAATTTAAAAAAATAATTTAAAATT
Found at i:35280490 original size:14 final size:13
Alignment explanation
Indices: 35280459--35280494 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
35280449 ATAACATTTA
*
35280459 AATTTTAAAAAAT
1 AATTTAAAAAAAT
35280472 AATTTAAAAAAAT
1 AATTTAAAAAAAT
35280485 ACATTTAAAA
1 A-ATTTAAAA
35280495 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTTAAAAAAAT
Found at i:35280496 original size:34 final size:35
Alignment explanation
Indices: 35280445--35280517 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
35280435 TTAAAATTTT
35280445 AAAAATAACATTTAAATTTTAAAAAATAAT-TTAA
1 AAAAATAACATTTAAATTTTAAAAAATAATATTAA
* *
35280479 AAAAAT-ACATTTAAAATTTTTAAAAATAATATTAT
1 AAAAATAACATTT-AAATTTTAAAAAATAATATTAA
35280514 AAAA
1 AAAA
35280518 CATTTCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 6 0.17
34 22 0.63
35 7 0.20
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (35 bp):
AAAAATAACATTTAAATTTTAAAAAATAATATTAA
Found at i:35280516 original size:23 final size:22
Alignment explanation
Indices: 35280474--35280517 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
35280464 TAAAAAATAA
35280474 TTTAAAAAAATACATTTAAAATT
1 TTTAAAAAAATA-ATTTAAAATT
35280497 TTTAAAAATAAT-ATTATAAAA
1 TTTAAAAA-AATAATT-TAAAA
35280518 CATTTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.16
23 13 0.68
24 3 0.16
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAAAAATAATTTAAAATT
Found at i:35280636 original size:24 final size:23
Alignment explanation
Indices: 35280570--35280636 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
35280560 ACAAATAAAT
* *
35280570 AAAAGACAAATAAAAAAAACTTA
1 AAAAGAAAAAAAAAAAAAACTTA
* *
35280593 AAAAGTAAATAAATAAAAAACTTA
1 AAAAG-AAAAAAAAAAAAAACTTA
35280617 AAAAGAAAAAAAAAAGAAAA
1 AAAAGAAAAAAAAAA-AAAA
35280637 ACAACATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 13 0.36
24 23 0.64
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (23 bp):
AAAAGAAAAAAAAAAAAAACTTA
Found at i:35283012 original size:9 final size:9
Alignment explanation
Indices: 35282998--35283064 Score: 116
Period size: 9 Copynumber: 7.4 Consensus size: 9
35282988 TTTGGTTAAA
35282998 AATTAACCG
1 AATTAACCG
35283007 AATTAACCG
1 AATTAACCG
*
35283016 AATTAACCA
1 AATTAACCG
35283025 AATTAACCG
1 AATTAACCG
*
35283034 AATTACCCG
1 AATTAACCG
35283043 AATTAACCG
1 AATTAACCG
35283052 AATTAACCG
1 AATTAACCG
35283061 AATT
1 AATT
35283065 GAATCACTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:35283207 original size:18 final size:18
Alignment explanation
Indices: 35283167--35283210 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
35283157 AATTTTTATG
**
35283167 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
35283185 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
35283203 CTTGGGTT
1 ATTGGGTT
35283211 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:35287659 original size:18 final size:17
Alignment explanation
Indices: 35287633--35287668 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35287623 TTTGGTTATA
35287633 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
35287651 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
35287668 T
1 T
35287669 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:35287805 original size:56 final size:49
Alignment explanation
Indices: 35287759--35287852 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 49
35287749 TTTGGTCTTC
*
35287759 AAACAGTATTTTATATTACTTATATTGTTTGATTAAAAATTATAA--TT
1 AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATTTT
*
35287806 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
35287853 AACACTACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (49 bp):
AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATTTT
Found at i:35292342 original size:16 final size:16
Alignment explanation
Indices: 35292321--35292354 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
35292311 CAACTCATTC
35292321 TTGATCCTCTTTATTG
1 TTGATCCTCTTTATTG
35292337 TTGATCCTCTTTATTG
1 TTGATCCTCTTTATTG
35292353 TT
1 TT
35292355 CGTGATCTCC
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:0.18, G:0.12, T:0.59
Consensus pattern (16 bp):
TTGATCCTCTTTATTG
Found at i:35297039 original size:21 final size:21
Alignment explanation
Indices: 35296998--35297040 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
35296988 AATAAAGTAG
*
35296998 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
35297019 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
35297040 A
1 A
35297041 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:35297093 original size:20 final size:22
Alignment explanation
Indices: 35297056--35297105 Score: 86
Period size: 20 Copynumber: 2.4 Consensus size: 22
35297046 ATATAATAAT
35297056 AATTATATCAAGAATTTTATTA
1 AATTATATCAAGAATTTTATTA
35297078 AATTATAT-AA-AATTTTATTA
1 AATTATATCAAGAATTTTATTA
35297098 AATTATAT
1 AATTATAT
35297106 TTAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 18 0.64
21 2 0.07
22 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTATATCAAGAATTTTATTA
Found at i:35297106 original size:10 final size:10
Alignment explanation
Indices: 35297068--35297106 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
35297058 TTATATCAAG
*
35297068 AATTTTATTA
1 AATTATATTA
*
35297078 AATTATATAA
1 AATTATATTA
*
35297088 AATTTTATTA
1 AATTATATTA
35297098 AATTATATT
1 AATTATATT
35297107 TAATAATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
AATTATATTA
Found at i:35297366 original size:46 final size:44
Alignment explanation
Indices: 35297277--35297383 Score: 117
Period size: 46 Copynumber: 2.4 Consensus size: 44
35297267 ATTATAACAT
* *
35297277 CATTCTATTCAACCAAACAAAAGAATGCTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACAAAAGAATACTATTACAGCTCTATTC
* ** *
35297321 GATTCCATTCAACCAAACAATTGAATTACTGATTACTGCTCTATTC
1 CATTCCATTCAACCAAACAAAAGAA-TACT-ATTACAGCTCTATTC
*
35297367 CATTACAGTT-AACCAAA
1 CATTCCA-TTCAACCAAA
35297384 TGTACCCTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
44 21 0.40
45 3 0.06
46 26 0.50
47 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (44 bp):
CATTCCATTCAACCAAACAAAAGAATACTATTACAGCTCTATTC
Found at i:35298401 original size:28 final size:28
Alignment explanation
Indices: 35298370--35298435 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
35298360 ATAAAAAATA
*
35298370 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
35298398 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
35298426 ACCAAAATAT
1 ACCAAAATAT
35298436 ACAAAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAATTTTTTTTATTT
Found at i:35298450 original size:19 final size:19
Alignment explanation
Indices: 35298428--35298464 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35298418 TTTTATTTAC
*
35298428 CAAAATATACAAAAAAAAA
1 CAAAAAATACAAAAAAAAA
*
35298447 CAAAAAATAGAAAAAAAA
1 CAAAAAATACAAAAAAAA
35298465 CCTGACACGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (19 bp):
CAAAAAATACAAAAAAAAA
Found at i:35298523 original size:27 final size:27
Alignment explanation
Indices: 35298493--35298569 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
35298483 GGCCAATCAC
* * *
35298493 ATTGGCAGCACTAAAGGTGCCAATGTG
1 ATTGGCGGCACCAATGGTGCCAATGTG
*
35298520 ATTGGTGGCACCAATGGTGCCAATGTG
1 ATTGGCGGCACCAATGGTGCCAATGTG
35298547 ATTGGCGGCACCAATGGTGCCAA
1 ATTGGCGGCACCAATGGTGCCAA
35298570 AGGACTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATGTG
Found at i:35299171 original size:18 final size:18
Alignment explanation
Indices: 35299150--35299233 Score: 64
Period size: 18 Copynumber: 4.7 Consensus size: 18
35299140 AGTAATAACT
35299150 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
** * **
35299168 CTATCCTCATTTAA-ACT
1 CTATTTTAATTTAATAAA
*
35299185 CTATTGTAATTTAATAAA
1 CTATTTTAATTTAATAAA
*
35299203 CTATTCTT-ATTTAATAACT
1 CTATT-TTAATTTAATAA-A
*
35299222 CTATTTTCATTT
1 CTATTTTAATTT
35299234 GAAATATAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
17 12 0.24
18 28 0.56
19 10 0.20
ACGTcount: A:0.35, C:0.14, G:0.01, T:0.50
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:35299195 original size:35 final size:37
Alignment explanation
Indices: 35299142--35299226 Score: 129
Period size: 35 Copynumber: 2.4 Consensus size: 37
35299132 TCTAATTAAG
*
35299142 TAATAACTCTATTTTAATTTAATAAACTATCCTCATT
1 TAATAACTCTATTGTAATTTAATAAACTATCCTCATT
* *
35299179 T-A-AACTCTATTGTAATTTAATAAACTATTCTTATT
1 TAATAACTCTATTGTAATTTAATAAACTATCCTCATT
35299214 TAATAACTCTATT
1 TAATAACTCTATT
35299227 TTCATTTGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 31 0.72
36 2 0.05
37 10 0.23
ACGTcount: A:0.38, C:0.14, G:0.01, T:0.47
Consensus pattern (37 bp):
TAATAACTCTATTGTAATTTAATAAACTATCCTCATT
Found at i:35299398 original size:82 final size:82
Alignment explanation
Indices: 35299304--35299468 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
35299294 TTAATTAAAA
*
35299304 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
1 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAACTTATAAATAGATAAAATAG
*
35299369 TTTATGTTTCCATTATT
66 TTTATGTTTCCACTATT
35299386 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAACTTATAAATAGATAAAATAG
1 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAACTTATAAATAGATAAAATAG
35299451 TTTATGTTTCCACTATT
66 TTTATGTTTCCACTATT
35299468 T
1 T
35299469 TTTTCCTTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (82 bp):
TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAACTTATAAATAGATAAAATAG
TTTATGTTTCCACTATT
Found at i:35299571 original size:19 final size:19
Alignment explanation
Indices: 35299549--35299614 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
35299539 TTTAATTTTT
35299549 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
35299568 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
35299586 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
35299605 TTAAATTAAA
1 TTAAATTAAA
35299615 CTATTTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:35300042 original size:26 final size:27
Alignment explanation
Indices: 35300010--35300072 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
35300000 TTTTTTTTGT
35300010 ATATTTTGATAAATAAAAAAA-TTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
*
35300036 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
35300063 ATATTTTGAT
1 ATATTTTGAT
35300073 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAAAGTTATA
Found at i:35305781 original size:3 final size:3
Alignment explanation
Indices: 35305773--35305800 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
35305763 AAAACAGGAG
35305773 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
35305801 ACTATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:35311850 original size:14 final size:13
Alignment explanation
Indices: 35311833--35311879 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 13
35311823 AGTAGACTCG
35311833 TGAAAACAAAATTT
1 TGAAAA-AAAATTT
*
35311847 TGAAAAAAAA-AT
1 TGAAAAAAAATTT
35311859 TGAAAAAAAA--T
1 TGAAAAAAAATTT
35311870 TGAAAAAAAA
1 TGAAAAAAAA
35311880 GAAAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 11 0.34
12 11 0.34
13 4 0.12
14 6 0.19
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (13 bp):
TGAAAAAAAATTT
Found at i:35311861 original size:12 final size:12
Alignment explanation
Indices: 35311846--35311879 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
35311836 AAACAAAATT
35311846 TTGAAAAAAAAA
1 TTGAAAAAAAAA
35311858 TTG-AAAAAAAA
1 TTGAAAAAAAAA
35311869 TTGAAAAAAAA
1 TTGAAAAAAAA
35311880 GAAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (12 bp):
TTGAAAAAAAAA
Found at i:35311864 original size:11 final size:11
Alignment explanation
Indices: 35311850--35311887 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
35311840 AAAATTTTGA
35311850 AAAAAAAATTG
1 AAAAAAAATTG
35311861 AAAAAAAATTG
1 AAAAAAAATTG
35311872 AAAAAAAA--G
1 AAAAAAAATTG
35311881 AAAAAAA
1 AAAAAAA
35311888 TTGTATACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 8 0.30
11 19 0.70
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.11
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:35320663 original size:12 final size:13
Alignment explanation
Indices: 35320648--35320676 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35320638 ATTTATTTTT
35320648 ATATAAAAAA-TA
1 ATATAAAAAATTA
35320660 ATATAAAAAATTA
1 ATATAAAAAATTA
35320673 ATAT
1 ATAT
35320677 GGGTGGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:35331046 original size:6 final size:6
Alignment explanation
Indices: 35331037--35331070 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
35331027 AAAGAAGAAA
* *
35331037 AAAATC AAAATC AAAATC AAAGTC AAAAGC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
35331071 AGAGAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.15, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:35331525 original size:13 final size:13
Alignment explanation
Indices: 35331492--35331517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35331482 AAAAAAGATG
35331492 ATGAAAAATGAAA
1 ATGAAAAATGAAA
35331505 ATGAAAAATGAAA
1 ATGAAAAATGAAA
35331518 GAGTAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:35332910 original size:87 final size:87
Alignment explanation
Indices: 35332746--35333338 Score: 920
Period size: 87 Copynumber: 6.8 Consensus size: 87
35332736 AGATCAGTGA
* *
35332746 AGATCAAAAACCAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTG
1 AGATCAAAAA-CAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* * *
35332811 CCTTCCTGCGTTAATAGTGAAGC
65 CCTTCCTACGTTAACAGCGAAGC
* * * * *
35332834 AGATCGAAAACAAAACATTGCCTCAATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
35332899 CTTCCTACGTTAGCAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
*
35332921 AGATCAAAAACAAAGCCTTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
**
35332986 CTTCCTGTGTTAACAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
* *
35333008 AGATCAAAAACAAAGCCTTGCTTCCATCGGTTGCAGTGGAGATGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
35333073 CTTCCTACATTAACAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
*
35333095 ATATCAAAAACAAAGCC-T-CCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
35333158 CTTCCTACGTTAACAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
* * *
35333180 AGACCAAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGATTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
35333245 CTTCCTGCGTTAATAGCAAAGT
66 CTTCCTACGTTAACAGCGAAGC
* *
35333267 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
35333332 CTTCCTA
66 CTTCCTA
35333339 AGCACTAGCG
Statistics
Matches: 459, Mismatches: 44, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
85 79 0.17
86 2 0.00
87 369 0.80
88 9 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (87 bp):
AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTACGTTAACAGCGAAGC
Found at i:35333218 original size:259 final size:261
Alignment explanation
Indices: 35332746--35333338 Score: 938
Period size: 259 Copynumber: 2.3 Consensus size: 261
35332736 AGATCAGTGA
* *
35332746 AGATCAAAAACCAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTG
1 AGATCAAAAA-CAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* * * * * *
35332811 CCTTCCTGCGTTAATAGTGAAGCAGATCGAAAACAAAACATTGCCTCAATCGGTTACAGTGGAGC
65 CCTTCCTACATTAACAGCGAAGCAGATCAAAAACAAAACACTGCCTCAATCGGTTACAGTGGAGC
* *
35332876 TGGTTAAAGATAGCAGATCTTGCCTTCCTACGTTAGCAGCGAAGCAGATCAAAAACAAAGCCTTG
130 TGGTTAAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGACCAAAAACAAAGCCTTG
* * * *
35332941 CCTCCATCTGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAA
195 CCTCCATCGGTTGCAGTGGAGCTGATTAAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCAAA
35333006 GC
260 GC
* *
35333008 AGATCAAAAACAAAGCCTTGCTTCCATCGGTTGCAGTGGAGATGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
35333073 CTTCCTACATTAACAGCGAAGCATATCAAAAACAAAGC-CT-CCTCCATCGGTTGCAGTGGAGCT
66 CTTCCTACATTAACAGCGAAGCAGATCAAAAACAAAACACTGCCTCAATCGGTTACAGTGGAGCT
35333136 GGTTAAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGACCAAAAACAAAGCCTTGC
131 GGTTAAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGACCAAAAACAAAGCCTTGC
* *
35333201 CTCTATCGGTTGCAGTGGAGCTGATTAAAGATAGCAGATCTTGCCTTCCTGCGTTAATAGCAAAG
196 CTCCATCGGTTGCAGTGGAGCTGATTAAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCAAAG
*
35333266 T
261 C
* *
35333267 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
35333332 CTTCCTA
66 CTTCCTA
35333339 AGCACTAGCG
Statistics
Matches: 304, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
259 211 0.69
260 1 0.00
261 82 0.27
262 10 0.03
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (261 bp):
AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTACATTAACAGCGAAGCAGATCAAAAACAAAACACTGCCTCAATCGGTTACAGTGGAGCT
GGTTAAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGACCAAAAACAAAGCCTTGC
CTCCATCGGTTGCAGTGGAGCTGATTAAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCAAAG
C
Found at i:35333573 original size:44 final size:42
Alignment explanation
Indices: 35333503--35333704 Score: 131
Period size: 44 Copynumber: 4.7 Consensus size: 42
35333493 AAATCAATCC
* * *
35333503 TATCTTCCTGAATTTACAGT-GAAGCAGATTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAACC--AGATCT
* * *** * *
35333547 TATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCC-CATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAGATCT
* * ** *
35333588 TATCTCCCTGAAGTTGTAGTGGAGCAGACAAAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTAGAGCAG--ATTA-AAACCAGATCT
* * * *
35333632 TATTTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAA-C-CAGATCT
*
35333676 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGAT
35333705 CGCATCCCAT
Statistics
Matches: 118, Mismatches: 32, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
41 30 0.25
42 3 0.03
43 3 0.03
44 81 0.69
45 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAGATCT
Found at i:35333599 original size:41 final size:41
Alignment explanation
Indices: 35333543--35333732 Score: 139
Period size: 44 Copynumber: 4.5 Consensus size: 41
35333533 AAAACCATAG
* * * *
35333543 ATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCCC
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAACCC
* * *
35333584 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CAAAAGAAACCA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC----GAAACCC
* * * * * **
35333628 ATCCTATTTCCCTGAAGTTACAGTGGAGCGGATTAAAACCAC
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAACC-C
* * *
35333670 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCC
1 --ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAACCC
* *
35333713 ATCTTATCTCCTTAAAGTTG
1 ATCTTATCTCCCTGAAGTTG
35333733 TAGTGGAACA
Statistics
Matches: 113, Mismatches: 28, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
40 1 0.01
41 50 0.44
43 1 0.01
44 61 0.54
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAACCC
Found at i:35333617 original size:129 final size:128
Alignment explanation
Indices: 35333457--35333739 Score: 433
Period size: 129 Copynumber: 2.2 Consensus size: 128
35333447 AAATTACAAG
** * * * *
35333457 TCTTATCTCCCTAAGCAGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTT-CCTGAATTTACA
1 TCTTATCTCCCTAAGTTGTAGTGGAGCAGACAAAAGAAACCAATCCTAT-TTCCCTGAAGTTACA
*
35333521 GTGAAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCCCA
65 GTGAAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCCCA
35333585 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAAGAAACCAATCCTATTTCCCTGAAGTTACA
1 TCTTATCTCCCT-AAGTTGTAGTGGAGCAGACAAAAGAAACCAATCCTATTTCCCTGAAGTTACA
* * *
35333650 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCCA
65 GTGAAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCCCA
*
35333714 TCTTATCTCCTTAAAGTTGTAGTGGA
1 TCTTATCTCCCT-AAGTTGTAGTGGA
35333740 ACAGGCTGTA
Statistics
Matches: 141, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
128 14 0.10
129 127 0.90
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (128 bp):
TCTTATCTCCCTAAGTTGTAGTGGAGCAGACAAAAGAAACCAATCCTATTTCCCTGAAGTTACAG
TGAAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCCCA
Found at i:35341285 original size:17 final size:17
Alignment explanation
Indices: 35341265--35341298 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35341255 AAATAAATTC
35341265 TTTTAAAAATTTCAAAA
1 TTTTAAAAATTTCAAAA
**
35341282 TTTTAAAGCTTTCAAAA
1 TTTTAAAAATTTCAAAA
35341299 GAAGCTACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (17 bp):
TTTTAAAAATTTCAAAA
Found at i:35345204 original size:98 final size:98
Alignment explanation
Indices: 35345094--35345276 Score: 305
Period size: 98 Copynumber: 1.9 Consensus size: 98
35345084 TCGATACTTG
*
35345094 TGAATCTTAACTTGATTTTTTGAAACATCGAAGCTAAAGATGGTATGGTACTTGACCTAGGTA-T
1 TGAATCTTAACTTGATTTTTTGAAACATCAAAGCTAAAGATGGTATGGTACTTGACCTAGGTACT
*
35345158 CGATACCTATGCTTACACTTTTTGAAATGGTATT
66 -AATACCTATGCTTACACTTTTTGAAATGGTATT
* * *
35345192 TGAATTTTAACTTGATTTTTTGAAATATCAAAGCTAAATATGGTATGGTACTTGACCTAGGTACT
1 TGAATCTTAACTTGATTTTTTGAAACATCAAAGCTAAAGATGGTATGGTACTTGACCTAGGTACT
35345257 AATACCTATGCTTACACTTT
66 AATACCTATGCTTACACTTT
35345277 GAAAAGTTTG
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 78 0.99
99 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (98 bp):
TGAATCTTAACTTGATTTTTTGAAACATCAAAGCTAAAGATGGTATGGTACTTGACCTAGGTACT
AATACCTATGCTTACACTTTTTGAAATGGTATT
Found at i:35347923 original size:14 final size:14
Alignment explanation
Indices: 35347906--35347938 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
35347896 TACCATTTGA
*
35347906 CATATATTTCATAG
1 CATATATGTCATAG
35347920 CATATATGTCATAG
1 CATATATGTCATAG
35347934 CATAT
1 CATAT
35347939 TCCCAACCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (14 bp):
CATATATGTCATAG
Found at i:35350049 original size:21 final size:22
Alignment explanation
Indices: 35350009--35350052 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
35349999 ATAGTAAAGT
*
35350009 AAAATAAAAAAAGGAAAGAAAC
1 AAAATAAAAAAAGAAAAGAAAC
*
35350031 AAAAT-AAAGAAGAAAAGAAAC
1 AAAATAAAAAAAGAAAAGAAAC
35350052 A
1 A
35350053 GAGAGCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (22 bp):
AAAATAAAAAAAGAAAAGAAAC
Found at i:35351342 original size:21 final size:21
Alignment explanation
Indices: 35351313--35351357 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35351303 TATGTGTAGA
* *
35351313 CACCTCGTGTGTCGTATCAGG
1 CACCACGTGTGTCATATCAGG
*
35351334 CACCACGTGTGTCATTTCAGG
1 CACCACGTGTGTCATATCAGG
35351355 CAC
1 CAC
35351358 TTATGTGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.31, G:0.24, T:0.27
Consensus pattern (21 bp):
CACCACGTGTGTCATATCAGG
Found at i:35351699 original size:35 final size:35
Alignment explanation
Indices: 35351660--35351730 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
35351650 AAGGTGAAAA
*
35351660 TAAAGTGATTTGAAATAGTGAAATAATACTTGAAT
1 TAAAGTGATTTGAAATAGTAAAATAATACTTGAAT
*
35351695 TAAAGTGATTTGAAATAGTAAAATAATATTTGAAT
1 TAAAGTGATTTGAAATAGTAAAATAATACTTGAAT
35351730 T
1 T
35351731 TTAATTGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.46, C:0.01, G:0.15, T:0.37
Consensus pattern (35 bp):
TAAAGTGATTTGAAATAGTAAAATAATACTTGAAT
Found at i:35353941 original size:17 final size:17
Alignment explanation
Indices: 35353919--35353951 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35353909 TCATCTTTTA
35353919 CCCTCTTTTATTTCAAG
1 CCCTCTTTTATTTCAAG
35353936 CCCTCTTTTATTTCAA
1 CCCTCTTTTATTTCAA
35353952 CAAAAGTCAA
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:0.18, C:0.30, G:0.03, T:0.48
Consensus pattern (17 bp):
CCCTCTTTTATTTCAAG
Found at i:35356637 original size:20 final size:19
Alignment explanation
Indices: 35356590--35356638 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
35356580 GATTTGAAAT
*
35356590 TAATTTTTGTTATTTGCTTA
1 TAATTTTT-TTATTTGCTAA
* *
35356610 GAAATTTTTTATTGTGCTAA
1 TAATTTTTTTATT-TGCTAA
35356630 TAATTTTTT
1 TAATTTTTT
35356639 ATAGGAATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.24, C:0.04, G:0.10, T:0.61
Consensus pattern (19 bp):
TAATTTTTTTATTTGCTAA
Found at i:35357180 original size:41 final size:40
Alignment explanation
Indices: 35357120--35357375 Score: 277
Period size: 41 Copynumber: 6.2 Consensus size: 40
35357110 TTTACATAAT
** * * *
35357120 CGCCGCTAATGCTGTGGTCTTTCGCGACGTTTTCTA-AATTG
1 CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTACAA--G
*
35357161 CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTAAAAAAG
1 CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTT--ACAAG
35357203 CGCCGCTAATGCT-ACGGTCTTTAGCGGCGTTTTTTACAAAG
1 CGCCGCTAATGCTCA-GGTCTTTAGCGGCGTTTTTTAC-AAG
* *
35357244 CGCCGCTAATGCT-ACGGTCTTTGGCGGCGTTTTTTACTAAC
1 CGCCGCTAATGCTCA-GGTCTTTAGCGGCGTTTTTTAC-AAG
*
35357285 CGCCGCTAATGCTACA-GTCTGTAGCGGCGTTTTTTACTAAG
1 CGCCGCTAATGCT-CAGGTCTTTAGCGGCGTTTTTTAC-AAG
* * *
35357326 CACCGCTAATGCTCAGGTCTTTAGCGGCGTTTCTTCAAAAG
1 CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTT-TTTACAAG
35357367 CGCCGCTAA
1 CGCCGCTAA
35357376 AAACCGCAGC
Statistics
Matches: 189, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
40 3 0.02
41 145 0.77
42 37 0.20
43 2 0.01
44 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (40 bp):
CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTACAAG
Found at i:35357248 original size:83 final size:82
Alignment explanation
Indices: 35357120--35357375 Score: 327
Period size: 82 Copynumber: 3.1 Consensus size: 82
35357110 TTTACATAAT
** * * * *
35357120 CGCCGCTAATGCTGTGGTCTTTCGCGACGTTTTCTA-AATTGCGCCGCTAATGCTCAGGTCTTTA
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACAA-AGCGCCGCTAATGCTCAGGTCTTTA
35357184 GCGGCGTTTTTTAAAAAAG
65 GCGGCGTTTTTT-AAAAAG
*
35357203 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCT-ACGGTCTTTG
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTCA-GGTCTTTA
** *
35357267 GCGGCGTTTTTTACTAAC
65 GCGGCGTTTTTTAAAAAG
* * * *
35357285 CGCCGCTAATGCTACAGTCTGTAGCGGCGTTTTTTACTAAGCACCGCTAATGCTCAGGTCTTTAG
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTCAGGTCTTTAG
* *
35357350 CGGCGTTTCTTCAAAAG
66 CGGCGTTTTTTAAAAAG
35357367 CGCCGCTAA
1 CGCCGCTAA
35357376 AAACCGCAGC
Statistics
Matches: 150, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
82 83 0.55
83 65 0.43
84 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (82 bp):
CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTCAGGTCTTTAG
CGGCGTTTTTTAAAAAG
Found at i:35357412 original size:123 final size:124
Alignment explanation
Indices: 35357161--35357416 Score: 270
Period size: 123 Copynumber: 2.1 Consensus size: 124
35357151 TTCTAAATTG
* *
35357161 CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTAAAAAAGCGCCGCTAATGCTACGGTCTTTA
1 CGCCGCTAATGCTCAGGTCTGTAGCGGCGTTTTTTAAAAAAGCACCGCTAATGCTACGGTCTTTA
* ** * * * * * ** * * *
35357226 GCGGCGTTTTTTACAAAGCGCCGCTAATGCTACGGTCTTTGGCGGCGTTTTTTACTAAC
66 GCGGCGTTTTTCACAAAGCGCCGCTAAAACCACAGTCATTAGCGACGCATATTACAAAA
**
35357285 CGCCGCTAATGCTACA-GTCTGTAGCGGCGTTTTTT-ACTAAGCACCGCTAATGCT-CAGGTCTT
1 CGCCGCTAATGCT-CAGGTCTGTAGCGGCGTTTTTTAAAAAAGCACCGCTAATGCTAC-GGTCTT
* *
35357347 TAGCGGCGTTTCTTCA-AAAGCGCCGCTAAAAACCGCAG-CATTAGCGACGCATATTAGAAAA
64 TAGCGGCGTTT-TTCACAAAGCGCCGCT-AAAACCACAGTCATTAGCGACGCATATTACAAAA
35357408 CGCCGCTAA
1 CGCCGCTAA
35357417 AGATCGGAGC
Statistics
Matches: 109, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
122 1 0.01
123 67 0.61
124 39 0.36
125 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (124 bp):
CGCCGCTAATGCTCAGGTCTGTAGCGGCGTTTTTTAAAAAAGCACCGCTAATGCTACGGTCTTTA
GCGGCGTTTTTCACAAAGCGCCGCTAAAACCACAGTCATTAGCGACGCATATTACAAAA
Found at i:35358688 original size:74 final size:73
Alignment explanation
Indices: 35358521--35358769 Score: 417
Period size: 74 Copynumber: 3.4 Consensus size: 73
35358511 GCACCAATTT
* * *
35358521 GCGGCGTTTATTGTAAAAACGCCGCAAAAGTTTAACCAAAATGACTTCGTTTTTATACTGTTTAT
1 GCGGCGTTTCTGGTAAAAACGCCGCAAAAGTTTAACCAAAACGACTTCGTTTTTATACTGTTTAT
35358586 TGGTATTA
66 TGGTATTA
*
35358594 GCGGCGTTTCTGGTAAAAACGCCGCAAAAGTTTAACCAAAACGTCTTCGTTTTGTATACTGTTTA
1 GCGGCGTTTCTGGTAAAAACGCCGCAAAAGTTTAACCAAAACGACTTCGTTTT-TATACTGTTTA
35358659 TTGGTATTA
65 TTGGTATTA
* *
35358668 GTGGCGTTTCTGGTACAAACGCCGCAAAAGTTTAACCAAAACGACTTCGTTTTTTATACTGTTTA
1 GCGGCGTTTCTGGTAAAAACGCCGCAAAAGTTTAACCAAAACGACTTCG-TTTTTATACTGTTTA
35358733 TTGGTATTA
65 TTGGTATTA
*
35358742 GCGGCGTTTCTGGTACAAACGCCGCAAA
1 GCGGCGTTTCTGGTAAAAACGCCGCAAA
35358770 TGATAGTTAT
Statistics
Matches: 166, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
73 49 0.30
74 113 0.68
75 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (73 bp):
GCGGCGTTTCTGGTAAAAACGCCGCAAAAGTTTAACCAAAACGACTTCGTTTTTATACTGTTTAT
TGGTATTA
Found at i:35361638 original size:15 final size:15
Alignment explanation
Indices: 35361620--35361655 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
35361610 TCCACCAATT
*
35361620 TGTTTTCATTTGTAC
1 TGTTTTCATTTCTAC
35361635 TGTTTTCATTTCTAC
1 TGTTTTCATTTCTAC
35361650 T-TTTTC
1 TGTTTTC
35361656 CTTTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64
Consensus pattern (15 bp):
TGTTTTCATTTCTAC
Found at i:35362324 original size:43 final size:43
Alignment explanation
Indices: 35362270--35362453 Score: 171
Period size: 43 Copynumber: 4.2 Consensus size: 43
35362260 AATACATACA
*
35362270 TTACATAACTTATTAATATATATATTTTAAAATGACACATAAC
1 TTACATAACTTATTAATATATATATTTTAAAATAACACATAAC
* * *
35362313 TTACATAACTTATTAATACATAACATTTTTAATACATAACTTATATAA-
1 TTACATAACTTATTAATATAT-ATA-TTTTAA-A-ATAAC--ACATAAC
*
35362361 -TACGACGTAACTTATTAATATATATATTTTAAAATAATACATAAC
1 TTAC-A--TAACTTATTAATATATATATTTTAAAATAACACATAAC
* * * *
35362406 TTACATAACTTATTAATACATA-A-CTT-ATATAATACATAAC
1 TTACATAACTTATTAATATATATATTTTAAAATAACACATAAC
35362446 TTACATAA
1 TTACATAA
35362454 TACGACATAA
Statistics
Matches: 119, Mismatches: 11, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
40 21 0.18
41 2 0.02
42 1 0.01
43 36 0.30
44 7 0.06
45 7 0.06
46 8 0.07
47 8 0.07
48 7 0.06
49 7 0.06
50 15 0.13
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (43 bp):
TTACATAACTTATTAATATATATATTTTAAAATAACACATAAC
Found at i:35362346 original size:16 final size:15
Alignment explanation
Indices: 35362314--35362448 Score: 111
Period size: 16 Copynumber: 8.7 Consensus size: 15
35362304 ACACATAACT
35362314 TACATAACTTATTAA
1 TACATAACTTATTAA
*
35362329 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
35362345 TACATAACTTATATAA
1 TACATAACTTAT-TAA
35362361 TACGACGTAACTTATTAA
1 TAC-A--TAACTTATTAA
*
35362379 TATATATA-TT-TTAA
1 TACATA-ACTTATTAA
*
35362393 -A-ATAA--TACATAA
1 TACATAACTTA-TTAA
35362405 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
35362422 TACATAACTTATATAA
1 TACATAACTTAT-TAA
35362438 TACATAACTTA
1 TACATAACTTA
35362449 CATAATACGA
Statistics
Matches: 100, Mismatches: 5, Indels: 29
0.75 0.04 0.22
Matches are distributed among these distances:
10 1 0.01
11 1 0.01
12 6 0.06
13 1 0.01
14 4 0.04
15 28 0.28
16 39 0.39
17 5 0.05
18 7 0.07
19 8 0.08
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (15 bp):
TACATAACTTATTAA
Found at i:35362372 original size:93 final size:93
Alignment explanation
Indices: 35362275--35362459 Score: 318
Period size: 93 Copynumber: 2.0 Consensus size: 93
35362265 ATACATTACA
*
35362275 TAACTTATTAATATATATATTTTAAAATGACACATAACTTACATAACTTATTAATACATAACATT
1 TAACTTATTAATATATATATTTTAAAATAACACATAACTTACATAACTTATTAATACATAAC-TT
* *
35362340 -TTTAATACATAACTTATATAATACGACG
65 ATATAATACATAACTTACATAATACGACG
*
35362368 TAACTTATTAATATATATATTTTAAAATAATACATAACTTACATAACTTATTAATACATAACTTA
1 TAACTTATTAATATATATATTTTAAAATAACACATAACTTACATAACTTATTAATACATAACTTA
35362433 TATAATACATAACTTACATAATACGAC
66 TATAATACATAACTTACATAATACGAC
35362460 ATAATAACAT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.02
93 85 0.98
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.38
Consensus pattern (93 bp):
TAACTTATTAATATATATATTTTAAAATAACACATAACTTACATAACTTATTAATACATAACTTA
TATAATACATAACTTACATAATACGACG
Found at i:35362412 original size:9 final size:9
Alignment explanation
Indices: 35362398--35362453 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
35362388 TTTAAAATAA
35362398 TACATAACT
1 TACATAACT
35362407 TACATAACT
1 TACATAACT
*
35362416 TA-TTAA--
1 TACATAACT
35362422 TACATAACT
1 TACATAACT
*
35362431 TATATAA--
1 TACATAACT
35362438 TACATAACT
1 TACATAACT
35362447 TACATAA
1 TACATAA
35362454 TACGACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 3 0.08
9 24 0.63
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:35362442 original size:31 final size:31
Alignment explanation
Indices: 35362314--35362448 Score: 115
Period size: 31 Copynumber: 4.4 Consensus size: 31
35362304 ACACATAACT
*
35362314 TACATAACTTATTAATACATAACATT-TTTAA
1 TACATAACTTATTAATACATAAC-TTATATAA
35362345 TACATAACTTATATAATACGACGTAACTTAT-TAA
1 TACATAACTTAT-TAATAC-A--TAACTTATATAA
* *
35362379 TATATATA-TT-TTAA-A-ATAA--TACATAA
1 TACATA-ACTTATTAATACATAACTTATATAA
35362405 CTTACATAACTTATTAATACATAACTTATATAA
1 --TACATAACTTATTAATACATAACTTATATAA
35362438 TACATAACTTA
1 TACATAACTTA
35362449 CATAATACGA
Statistics
Matches: 85, Mismatches: 4, Indels: 30
0.71 0.03 0.25
Matches are distributed among these distances:
25 2 0.02
26 3 0.04
27 4 0.05
28 7 0.08
29 5 0.06
30 1 0.01
31 28 0.33
32 9 0.11
33 8 0.09
34 12 0.14
35 6 0.07
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (31 bp):
TACATAACTTATTAATACATAACTTATATAA
Found at i:35362476 original size:40 final size:40
Alignment explanation
Indices: 35362390--35362476 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
35362380 ATATATATTT
**
35362390 TAAA-ATAATACATAACTTACATAACTTATTAATACATAAC
1 TAAATATAATACATAACTTACATAAC-TACGAATACATAAC
*
35362430 T-TATATAATACATAACTTACATAA-TACGACATA-ATAAC
1 TAAATATAATACATAACTTACATAACTACGA-ATACATAAC
35362468 ATAAATATA
1 -TAAATATA
35362477 TATCATATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
38 8 0.21
39 5 0.13
40 26 0.67
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (40 bp):
TAAATATAATACATAACTTACATAACTACGAATACATAAC
Found at i:35368055 original size:66 final size:66
Alignment explanation
Indices: 35367972--35368118 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
35367962 GAGGCAACAT
* * *
35367972 CGAGAGAAGCTAAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTTAAATCAGATGCGG
1 CGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-AGCAACTTAAAGCAAATGCGG
35368035 CAG
64 CAG
* *
35368038 CGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTTAAAGCAAATGCGGCA
1 CGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTTAAAGCAAATGCGGCA
35368103 G
66 G
*
35368104 CGAGAGAAGCAGAGG
1 CGAGAGAAGCTGAGG
35368119 CTACAGCGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.14
Consensus pattern (66 bp):
CGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTTAAAGCAAATGCGGCA
G
Found at i:35368114 original size:21 final size:21
Alignment explanation
Indices: 35368100--35368158 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
35368090 AGCAAATGCG
35368100 GCAGCGAGAGAAGCAGAGGCT
1 GCAGCGAGAGAAGCAGAGGCT
* *
35368121 ACAGCGAGAGAAGTAGAGGCT
1 GCAGCGAGAGAAGCAGAGGCT
*
35368142 GCAGCGAGGGAAGCAGA
1 GCAGCGAGAGAAGCAGA
35368159 ACAGCTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.42, T:0.05
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGCT
Found at i:35368545 original size:43 final size:43
Alignment explanation
Indices: 35368518--35368938 Score: 583
Period size: 43 Copynumber: 9.8 Consensus size: 43
35368508 TGTGGTGAAG
* * *
35368518 GCGCCGCTAAATACCATGGTCTATAGCGGCGTTT-TTCACGATAA
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTT--GGGTAA
* ** * * * * *
35368562 GCGCTGCTAAAGGTCATTGTCTTTCGCGGTGTTTATTGGGTAA
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
*
35368605 GCGCCGCTAAAGACGATGGTCTATAGCGGCGTTTGTTGGGTAA
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
* **
35368648 GCGCCGCTAAAGACCATGGTCTATAACGGCGTTTGTTGGACAA
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
* *
35368691 GCGCCGCTATAGACCATGGTCTATAGTGGCGTTTGTTGGGTAA
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
* *
35368734 GCGCCGCGAAAGACCATGGTCTATAGCGGCATTTGTTGGGTAA
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
* *
35368777 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTTGGTAT
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
* * *
35368820 GCGCCGCTAAAGACCATGGTCTATAGTGTCGTTTGATGGGTAA
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
* *
35368863 GCGCAGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGGTAA
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
35368906 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTT
1 GCGCCGCTAAAGACCATGGTCTATAGCGGCGTT
35368939 GTAAAGAAAA
Statistics
Matches: 331, Mismatches: 45, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
43 303 0.92
44 26 0.08
45 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (43 bp):
GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGTAA
Found at i:35370909 original size:23 final size:22
Alignment explanation
Indices: 35370876--35370942 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
35370866 CACTTTCTGT
*
35370876 TTACTCACTTCGGTGGTGTCCA
1 TTACCCACTTCGGTGGTGTCCA
** ** *
35370898 GTTACCTGCTTCGGCAGTGTTCTA
1 -TTACCCACTTCGGTGGTG-TCCA
35370922 TTACCCACTTCGGTGGTGTCC
1 TTACCCACTTCGGTGGTGTCC
35370943 CGTTTAAGTC
Statistics
Matches: 32, Mismatches: 11, Indels: 3
0.70 0.24 0.07
Matches are distributed among these distances:
22 2 0.06
23 27 0.84
24 3 0.09
ACGTcount: A:0.12, C:0.28, G:0.24, T:0.36
Consensus pattern (22 bp):
TTACCCACTTCGGTGGTGTCCA
Found at i:35375012 original size:29 final size:29
Alignment explanation
Indices: 35374957--35375013 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
35374947 TAATTTGTAC
**
35374957 AGGATGGATTCTGAGAAATTATTTTTGAG
1 AGGATGGATTCTGAGAAATTAGGTTTGAG
*
35374986 AGGATGGGTTCTGAAGAAA-TAGGTTTGA
1 AGGATGGATTCTG-AGAAATTAGGTTTGA
35375014 TGAGATAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.33
Consensus pattern (29 bp):
AGGATGGATTCTGAGAAATTAGGTTTGAG
Found at i:35378848 original size:41 final size:41
Alignment explanation
Indices: 35378790--35378872 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
35378780 ATTAAAATGC
35378790 CATAGTCTAGCTATGGTCTTACATTTAAACATTGCCATGGT
1 CATAGTCTAGCTATGGTCTTACATTTAAACATTGCCATGGT
*
35378831 CATAGTCTAGCTGTGGTCTTACATTTAAACATTGCCATGGT
1 CATAGTCTAGCTATGGTCTTACATTTAAACATTGCCATGGT
35378872 C
1 C
35378873 TAACCATGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (41 bp):
CATAGTCTAGCTATGGTCTTACATTTAAACATTGCCATGGT
Found at i:35378874 original size:35 final size:35
Alignment explanation
Indices: 35378787--35378886 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 35
35378777 TTCATTAAAA
*
35378787 TGCCATAGTCTAGCTATGGTCTTACATTTAAACAT
1 TGCCATGGTCTAGCTATGGTCTTACATTTAAACAT
35378822 TGCCATGGTCATAGTCTAGCTGTGGTCTTACATTTAAACAT
1 TGCCATGGTC-TAG-CTA----TGGTCTTACATTTAAACAT
* *
35378863 TGCCATGGTCTAACCATGGTCTTA
1 TGCCATGGTCTAGCTATGGTCTTA
35378887 TCCTTCAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
35 17 0.30
36 3 0.05
37 3 0.05
39 2 0.04
40 2 0.04
41 29 0.52
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (35 bp):
TGCCATGGTCTAGCTATGGTCTTACATTTAAACAT
Found at i:35386484 original size:33 final size:33
Alignment explanation
Indices: 35386300--35386511 Score: 95
Period size: 33 Copynumber: 6.2 Consensus size: 33
35386290 CATTTCCATA
** * **
35386300 GTCTTACATTTGTAATGCCATAACCCAGTTATG
1 GTCTTACATTTAAAATGCCATAGCCCAACTATG
* *
35386333 GTCTTATCA-TCAGAATGCCATAGCCCAACTATG
1 GTCTTA-CATTTAAAATGCCATAGCCCAACTATG
* * * * *
35386366 GTCTTACACATGTATCTATACTGCCATGGTCCAACCATG
1 GTCTT--ACA--T-T-TAAAATGCCATAGCCCAACTATG
** * ** * **
35386405 GTCTTATGTTCAAGGTGCCATAACCCAGTTATG
1 GTCTTACATTTAAAATGCCATAGCCCAACTATG
* *
35386438 GTCTTTTCA-TTAAAATGCCATAGCCCAGCTATG
1 GTC-TTACATTTAAAATGCCATAGCCCAACTATG
* * *
35386471 GTCTTACATTTAAACATTGCCATGGTCCAACCATG
1 GTCTTACATTTAAA-A-TGCCATAGCCCAACTATG
35386506 GTCTTA
1 GTCTTA
35386512 TCCATCAATT
Statistics
Matches: 130, Mismatches: 37, Indels: 22
0.69 0.20 0.12
Matches are distributed among these distances:
32 4 0.03
33 72 0.55
34 8 0.06
35 22 0.17
37 1 0.01
38 1 0.01
39 22 0.17
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (33 bp):
GTCTTACATTTAAAATGCCATAGCCCAACTATG
Found at i:35387745 original size:29 final size:28
Alignment explanation
Indices: 35387697--35387754 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
35387687 CCTAATAAAT
*
35387697 TCTTTTAAAACACAAATTAATTCAAAAA
1 TCTTTTAAAACACAAATTAACTCAAAAA
* *
35387725 TCTTTCTAAAATCAC-ACTTAACTCATAAA
1 TCTTT-TAAAA-CACAAATTAACTCAAAAA
35387754 T
1 T
35387755 AATAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 5 0.20
29 17 0.68
30 3 0.12
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (28 bp):
TCTTTTAAAACACAAATTAACTCAAAAA
Found at i:35391055 original size:8 final size:8
Alignment explanation
Indices: 35391044--35391077 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
35391034 TATAAAATAA
35391044 AAAAATTT
1 AAAAATTT
35391052 AAAAATTT
1 AAAAATTT
35391060 AAAAATTAT
1 AAAAATT-T
*
35391069 TAAAATTT
1 AAAAATTT
35391077 A
1 A
35391078 TTCTTACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAAATTT
Found at i:35391073 original size:17 final size:16
Alignment explanation
Indices: 35391044--35391077 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
35391034 TATAAAATAA
35391044 AAAAATTTAAAAATTT
1 AAAAATTTAAAAATTT
*
35391060 AAAAATTATTAAAATTT
1 AAAAATT-TAAAAATTT
35391077 A
1 A
35391078 TTCTTACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATTTAAAAATTT
Found at i:35393267 original size:42 final size:43
Alignment explanation
Indices: 35393199--35393305 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
35393189 CTAAATACCA
* * * **
35393199 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCTCAAAAAC
1 GCCGCTAAAGAACACAACCTTTAGCGGCGCTTCTAGCAAAAAC
*
35393242 GCCGCTAAAGAACA-AACCTTTAGCGGTGCTTCTAGCAAAAAC
1 GCCGCTAAAGAACACAACCTTTAGCGGCGCTTCTAGCAAAAAC
* * *
35393284 ACCGCTAAA-AACATAATCTTTA
1 GCCGCTAAAGAACACAACCTTTA
35393306 AAAAAATTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 4 0.07
42 38 0.69
43 13 0.24
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (43 bp):
GCCGCTAAAGAACACAACCTTTAGCGGCGCTTCTAGCAAAAAC
Found at i:35397125 original size:24 final size:24
Alignment explanation
Indices: 35397098--35397145 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
35397088 AACGACGCCG
*
35397098 TTTTGCTATGCTAAAATTT-TTTTA
1 TTTTG-TATGCCAAAATTTATTTTA
*
35397122 TTTTGTTTGCCAAAATTTATTTTA
1 TTTTGTATGCCAAAATTTATTTTA
35397146 AAGTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (24 bp):
TTTTGTATGCCAAAATTTATTTTA
Found at i:35397295 original size:21 final size:23
Alignment explanation
Indices: 35397252--35397304 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 23
35397242 AGCTAAGTGA
*
35397252 TTTTATAAAATATTTATTATTTT
1 TTTTATAAAATATTAATTATTTT
35397275 TTTTAT-AAAT-TTAATT-TTTT
1 TTTTATAAAATATTAATTATTTT
35397295 TTTTA-AAAAT
1 TTTTATAAAAT
35397305 CAAGTACTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 13 0.46
21 5 0.18
22 4 0.14
23 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATAAAATATTAATTATTTT
Found at i:35397860 original size:21 final size:21
Alignment explanation
Indices: 35397835--35397878 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35397825 ATAAAACATA
*
35397835 AACCC-TAAACCCATAACCCTT
1 AACCCTTAAACCC-CAACCCTT
35397856 AACCCTTAAACCCCAACCCTT
1 AACCCTTAAACCCCAACCCTT
35397877 AA
1 AA
35397879 ACCATATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.18
Consensus pattern (21 bp):
AACCCTTAAACCCCAACCCTT
Found at i:35398423 original size:15 final size:15
Alignment explanation
Indices: 35398382--35398430 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
35398372 CCCCAACCCT
*
35398382 TAAACCACATAATCCA
1 TAAA-CACATAATCCC
*
35398398 TAATC-CATAATCCC
1 TAAACACATAATCCC
35398412 TAAACACATAATCCC
1 TAAACACATAATCCC
35398427 TAAA
1 TAAA
35398431 TTACCTTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 12 0.41
15 14 0.48
16 3 0.10
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACACATAATCCC
Found at i:35398835 original size:40 final size:40
Alignment explanation
Indices: 35398770--35398877 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
35398760 TGTTTTTTGT
35398770 GGCGTTTTTCAACAAA-CGCCGCTAATGCTTGATCTATAGC
1 GGCGTTTTTCAA-AAAGCGCCGCTAATGCTTGATCTATAGC
* *
35398810 GGCGTTTTTCAAAAAGCGCCACTAATGCTTGATCTATAGT
1 GGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATAGC
*
35398850 GGCGTTTTTCAAGAAGCGCCGCTAATGC
1 GGCGTTTTTCAAAAAGCGCCGCTAATGC
35398878 CACCAAAGCT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.05
40 60 0.95
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATAGC
Found at i:35399057 original size:94 final size:93
Alignment explanation
Indices: 35398897--35399076 Score: 281
Period size: 94 Copynumber: 1.9 Consensus size: 93
35398887 TCATGGCGTT
* * *
35398897 GTGCTTATTTTTTTTGTGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGGCGTTTT
1 GTGCTTATTTTTTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTT
*
35398962 TCAAGAAGCGCCGCTAATGCCACCAAAG
66 TCAAAAAGCGCCGCTAATGCCACCAAAG
*
35398990 GTGCTTAATTTTTTTTTGCGGCGTTTTT-TAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTT
1 GTGCTT-A-TTTTTTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTT
*
35399054 TTTCAAAAAGTGCCGCTAATGCC
64 TTTCAAAAAGCGCCGCTAATGCC
35399077 GATCTATAGC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
93 6 0.08
94 55 0.70
95 18 0.23
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (93 bp):
GTGCTTATTTTTTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTT
TCAAAAAGCGCCGCTAATGCCACCAAAG
Found at i:35399084 original size:39 final size:39
Alignment explanation
Indices: 35399007--35399116 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
35398997 ATTTTTTTTT
*
35399007 GCGGCGTTTTT-TAAAAGCGCCGCTAATGCTCGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGC-CGACCTATA
* *
35399046 GCGGCGTTTTTCAAAAAGTGCCGCTAATGCCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCCGACCTATA
* *
35399085 GCGGTGTTTTTCAAGAAGCGCCGCTAATGCCG
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCCG
35399117 CCAAAGGTGC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 48 0.75
40 16 0.25
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (39 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCCGACCTATA
Found at i:35399248 original size:41 final size:40
Alignment explanation
Indices: 35399144--35399231 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
35399134 TTTTTGCGGC
*
35399144 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCG
1 GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
* *
35399184 GCGTTTTTCAAAAAACTCCGCTAATGGTCGACCTATAGCG
1 GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
35399224 GCGTTTTT
1 GCGTTTTT
35399232 TATCCAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (40 bp):
GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
Found at i:35400336 original size:18 final size:20
Alignment explanation
Indices: 35400311--35400354 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
35400301 TAAAAAAGTC
35400311 ATTA-AATTTATAAAAA-A-
1 ATTAGAATTTATAAAAATAT
35400328 ATTAGAATTTATAAAAATAT
1 ATTAGAATTTATAAAAATAT
35400348 ATTAGAA
1 ATTAGAA
35400355 ATTAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.17
18 12 0.50
19 1 0.04
20 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTAGAATTTATAAAAATAT
Found at i:35405268 original size:40 final size:39
Alignment explanation
Indices: 35405206--35405334 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 39
35405196 GCTTTAGCAG
*
35405206 CATTAGCGGTGCTTTTTTAAAAACGCCGCTATAGGTCAAC
1 CATTAGCGGTGC-TATTTAAAAACGCCGCTATAGGTCAAC
*
35405246 CATTAGCGGTGCTATTTGAAAAA-GACCGCTATAGGTCGAC
1 CATTAGCGGTGCTATTT-AAAAACG-CCGCTATAGGTCAAC
** *
35405286 CATTAGCGGTGCTTATTTAAAAACGCCGCTATATATCAAG
1 CATTAGCGGTGC-TATTTAAAAACGCCGCTATAGGTCAAC
35405326 CATTAGCGG
1 CATTAGCGG
35405335 CACATCATGA
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
39 5 0.06
40 68 0.86
41 6 0.08
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (39 bp):
CATTAGCGGTGCTATTTAAAAACGCCGCTATAGGTCAAC
Found at i:35405748 original size:7 final size:7
Alignment explanation
Indices: 35405655--35405748 Score: 93
Period size: 7 Copynumber: 13.6 Consensus size: 7
35405645 ATAATTTAAT
*
35405655 GTTTAGA
1 GTTTAGG
*
35405662 GTTTAGT
1 GTTTAGG
*
35405669 GTTTACG
1 GTTTAGG
35405676 GTTTA-G
1 GTTTAGG
35405682 GTTGTA-G
1 GTT-TAGG
*
35405689 GTTTATG
1 GTTTAGG
*
35405696 GTTTAGT
1 GTTTAGG
35405703 GTTTAGG
1 GTTTAGG
35405710 GTTTAGG
1 GTTTAGG
35405717 GTTTAGG
1 GTTTAGG
**
35405724 GTTTATA
1 GTTTAGG
*
35405731 GTTTAGT
1 GTTTAGG
35405738 GTTTAGG
1 GTTTAGG
35405745 GTTT
1 GTTT
35405749 TAAACAAAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
6 6 0.08
7 68 0.92
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:35413756 original size:26 final size:26
Alignment explanation
Indices: 35413727--35413778 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
35413717 ACAACTCTTA
35413727 TGAGTGTCCTGA-TATATGGCTCTCTG
1 TGAGTGTCCTGATTA-ATGGCTCTCTG
*
35413753 TGAGTTTCCTGATTAATGGCTCTCTG
1 TGAGTGTCCTGATTAATGGCTCTCTG
35413779 GAGCCTCTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.40
Consensus pattern (26 bp):
TGAGTGTCCTGATTAATGGCTCTCTG
Found at i:35413821 original size:25 final size:25
Alignment explanation
Indices: 35413789--35413847 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
35413779 GAGCCTCTCG
*
35413789 ATATGGCTCGCCTAAACTTCCCAAT
1 ATATGGCTCGCCGAAACTTCCCAAT
** *
35413814 ATATGGCTATCCGAAGCTTCCCAAT
1 ATATGGCTCGCCGAAACTTCCCAAT
35413839 -TAATGGCTC
1 AT-ATGGCTC
35413848 TTCGAAGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (25 bp):
ATATGGCTCGCCGAAACTTCCCAAT
Found at i:35413853 original size:25 final size:25
Alignment explanation
Indices: 35413805--35413856 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
35413795 CTCGCCTAAA
35413805 CTTCCCAATATATGGCTATCCGAAG
1 CTTCCCAATATATGGCTATCCGAAG
* *
35413830 CTTCCCAAT-TAATGGCTCTTCGAAG
1 CTTCCCAATAT-ATGGCTATCCGAAG
35413855 CT
1 CT
35413857 AACCGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
CTTCCCAATATATGGCTATCCGAAG
Found at i:35415187 original size:23 final size:23
Alignment explanation
Indices: 35415161--35415205 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
35415151 CCACAGTGAT
35415161 ATGTAGCCGAAGCTACCACTGAG
1 ATGTAGCCGAAGCTACCACTGAG
35415184 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
35415206 TCAATAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAG
Found at i:35415306 original size:8 final size:8
Alignment explanation
Indices: 35415293--35415321 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
35415283 ACCCGGGACT
35415293 CACTGTAA
1 CACTGTAA
35415301 CACTGTAA
1 CACTGTAA
35415309 CACTGTAA
1 CACTGTAA
35415317 CACTG
1 CACTG
35415322 ATCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:35421709 original size:67 final size:67
Alignment explanation
Indices: 35421442--35421709 Score: 353
Period size: 67 Copynumber: 4.0 Consensus size: 67
35421432 GTGGATTTCG
* * * * *
35421442 TTTT-TTGTCATAGCCTAGCTATGGTCTTACACATTATACCCTATGTTTGTTGTCTTGACAGATT
1 TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCTTGACAGACT
35421506 TC
66 TC
* *
35421508 CTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCGTGACAGACT
1 TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCTTGACAGACT
35421573 TC
66 TC
* * * * *
35421575 ATTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTACTATCCT-AAAGGAC
1 TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCTTGACA-GAC
35421639 TTC
65 TTC
* * * *
35421642 TTTTGTTGCAATAGCCTAGCTATGGTCTTACAC-ATCATACTCCATGTTTATTGTCTTGGCGGAC
1 TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAAT-ATACCCCATGTTTATTGTCTTGACAGAC
35421706 TTC
65 TTC
35421709 T
1 T
35421710 GATTTCATGG
Statistics
Matches: 177, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
66 7 0.04
67 170 0.96
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (67 bp):
TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCTTGACAGACT
TC
Found at i:35429917 original size:40 final size:40
Alignment explanation
Indices: 35429866--35430283 Score: 706
Period size: 40 Copynumber: 10.6 Consensus size: 40
35429856 CATTTGAATG
35429866 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
35429906 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
35429946 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
35429986 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
35430026 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
35430066 ATATCAGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
35430106 ATATCC-GG----G--CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
35430139 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
**
35430179 ATATCCGGGCTAAGACCTAAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
35430219 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
35430259 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
35430284 ATTGAGCTTG
Statistics
Matches: 358, Mismatches: 13, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
33 30 0.08
34 2 0.01
35 1 0.00
38 1 0.00
39 2 0.01
40 322 0.90
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:35430306 original size:193 final size:193
Alignment explanation
Indices: 35429864--35430290 Score: 642
Period size: 193 Copynumber: 2.2 Consensus size: 193
35429854 AGCATTTGAA
* * *
35429864 TGATAT-CC-GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAA
1 TGATATACCAGGGCTAAGACCCGAAGGCAATTGAGCGAATGGATATATCC-GG----G--CCGAA
35429927 GGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
59 GGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
* *
35429992 GGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTG
124 GGGATAAGACCCAAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTCGTG
35430057 CGAAT
189 CGAAT
* * * *
35430062 TGATATATCAGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCCGAAGGCATTT
1 TGATATACCAGGGCTAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCCGAAGGCATTT
*
35430127 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
66 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAA
* *
35430192 GACCTAAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT
131 GACCCAAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAAT
* * *
35430255 TGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGC
1 TGATATACCAGGGCTAAGACCCGAAGGCAATTGAGC
35430291 TTGTGGTTAT
Statistics
Matches: 215, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
193 165 0.77
195 1 0.00
198 6 0.03
199 3 0.01
200 40 0.19
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (193 bp):
TGATATACCAGGGCTAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCCGAAGGCATTT
GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAA
GACCCAAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAAT
Found at i:35434064 original size:117 final size:117
Alignment explanation
Indices: 35433856--35434077 Score: 338
Period size: 117 Copynumber: 1.9 Consensus size: 117
35433846 AAAGCTTTCT
*
35433856 ATTTCTACATCACCACTAACATTTCAAGTGCTAAATAACATAGAAATAAGCATATTTATACAAAT
1 ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATAGAAATAAGCATATTTATACAAAT
* *
35433921 TAATGTCCTAAGTACATGCCACAATATATAAATACACAAACTCTAGCATTCA
66 TAATGACCTAAGTACATGCCAAAATATATAAATACACAAACTCTAGCATTCA
* * * * *
35433973 ATTTCTACATCACCACTAACATTTTAGGTACTAACTAACATATG-AATAAGCTTATTTATACAAG
1 ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATA-GAAATAAGCATATTTATACAAA
* *
35434037 TTATTGACCTAAGTACATGCCAAAATATATAAATATACAAA
65 TTAATGACCTAAGTACATGCCAAAATATATAAATACACAAA
35434078 TTCCATACTC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 93 0.99
118 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (117 bp):
ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATAGAAATAAGCATATTTATACAAAT
TAATGACCTAAGTACATGCCAAAATATATAAATACACAAACTCTAGCATTCA
Found at i:35435089 original size:40 final size:40
Alignment explanation
Indices: 35435044--35435147 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
35435034 GTTTGGACAA
* *
35435044 AAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTACA-C
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTAT-CAGC
* *
35435084 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTATCAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTATCAGC
*
35435124 AAAGCGCCGCTAAAAAT-GAGCATT
1 AAAACGCCGCTAAAAATCGAGCATT
35435148 TGTAAAAACG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 9 0.16
40 48 0.84
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTATCAGC
Found at i:35435278 original size:41 final size:41
Alignment explanation
Indices: 35435202--35435396 Score: 311
Period size: 41 Copynumber: 4.8 Consensus size: 41
35435192 GGACTTTTCG
*
35435202 GGGCTTTAGTGGCGTTTTT-AAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * *
35435242 GGGCTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * *
35435283 GGGCTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
35435324 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
35435365 GGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
35435397 AAAAACATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 17 0.12
41 129 0.88
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:35435874 original size:14 final size:14
Alignment explanation
Indices: 35435853--35435901 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
35435843 GGGTTGTGAT
35435853 TTAAGGGTTAAGGG-
1 TTAAGGGTT-AGGGA
*
35435867 TTAGGGGTTAGGGA
1 TTAAGGGTTAGGGA
*
35435881 TTAAGTGTTAGGGA
1 TTAAGGGTTAGGGA
35435895 TTTAAGG
1 -TTAAGG
35435902 TTTATGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 4 0.14
14 20 0.69
15 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.41, T:0.33
Consensus pattern (14 bp):
TTAAGGGTTAGGGA
Found at i:35436069 original size:21 final size:21
Alignment explanation
Indices: 35436034--35436085 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
35436024 TATATTAAAT
* *
35436034 AAGGTTTAGGGGTTAGTAGTTA
1 AAGG-TTAAGGGTTAGGAGTTA
*
35436056 AAGGTTAAGGGTTAGGGGTTA
1 AAGGTTAAGGGTTAGGAGTTA
*
35436077 GAGGTTAAG
1 AAGGTTAAG
35436086 ACTTAGTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (21 bp):
AAGGTTAAGGGTTAGGAGTTA
Found at i:35436091 original size:21 final size:21
Alignment explanation
Indices: 35436052--35436091 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35436042 GGGGTTAGTA
**
35436052 GTTAAAGGTTAAGGGTTAGGG
1 GTTAAAGGTTAAGACTTAGGG
*
35436073 GTTAGAGGTTAAGACTTAG
1 GTTAAAGGTTAAGACTTAG
35436092 TGATTTAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.38, T:0.30
Consensus pattern (21 bp):
GTTAAAGGTTAAGACTTAGGG
Found at i:35436920 original size:13 final size:14
Alignment explanation
Indices: 35436902--35436934 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
35436892 TAAACATCCA
35436902 ATAAAAAATA-GTT
1 ATAAAAAATATGTT
*
35436915 ATAAAAAATATTTT
1 ATAAAAAATATGTT
35436929 ATAAAA
1 ATAAAA
35436935 TCACATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAAAAAATATGTT
Found at i:35437555 original size:3 final size:3
Alignment explanation
Indices: 35437547--35437594 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
35437537 CATTGAGCTG
35437547 TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
35437593 TT
1 TT
35437595 TTGGTTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35445750 original size:146 final size:146
Alignment explanation
Indices: 35445486--35445781 Score: 592
Period size: 146 Copynumber: 2.0 Consensus size: 146
35445476 AGACTTGTTA
35445486 GTAACAAAAGGTGGTTTTGAACTCTTAGAATCAGAATTGGAATTGTTACCTCGATAATATTGTGA
1 GTAACAAAAGGTGGTTTTGAACTCTTAGAATCAGAATTGGAATTGTTACCTCGATAATATTGTGA
35445551 AGTAGAGAAGGACCCAAACCTTTGTTCCTTTAATTGTTGCTCGATCTCAATGGCTTTGTGAACTG
66 AGTAGAGAAGGACCCAAACCTTTGTTCCTTTAATTGTTGCTCGATCTCAATGGCTTTGTGAACTG
35445616 CTTCTTCCAAATCAAT
131 CTTCTTCCAAATCAAT
35445632 GTAACAAAAGGTGGTTTTGAACTCTTAGAATCAGAATTGGAATTGTTACCTCGATAATATTGTGA
1 GTAACAAAAGGTGGTTTTGAACTCTTAGAATCAGAATTGGAATTGTTACCTCGATAATATTGTGA
35445697 AGTAGAGAAGGACCCAAACCTTTGTTCCTTTAATTGTTGCTCGATCTCAATGGCTTTGTGAACTG
66 AGTAGAGAAGGACCCAAACCTTTGTTCCTTTAATTGTTGCTCGATCTCAATGGCTTTGTGAACTG
35445762 CTTCTTCCAAATCAAT
131 CTTCTTCCAAATCAAT
35445778 GTAA
1 GTAA
35445782 GTTTGTAGCC
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 150 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (146 bp):
GTAACAAAAGGTGGTTTTGAACTCTTAGAATCAGAATTGGAATTGTTACCTCGATAATATTGTGA
AGTAGAGAAGGACCCAAACCTTTGTTCCTTTAATTGTTGCTCGATCTCAATGGCTTTGTGAACTG
CTTCTTCCAAATCAAT
Done.