Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 103 of 187
Found at i:30163587 original size:16 final size:16
Alignment explanation
Indices: 30163563--30163599 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
30163553 TTAAAAACCC
*
30163563 AAATGATTTGAACTCA
1 AAATTATTTGAACTCA
*
30163579 AAATTATTTGAATTCA
1 AAATTATTTGAACTCA
30163595 AAATT
1 AAATT
30163600 GATCCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (16 bp):
AAATTATTTGAACTCA
Found at i:30169576 original size:31 final size:29
Alignment explanation
Indices: 30169541--30169603 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
30169531 TTTTTAATAT
*
30169541 AAATAATAAAAAGAATTATTAAAAATTTATA
1 AAATAAT-AAAAGAACTATTAAAAA-TTATA
* *
30169572 AAATAATATAATAACTATTAAAAATTATA
1 AAATAATAAAAGAACTATTAAAAATTATA
30169601 AAA
1 AAA
30169604 AAAATATAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.28
30 14 0.48
31 7 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATAATAAAAGAACTATTAAAAATTATA
Found at i:30170250 original size:19 final size:18
Alignment explanation
Indices: 30170210--30170250 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
30170200 AAAATTAACC
*
30170210 TTTTTTATATTTTCAATT
1 TTTTTTATATTTTCAATA
*
30170228 TTTTTTATAATTTTTAATA
1 TTTTTTAT-ATTTTCAATA
30170247 TTTT
1 TTTT
30170251 AAATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTATATTTTCAATA
Found at i:30173619 original size:12 final size:12
Alignment explanation
Indices: 30173602--30173648 Score: 85
Period size: 12 Copynumber: 3.8 Consensus size: 12
30173592 TAGTTTCTTC
30173602 AAAAAAAATTCAA
1 AAAAAAAATTC-A
30173615 AAAAAAAATTCA
1 AAAAAAAATTCA
30173627 AAAAAAAATTCA
1 AAAAAAAATTCA
30173639 AAAAAAAATT
1 AAAAAAAATT
30173649 TTGGTTTCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 23 0.68
13 11 0.32
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:30173620 original size:13 final size:13
Alignment explanation
Indices: 30173602--30173646 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
30173592 TAGTTTCTTC
30173602 AAAAAAAATTCAA
1 AAAAAAAATTCAA
30173615 AAAAAAAATTC-A
1 AAAAAAAATTCAA
30173627 AAAAAAAATTCAA
1 AAAAAAAATTCAA
30173640 AAAAAAA
1 AAAAAAA
30173647 TTTTGGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:30173707 original size:15 final size:15
Alignment explanation
Indices: 30173687--30173728 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
30173677 GATATCAAGT
30173687 TGAAAAAAAAA-TTC
1 TGAAAAAAAAATTTC
30173701 GTGAAAAAAAAATTTTC
1 -TGAAAAAAAAA-TTTC
30173718 TGAAAAAAAAA
1 TGAAAAAAAAA
30173729 GAAGAAGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.44
16 11 0.44
17 3 0.12
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (15 bp):
TGAAAAAAAAATTTC
Found at i:30173710 original size:16 final size:16
Alignment explanation
Indices: 30173689--30173728 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
30173679 TATCAAGTTG
30173689 AAAAAAAA-ATTCGTGA
1 AAAAAAAATATTC-TGA
*
30173705 AAAAAAAATTTTCTGA
1 AAAAAAAATATTCTGA
30173721 AAAAAAAA
1 AAAAAAAA
30173729 GAAGAAGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (16 bp):
AAAAAAAATATTCTGA
Found at i:30186390 original size:19 final size:19
Alignment explanation
Indices: 30186366--30186403 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30186356 AGATTGATGT
30186366 GATACCTGGAGTCTACGTG
1 GATACCTGGAGTCTACGTG
30186385 GATACCTGGAGTCTACGTG
1 GATACCTGGAGTCTACGTG
30186404 CATGTGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (19 bp):
GATACCTGGAGTCTACGTG
Found at i:30190087 original size:17 final size:17
Alignment explanation
Indices: 30190024--30190087 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
30190014 AAATATTTAT
**
30190024 TTTTTA-ATTTATGATA
1 TTTTTATATTTAAAATA
*
30190040 TGTTTATATTTAAAAT-
1 TTTTTATATTTAAAATA
*
30190056 TTTAATT-TATATAAAATA
1 TTT--TTATATTTAAAATA
30190074 TTTTTATATTTAAA
1 TTTTTATATTTAAA
30190088 TTCAAATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
16 9 0.24
17 23 0.62
18 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTTATATTTAAAATA
Found at i:30193016 original size:16 final size:17
Alignment explanation
Indices: 30192997--30193040 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
30192987 AGCATCACTA
*
30192997 TAGAACAACTCT-TATT
1 TAGAACAACTCTACATT
30193013 TAGAACAACCTCTACATT
1 TAGAACAA-CTCTACATT
*
30193031 GAGAACAACT
1 TAGAACAACT
30193041 ATGCCAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (17 bp):
TAGAACAACTCTACATT
Found at i:30193625 original size:16 final size:16
Alignment explanation
Indices: 30193604--30193634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30193594 TTCACTATTA
*
30193604 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
30193620 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
30193635 GTATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:30195288 original size:42 final size:42
Alignment explanation
Indices: 30195230--30195310 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
30195220 TTCCAAAAAT
*
30195230 AATATTATTTTAATAGT-TTAATATTAAATTAA-ATTAAATTA
1 AATATTATCTTAATAGTATT-ATATTAAATTAATATTAAATTA
* *
30195271 AATACTTATCTTAATAGTATTTTATTAATTTAATATTAAA
1 AATA-TTATCTTAATAGTATTATATTAAATTAATATTAAA
30195311 GTGACTATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.12
42 22 0.65
43 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (42 bp):
AATATTATCTTAATAGTATTATATTAAATTAATATTAAATTA
Found at i:30198080 original size:18 final size:17
Alignment explanation
Indices: 30198053--30198086 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
30198043 AATAAATATT
30198053 ATTTATAAATTAATTTA
1 ATTTATAAATTAATTTA
30198070 ATTTGATAAATTAATTT
1 ATTT-ATAAATTAATTT
30198087 TCCAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATAAATTAATTTA
Found at i:30203358 original size:25 final size:24
Alignment explanation
Indices: 30203330--30203418 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 24
30203320 ATAAATGGGT
*
30203330 AGCTCTTTCGAGCCATAG-AACAGGA
1 AGCTCTGT-GAGCCAT-GTAACAGGA
*
30203355 AGCTCATGTGAGCCATGTAACGGGA
1 AGCTC-TGTGAGCCATGTAACAGGA
* *
30203380 AGCTCTAGAGAGCCAT-TAACGGGA
1 AGCTCT-GTGAGCCATGTAACAGGA
*
30203404 AGCTCATATGAGCCA
1 AGCTC-TGTGAGCCA
30203419 ATATCGGGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
24 21 0.38
25 32 0.58
26 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.19
Consensus pattern (24 bp):
AGCTCTGTGAGCCATGTAACAGGA
Found at i:30203384 original size:50 final size:50
Alignment explanation
Indices: 30203299--30203418 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
30203289 AATTCATATT
* * ***
30203299 CAGGAATGCTCATGTGAG-CATATAAATGGGTAGCTCTTTCGAGCCATAGAA
1 CAGGAA-GCTCATGTGAGCCATATAAACGGGAAGCTCTAGAGAGCCAT-GAA
* *
30203350 CAGGAAGCTCATGTGAGCCATGT-AACGGGAAGCTCTAGAGAGCCATTAA
1 CAGGAAGCTCATGTGAGCCATATAAACGGGAAGCTCTAGAGAGCCATGAA
* *
30203399 CGGGAAGCTCATATGAGCCA
1 CAGGAAGCTCATGTGAGCCA
30203419 ATATCGGGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 20 0.34
50 29 0.49
51 10 0.17
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.21
Consensus pattern (50 bp):
CAGGAAGCTCATGTGAGCCATATAAACGGGAAGCTCTAGAGAGCCATGAA
Found at i:30203416 original size:24 final size:24
Alignment explanation
Indices: 30203352--30203429 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
30203342 CCATAGAACA
*
30203352 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATATGAGCCAT-TAACG
*
30203377 GGAAGCTC-TAGAGAGCCATTAACG
1 GGAAGCTCATA-TGAGCCATTAACG
* *
30203401 GGAAGCTCATATGAGCCAATATCG
1 GGAAGCTCATATGAGCCATTAACG
30203425 GGAAG
1 GGAAG
30203430 GTTCAAACGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 29 0.63
25 17 0.37
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATATGAGCCATTAACG
Found at i:30203447 original size:25 final size:25
Alignment explanation
Indices: 30203416--30203479 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
30203406 CTCATATGAG
*
30203416 CCAATATCGGGAAGGTTCAAACGAA
1 CCAATATCGGGAAGATTCAAACGAA
* * *
30203441 CCAATATCGAGAATATTCAAACGAG
1 CCAATATCGGGAAGATTCAAACGAA
*
30203466 CCAATATCAGGAAG
1 CCAATATCGGGAAG
30203480 CTCCGGAGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (25 bp):
CCAATATCGGGAAGATTCAAACGAA
Found at i:30209485 original size:15 final size:14
Alignment explanation
Indices: 30209449--30209503 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
30209439 TCTATTGATC
30209449 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
30209463 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
30209477 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
30209492 GAAAGAAAAGAA
1 GAGA-AAAAGAA
30209504 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:30219438 original size:25 final size:25
Alignment explanation
Indices: 30219410--30219457 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30219400 TAGCTCTTTC
30219410 GAGCCATATAACAAGAAGCTCATGT
1 GAGCCATATAACAAGAAGCTCATGT
* **
30219435 GAGCCATGTAACGGGAAGCTCAT
1 GAGCCATATAACAAGAAGCTCAT
30219458 ACGAGATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAAGAAGCTCATGT
Found at i:30219493 original size:25 final size:25
Alignment explanation
Indices: 30219465--30219526 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
30219455 CATACGAGAT
*
30219465 AATATCGAGAAGGTTCAAGTGAACC
1 AATATCGAGAAGGTTCAAGCGAACC
* * * *
30219490 AATATCGGGAATGTTTAAGCGAGCC
1 AATATCGAGAAGGTTCAAGCGAACC
30219515 AATATCGAGAAG
1 AATATCGAGAAG
30219527 CTCCGAAGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.21
Consensus pattern (25 bp):
AATATCGAGAAGGTTCAAGCGAACC
Found at i:30219552 original size:26 final size:26
Alignment explanation
Indices: 30219510--30219588 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 26
30219500 ATGTTTAAGC
*
30219510 GAGCCAA-T-ATCGAGAAGCTCCGAA
1 GAGCCAATTAATCGGGAAGCTCCGAA
**
30219534 GAGCCAATTAATCGGGAAGCTTATGAAA
1 GAGCCAATTAATCGGGAAGC-TCCG-AA
*
30219562 GAGCC-TTTAATCGGGAAGCTCCGAA
1 GAGCCAATTAATCGGGAAGCTCCGAA
30219587 GA
1 GA
30219589 CCATATAACC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 7 0.16
25 5 0.11
26 11 0.24
27 15 0.33
28 7 0.16
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
GAGCCAATTAATCGGGAAGCTCCGAA
Found at i:30222469 original size:40 final size:41
Alignment explanation
Indices: 30222398--30222474 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
30222388 TTTATTACTT
* *
30222398 ATTTTATTATTATAATACAATATATATACTTAAACATTAAG
1 ATTTTATTATTATAATACAATAAATACACTTAAACATTAAG
* *
30222439 ATTTTA-TATTATAATA-TATAGAATACACTTACACAT
1 ATTTTATTATTATAATACAATA-AATACACTTAAACAT
30222475 ATTTTAACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 3 0.10
40 22 0.71
41 6 0.19
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (41 bp):
ATTTTATTATTATAATACAATAAATACACTTAAACATTAAG
Found at i:30234094 original size:25 final size:25
Alignment explanation
Indices: 30234066--30234117 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
30234056 AAAATTGGTA
30234066 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
30234091 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
30234116 AG
1 AG
30234118 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:30238469 original size:32 final size:33
Alignment explanation
Indices: 30238428--30238512 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 33
30238418 AACTTTTCCG
* * *
30238428 GAAAATATTTT-CAGGAAATCTGCCAAACAGCA
1 GAAAATATTTTACAGCAAATCTACCAAACACCA
* *
30238460 GAAAATATTTTACA-CAGATTTACCAAACACCA
1 GAAAATATTTTACAGCAAATCTACCAAACACCA
* *
30238492 GAAAATATTTTCCAGTAAATC
1 GAAAATATTTTACAGCAAATC
30238513 ATTTTACAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
32 37 0.88
33 5 0.12
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCTACCAAACACCA
Found at i:30238530 original size:20 final size:20
Alignment explanation
Indices: 30238505--30238544 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30238495 AATATTTTCC
*
30238505 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
30238525 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
30238545 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:30238546 original size:34 final size:35
Alignment explanation
Indices: 30238493--30238559 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30238483 CAAACACCAG
*
30238493 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
30238528 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
30238560 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30238551 original size:14 final size:14
Alignment explanation
Indices: 30238528--30238567 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30238518 ACAGAAAAGT
*
30238528 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
30238542 AAATCATTTTACGG
1 AAAACATTTTACAG
30238556 AAAACATTTTAC
1 AAAACATTTTAC
30238568 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:30239630 original size:14 final size:14
Alignment explanation
Indices: 30239611--30239640 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30239601 AGTGAGAGAG
*
30239611 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
30239625 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
30239639 GA
1 GA
30239641 ACGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:30241709 original size:15 final size:13
Alignment explanation
Indices: 30241665--30241701 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
30241655 TCTGAGTAGG
*
30241665 GTCACATGCCCGT
1 GTCACACGCCCGT
*
30241678 GTCACACGGCCGT
1 GTCACACGCCCGT
30241691 GTCACACGCCC
1 GTCACACGCCC
30241702 ATGTGTCAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.43, G:0.24, T:0.16
Consensus pattern (13 bp):
GTCACACGCCCGT
Found at i:30242669 original size:40 final size:41
Alignment explanation
Indices: 30242600--30242710 Score: 163
Period size: 40 Copynumber: 2.7 Consensus size: 41
30242590 GTGTATTCAG
*
30242600 GGGTACCGAAGTACAAACAAGGGCACGTATATTCAATTT-A
1 GGGTACCGAAGTACAAACAGGGGCACGTATATTCAATTTAA
* *
30242640 GAGGTATCGAAGTAC-AACAGGGGCACGTATGTTCAATTTAA
1 G-GGTACCGAAGTACAAACAGGGGCACGTATATTCAATTTAA
*
30242681 GGGTACCAAAGTACAAACAGGGGCACGTAT
1 GGGTACCGAAGTACAAACAGGGGCACGTAT
30242711 GTGTAATTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
40 34 0.54
41 29 0.46
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (41 bp):
GGGTACCGAAGTACAAACAGGGGCACGTATATTCAATTTAA
Found at i:30242699 original size:81 final size:82
Alignment explanation
Indices: 30242600--30242753 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 82
30242590 GTGTATTCAG
* * *
30242600 GGGTACCGAAGTACAAACAAGGGCACGTATAT-TCAATTTAGAGG-TATCGAAGTAC-AACAGGG
1 GGGTACCAAAGTACAAACAAGGGCACGTATATGT-AATTCAG-GGTTATCGAAGTACAAACAGAG
30242662 GCACGTATGTTCAATTTAA
64 GCACGTATGTTCAATTTAA
* * * *
30242681 GGGTACCAAAGTACAAACAGGGGCACGTATGTGTAATTCAGGGTTATTGAAGTACAAACAGAGGT
1 GGGTACCAAAGTACAAACAAGGGCACGTATATGTAATTCAGGGTTATCGAAGTACAAACAGAGGC
30242746 ACGTATGT
66 ACGTATGT
30242754 GCAAGTCAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.03
81 45 0.71
82 16 0.25
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (82 bp):
GGGTACCAAAGTACAAACAAGGGCACGTATATGTAATTCAGGGTTATCGAAGTACAAACAGAGGC
ACGTATGTTCAATTTAA
Found at i:30242712 original size:41 final size:40
Alignment explanation
Indices: 30242600--30242753 Score: 177
Period size: 41 Copynumber: 3.8 Consensus size: 40
30242590 GTGTATTCAG
* *
30242600 GGGTACCGAAGTACAAACAAGGGCACGTATATTCAATTTA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTTCAATTTA
*
30242640 GAGGTATCGAAGTAC-AACAGGGGCACGTATGTTCAATTTAA
1 G-GGTACCGAAGTACAAACAGGGGCACGTATGTTCAATTT-A
* *
30242681 GGGTACCAAAGTACAAACAGGGGCACGTATGTGT-AATTCA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGT-TCAATTTA
** * *
30242721 GGGTTATTGAAGTACAAACAGAGGTACGTATGT
1 GGG-TACCGAAGTACAAACAGGGGCACGTATGT
30242754 GCAAGTCAAC
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
40 38 0.39
41 59 0.60
42 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (40 bp):
GGGTACCGAAGTACAAACAGGGGCACGTATGTTCAATTTA
Found at i:30246457 original size:25 final size:23
Alignment explanation
Indices: 30246429--30246479 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
30246419 TAAAGTCTTT
*
30246429 AATAGATTAAACTAAAAGAAATTGA
1 AATACATTAAACTAAAAG--ATTGA
*
30246454 AATACATTAAACTAGAAGATTGA
1 AATACATTAAACTAAAAGATTGA
30246477 AAT
1 AAT
30246480 GCCATTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
25 16 0.67
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (23 bp):
AATACATTAAACTAAAAGATTGA
Found at i:30251659 original size:100 final size:100
Alignment explanation
Indices: 30251486--30251681 Score: 268
Period size: 100 Copynumber: 2.0 Consensus size: 100
30251476 CGGCACGAAC
* * * * * * *
30251486 TTTTGGATGGGATCTAAGTAGTTATAGGTTGAGATGTTTGTATAGCGTTTGAAGAATTATTTTTT
1 TTTTGGATGGGATCCAAGTAGTTATAGGTGGAGATGCTTGCATAGCATTTGAAGAATTATATCTT
*
30251551 AGCTTCGAAATGTACATTGAATCACTTGATTGAAT
66 AGCTTCGAAATGTACATTGAATCACTCGATTGAAT
* *
30251586 TTTTGGATGTGATCCAAGTAGTTATGGGCTGGA-ATGCTTGCATAGCATTTGAAGAATTATATCT
1 TTTTGGATGGGATCCAAGTAGTTATAGG-TGGAGATGCTTGCATAGCATTTGAAGAATTATATCT
* *
30251650 TAGTTTCGAAATGTACTTTGAATCACTCGATT
65 TAGCTTCGAAATGTACATTGAATCACTCGATT
30251682 TTGAGTTTGG
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 80 0.96
101 3 0.04
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (100 bp):
TTTTGGATGGGATCCAAGTAGTTATAGGTGGAGATGCTTGCATAGCATTTGAAGAATTATATCTT
AGCTTCGAAATGTACATTGAATCACTCGATTGAAT
Found at i:30252040 original size:82 final size:82
Alignment explanation
Indices: 30251945--30252111 Score: 325
Period size: 82 Copynumber: 2.0 Consensus size: 82
30251935 CTATTCTTGT
30251945 TTAGATTAATTGAAGTTTCATTATATAAGAATTTTATTTTAATATAATTAGCTAACCTATAAAAA
1 TTAGATTAATTGAAGTTTCATTATATAAGAATTTTATTTTAATATAATTAGCTAACCTATAAAAA
30252010 TGTCTCTTCATTATTCA
66 TGTCTCTTCATTATTCA
*
30252027 TTAGATTAATTGAAGTTTCATTATATAAGAGTTTTATTTTAATATAATTAGCTAACCTATAAAAA
1 TTAGATTAATTGAAGTTTCATTATATAAGAATTTTATTTTAATATAATTAGCTAACCTATAAAAA
30252092 TGTCTCTTCATTATTCA
66 TGTCTCTTCATTATTCA
30252109 TTA
1 TTA
30252112 TAGAGAGAGA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (82 bp):
TTAGATTAATTGAAGTTTCATTATATAAGAATTTTATTTTAATATAATTAGCTAACCTATAAAAA
TGTCTCTTCATTATTCA
Found at i:30262028 original size:26 final size:26
Alignment explanation
Indices: 30261994--30262052 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
30261984 CTCGAGTAAG
*
30261994 AAGAAGCTCCTAGGCAATGAAAAGGT
1 AAGATGCTCCTAGGCAATGAAAAGGT
*
30262020 AAGATGCTCCTGGGCAATGAAAAGGT
1 AAGATGCTCCTAGGCAATGAAAAGGT
30262046 AAG-TGCT
1 AAGATGCT
30262053 GGAGAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (26 bp):
AAGATGCTCCTAGGCAATGAAAAGGT
Found at i:30266057 original size:26 final size:27
Alignment explanation
Indices: 30266019--30266073 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
30266009 CCCAACACTC
30266019 AAACAAACACCAATTACACAAA-ACCCA
1 AAACAAACACCAATT-CACAAATACCCA
*
30266046 AAACAAAC-CCAATTCCCAAATACCCA
1 AAACAAACACCAATTCACAAATACCCA
30266072 AA
1 AA
30266074 CAAGCCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 13 0.50
27 8 0.31
ACGTcount: A:0.56, C:0.35, G:0.00, T:0.09
Consensus pattern (27 bp):
AAACAAACACCAATTCACAAATACCCA
Found at i:30266074 original size:25 final size:26
Alignment explanation
Indices: 30266018--30266076 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
30266008 ACCCAACACT
30266018 CAAACAAACACCAATTACACAAAACC
1 CAAACAAACACCAATTACACAAAACC
*
30266044 CAAAACAAAC-CCAATT-CCCAAATACC
1 C-AAACAAACACCAATTACACAAA-ACC
30266070 CAAACAA
1 CAAACAA
30266077 GCCAAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 11 0.37
26 11 0.37
27 8 0.27
ACGTcount: A:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (26 bp):
CAAACAAACACCAATTACACAAAACC
Found at i:30271991 original size:26 final size:26
Alignment explanation
Indices: 30271928--30272003 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
30271918 TATCATCGCT
***
30271928 ATTTTACCCCTAACAAAATTTTGATG
1 ATTTTACCCCTGGTAAAATTTTGATG
30271954 ATTTTACCCCTGGTAAAATTTTGATG
1 ATTTTACCCCTGGTAAAATTTTGATG
*
30271980 ATTTTGCCCCTGGTAAAATTTTGA
1 ATTTTACCCCTGGTAAAATTTTGA
30272004 GAAATATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTGGTAAAATTTTGATG
Found at i:30272164 original size:6 final size:6
Alignment explanation
Indices: 30272148--30272182 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
30272138 GCAAATAAAT
* *
30272148 CATTTC TATTTC CATTTT CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
30272183 TTGGAAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (6 bp):
CATTTC
Found at i:30272170 original size:18 final size:18
Alignment explanation
Indices: 30272147--30272183 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30272137 TGCAAATAAA
*
30272147 TCATTTCTATTTCCATTT
1 TCATTTCCATTTCCATTT
30272165 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
30272183 T
1 T
30272184 TGGAAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:30285815 original size:32 final size:32
Alignment explanation
Indices: 30285760--30285898 Score: 147
Period size: 32 Copynumber: 4.4 Consensus size: 32
30285750 GAATGGCTAC
* *
30285760 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * ** *
30285791 AAGCCATCAGTAGCAGTGATATGATCGATATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
30285823 CAA-CCATTAGTAACGGTAATATGATCGGTACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
30285855 AAGCCATCAGTAACGGTAATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
30285887 AAGCCATCAGTA
1 AAGCCATCAGTA
30285899 TCATCACAGC
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
31 12 0.13
32 75 0.84
33 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:30285877 original size:64 final size:64
Alignment explanation
Indices: 30285757--30285878 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
30285747 ATAGAATGGC
* * *
30285757 TACAAGCCATAAGTACAGTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGATA
1 TACAAGCCATAAGTACAGTAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGATCGATA
* * * *
30285821 TACAA-CCATTAGTAACGGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATATGA
1 TACAAGCCATAAGT-ACAGTAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGA
30285879 CCGGCACAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 7 0.14
64 43 0.86
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (64 bp):
TACAAGCCATAAGTACAGTAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGATCGATA
Found at i:30286076 original size:24 final size:24
Alignment explanation
Indices: 30286044--30286125 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
30286034 CCATGCTCAG
30286044 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
* **
30286068 AATCAGTCATACCAATCACAGGCA
1 AATCAGTCATACAAATCACAAACA
** *
30286092 AATCCA-TCATTTAAATCACAATCA
1 AAT-CAGTCATACAAATCACAAACA
30286116 AATCAGTCAT
1 AATCAGTCAT
30286126 TTACATCACG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.04
24 44 0.92
25 2 0.04
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:30286126 original size:24 final size:24
Alignment explanation
Indices: 30286044--30286152 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
30286034 CCATGCTCAG
** *
30286044 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATTTAAATCACAATCA
*** **
30286068 AATCAGTCATACCAATCACAGGCA
1 AATCAGTCATTTAAATCACAATCA
30286092 AATCCA-TCATTTAAATCACAATCA
1 AAT-CAGTCATTTAAATCACAATCA
* *
30286116 AATCAGTCATTTACATCACGGAT-A
1 AATCAGTCATTTAAATCAC-AATCA
*
30286140 AATCAATCATTTA
1 AATCAGTCATTTA
30286153 CACTCGAATG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 2 0.03
24 65 0.92
25 4 0.06
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAATCA
Found at i:30286134 original size:48 final size:48
Alignment explanation
Indices: 30286056--30286152 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
30286046 TCAGTCATAC
*
30286056 AAATCACAAACAAATCAGTCATACCAATCACAGG-CAAATCCATCATTT
1 AAATCACAAACAAATCAGTCATACCAATCAC-GGACAAATCAATCATTT
* *
30286104 AAATCACAATCAAATCAGTCATTTA-C-ATCACGGATAAATCAATCATTT
1 AAATCACAAACAAATCAGTCA--TACCAATCACGGACAAATCAATCATTT
30286152 A
1 A
30286153 CACTCGAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
47 2 0.05
48 38 0.88
49 1 0.02
50 2 0.05
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (48 bp):
AAATCACAAACAAATCAGTCATACCAATCACGGACAAATCAATCATTT
Found at i:30286228 original size:27 final size:26
Alignment explanation
Indices: 30286191--30286353 Score: 127
Period size: 27 Copynumber: 6.1 Consensus size: 26
30286181 CTTCAGGGGA
* *
30286191 ATTACGATTATTTTACCTTACAAGGGT
1 ATTACGGTCATTTTACC-TACAAGGGT
* * * * **
30286218 GTTTCGGTTATTTAACCCTATGAGGGT
1 ATTACGGTCATTTTA-CCTACAAGGGT
*
30286245 ATTACGGTCATTTTATCCTACAAGGGC
1 ATTACGGTCATTTTA-CCTACAAGGGT
30286272 ATTACGGTCATTTTACCTTATC--GGGT
1 ATTACGGTCATTTTACC-TA-CAAGGGT
* *
30286298 -TTTCGGTCATTTTATCCTACAGGGGT
1 ATTACGGTCATTTTA-CCTACAAGGGT
30286324 ATTACGGTCATTTTACCCTACGAA-GGT
1 ATTACGGTCATTTTA-CCTAC-AAGGGT
30286351 ATT
1 ATT
30286354 TTTGTTATTT
Statistics
Matches: 109, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.01
25 15 0.14
26 11 0.10
27 78 0.72
28 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTACGGTCATTTTACCTACAAGGGT
Found at i:30286363 original size:27 final size:27
Alignment explanation
Indices: 30286330--30286606 Score: 192
Period size: 27 Copynumber: 10.3 Consensus size: 27
30286320 GGGTATTACG
*
30286330 GTCATTTTACCC-TACGAAGGTATTTTT
1 GTCATTTTACCCAT-CGAAGGTATTTTA
* *
30286357 GTTATTTTACCCATCGAGGGTATTTTA
1 GTCATTTTACCCATCGAAGGTATTTTA
* **
30286384 GTCATTTTACCCATCGATGGTATTTCG
1 GTCATTTTACCCATCGAAGGTATTTTA
*
30286411 GT-AGTTTTACCCATC-AAGGGTATTTCA
1 GTCA-TTTTACCCATCGAA-GGTATTTTA
* * * *
30286438 ATCATTTTACCCATTGAGGGTATTTAA
1 GTCATTTTACCCATCGAAGGTATTTTA
* * * *
30286465 ATAATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAAGGTATTTTA
* *
30286492 GTCATTTTACCCATC-AGGGGTA-TTTC
1 GTCATTTTACCCATCGA-AGGTATTTTA
* * *
30286518 GATAATTTTACCCATCGAGGGTA-TTTC
1 G-TCATTTTACCCATCGAAGGTATTTTA
* * **
30286545 GATCGTTTTACCCATCGGCA-GTATTTCG
1 G-TCATTTTACCCATC-GAAGGTATTTTA
* *
30286573 GTAATTTTACCCATCGAGGGTA-TTTA
1 GTCATTTTACCCATCGAAGGTATTTTA
30286599 GGTCATTT
1 -GTCATTT
30286607 AACAAATATT
Statistics
Matches: 204, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
26 9 0.04
27 187 0.92
28 8 0.04
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCATCGAAGGTATTTTA
Found at i:30286367 original size:79 final size:80
Alignment explanation
Indices: 30286171--30286349 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 80
30286161 TGGCAAAATA
* * * * *
30286171 GTCA-TTTACCCTTCAGGGGAATTACGATTATTTTACCTTACAAGGGTGTTTCGGTTATTTAACC
1 GTCATTTTACCCTACAAGGGCATTACGGTTATTTTACCTTAC-AGGGTGTTTCGGTCATTTAACC
*
30286235 CTATGAGGGTATTACG
65 CTAAGAGGGTATTACG
* * * *
30286251 GTCATTTTATCCTACAAGGGCATTACGGTCATTTTACCTTATC-GGGT-TTTCGGTCATTTTATC
1 GTCATTTTACCCTACAAGGGCATTACGGTTATTTTACCTTA-CAGGGTGTTTCGGTCATTTAACC
30286314 CTACAG-GGGTATTACG
65 CTA-AGAGGGTATTACG
30286330 GTCATTTTACCCTACGAAGG
1 GTCATTTTACCCTAC-AAGG
30286350 TATTTTTGTT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
79 40 0.48
80 13 0.15
81 30 0.36
82 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (80 bp):
GTCATTTTACCCTACAAGGGCATTACGGTTATTTTACCTTACAGGGTGTTTCGGTCATTTAACCC
TAAGAGGGTATTACG
Found at i:30286388 original size:54 final size:54
Alignment explanation
Indices: 30286330--30286606 Score: 273
Period size: 54 Copynumber: 5.1 Consensus size: 54
30286320 GGGTATTACG
* *
30286330 GTCATTTTACCC-TACGAAGGTATTTTTGTTATTTTACCCATCGAGGGTATTTTA
1 GTCATTTTACCCAT-CGAAGGTATTTTCGTAATTTTACCCATCGAGGGTATTTTA
* * * *
30286384 GTCATTTTACCCATCGATGGTA-TTTCGGTAGTTTTACCCATCAAGGGTATTTCA
1 GTCATTTTACCCATCGAAGGTATTTTC-GTAATTTTACCCATCGAGGGTATTTTA
* * * *** *
30286438 ATCATTTTACCCATTGAGGGTATTTAAATAATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAAGGTATTTTCGTAATTTTACCCATCGAGGGTATTTTA
* *
30286492 GTCATTTTACCCATC-AGGGGTA-TTTCGATAATTTTACCCATCGAGGGTA-TTTC
1 GTCATTTTACCCATCGA-AGGTATTTTCG-TAATTTTACCCATCGAGGGTATTTTA
* *
30286545 GATCGTTTTACCCATCGGCA-GTA-TTTCGGTAATTTTACCCATCGAGGGTA-TTTA
1 G-TCATTTTACCCATC-GAAGGTATTTTC-GTAATTTTACCCATCGAGGGTATTTTA
30286599 GGTCATTT
1 -GTCATTT
30286607 AACAAATATT
Statistics
Matches: 187, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
53 9 0.05
54 173 0.93
55 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (54 bp):
GTCATTTTACCCATCGAAGGTATTTTCGTAATTTTACCCATCGAGGGTATTTTA
Found at i:30286419 original size:81 final size:80
Alignment explanation
Indices: 30286321--30286597 Score: 265
Period size: 81 Copynumber: 3.4 Consensus size: 80
30286311 ATCCTACAGG
* * *
30286321 GGTATTACGGTCATTTTACCC-TACGAAGGTATTTTTGTTATTTTACCCATCGAGGGTATTTTAG
1 GGTATTTCGGTCATTTTACCCAT-C-AAGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAG
*
30286385 TCATTTTACCCATCGAT
64 TCATTTTACCCATCGAC
* * * * * *
30286402 GGTATTTCGGT-AGTTTTACCCATCAAGGGTATTTCAATCATTTTACCCATTGAGGGTATTTAAA
1 GGTATTTCGGTCA-TTTTACCCATCAA-GGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAG
* *
30286466 TAATTTTACCCATCGAG
64 TCATTTTACCCATCGAC
* * * *
30286483 GGTATTTCAGTCATTTTACCCATCAGGGGTA-TTTCGATAATTTTACCCATCGAGGGTA-TTTCG
1 GGTATTTCGGTCATTTTACCCATCA-AGGTATTTTAG-TAATTTTACCCATCGAGGGTATTTTAG
* *
30286546 ATCGTTTTACCCATCGGC
64 -TCATTTTACCCATCGAC
* * *
30286564 AGTATTTCGGTAATTTTACCCATCGAGGGTATTT
1 GGTATTTCGGTCATTTTACCCATC-AAGGTATTT
30286598 AGGTCATTTA
Statistics
Matches: 160, Mismatches: 27, Indels: 17
0.78 0.13 0.08
Matches are distributed among these distances:
80 7 0.04
81 148 0.93
82 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (80 bp):
GGTATTTCGGTCATTTTACCCATCAAGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTC
ATTTTACCCATCGAC
Found at i:30289320 original size:4 final size:4
Alignment explanation
Indices: 30289311--30289345 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
30289301 CAATAAGGAC
* *
30289311 AAAT AAAT AAAT AAAT AAGT AAGT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
30289346 ATGGGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:30289489 original size:15 final size:15
Alignment explanation
Indices: 30289460--30289503 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
30289450 ACTAAAAATG
*
30289460 TAAA-AATATTAAAA
1 TAAATAATAATAAAA
30289474 TAAAATAA-AATAAAA
1 T-AAATAATAATAAAA
30289489 TAAATAATAATAAAA
1 TAAATAATAATAAAA
30289504 ACTAAATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.27
15 17 0.65
16 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAATAATAATAAAA
Found at i:30289495 original size:4 final size:5
Alignment explanation
Indices: 30289469--30289503 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
30289459 GTAAAAATAT
30289469 TAAAA TAAAA TAAAA TAAAA T-AAA TAATAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA
30289504 ACTAAATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:30300284 original size:23 final size:22
Alignment explanation
Indices: 30300242--30300319 Score: 138
Period size: 23 Copynumber: 3.5 Consensus size: 22
30300232 TTGATTTGTT
30300242 CTGGAAATTGTTTGATTGTCTG
1 CTGGAAATTGTTTGATTGTCTG
30300264 CTGGAAATTGTTATGATTGTCTG
1 CTGGAAATTGTT-TGATTGTCTG
30300287 CTGGAAATTGTTTTGATTGTCTG
1 CTGGAAATTG-TTTGATTGTCTG
30300310 CTGGAAATTG
1 CTGGAAATTG
30300320 AATTTGTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.22
23 40 0.74
24 2 0.04
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.44
Consensus pattern (22 bp):
CTGGAAATTGTTTGATTGTCTG
Found at i:30304674 original size:47 final size:45
Alignment explanation
Indices: 30304623--30304790 Score: 130
Period size: 47 Copynumber: 3.6 Consensus size: 45
30304613 TATTTAATAT
30304623 TAATTATTTTAAATTGTATAAATTCATATAAGAAAAATTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAAATTATTAT-AA
* * * ** *
30304670 TAATT-TTATGAAA-TTATATATT-ATTATTA-AATTATATATAATAA
1 TAATTATT-TTAAATTTATAAATTCA-TATAAGAAAAAT-TATTATAA
* * * *
30304714 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAAATTATTA-TAA
30304761 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
30304791 TTTTAATTAA
Statistics
Matches: 93, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
44 16 0.17
45 19 0.20
46 17 0.18
47 36 0.39
48 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAAATTATTATAA
Found at i:30304696 original size:91 final size:91
Alignment explanation
Indices: 30304549--30304756 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
30304539 TTGATTTTAG
* *
30304549 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
30304614 ATTTAATATTAATTATTTTAAATTGTA
65 ATATAATAATAATTATTTTAAATTATA
* * *
30304641 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
30304706 TATAATAATAATTATTTTAAATTATA
66 TATAATAATAATTATTTTAAATTATA
* *
30304732 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30304757 GTTATAATTA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 89 0.85
92 16 0.15
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TATAATAATAATTATTTTAAATTATA
Found at i:30304696 original size:101 final size:98
Alignment explanation
Indices: 30304580--30304831 Score: 236
Period size: 91 Copynumber: 2.6 Consensus size: 98
30304570 TATTATTAAG
* * *
30304580 AATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTGTATAAA
1 AATTTTAT-TAATTATATAT-ATTATTAAA-TATATTTAATATTAATTATTTTAAATTATACAAA
30304645 TTCATATAAGAAAAATTATTA-TCAATAATT-TTATG-
63 TTCATATAAGAAAAATTATTAGT-AATAATTATT-TGA
* *
30304680 AA----ATT-A-TATAT-TATTATTAAATTATATATAATAATAATTATTTTAAATTATACAAATT
1 AATTTTATTAATTATATATATTATTAAA-TATATTTAATATTAATTATTTTAAATTATACAAATT
* * * *
30304738 CATATAAGATAATTTATTAGTTATAATTATTTTA
65 CATATAAGAAAAATTATTAGTAATAATTATTTGA
* * * *
30304772 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATCATTTCAAATTAT
1 AATTTTATT-AATTATATATATT-ATT-AAATATATTTAATATTAATTATTTTAAATTAT
30304832 CTTTTATAGT
Statistics
Matches: 124, Mismatches: 15, Indels: 25
0.76 0.09 0.15
Matches are distributed among these distances:
91 66 0.53
92 6 0.05
93 5 0.04
94 1 0.01
96 5 0.04
98 1 0.01
99 4 0.03
100 5 0.04
101 28 0.23
102 3 0.02
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (98 bp):
AATTTTATTAATTATATATATTATTAAATATATTTAATATTAATTATTTTAAATTATACAAATTC
ATATAAGAAAAATTATTAGTAATAATTATTTGA
Found at i:30304717 original size:44 final size:44
Alignment explanation
Indices: 30304587--30304731 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 44
30304577 AAGAATTTTA
* * *
30304587 TGAAATTATATATCATTATTAAATTATATTTAATATTAATTATT
1 TGAAATTATATATAATTATTAAATTATATATAATAATAATTATT
* * * * *
30304631 TTAAATTGTATA-AATTCATATAAGA-AAAATTATTATCAATAATT-TT
1 TGAAATTATATATAATT-AT-TAA-ATTATA-TATAAT-AATAATTATT
*
30304677 ATGAAATTATATATTATTATTAAATTATATATAATAATAATTATT
1 -TGAAATTATATATAATTATTAAATTATATATAATAATAATTATT
*
30304722 TTAAATTATA
1 TGAAATTATA
30304732 CAAATTCATA
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
43 3 0.04
44 28 0.36
45 13 0.17
46 12 0.16
47 18 0.23
48 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (44 bp):
TGAAATTATATATAATTATTAAATTATATATAATAATAATTATT
Found at i:30304938 original size:25 final size:26
Alignment explanation
Indices: 30304906--30304960 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
30304896 TTATTAAATT
*
30304906 ATATATTTTAATTA-TAATATATTTA
1 ATATATTTTAATCATTAATATATTTA
*
30304931 ATATA-TTTAATCATTATTATATTTA
1 ATATATTTTAATCATTAATATATTTA
30304956 A-ATAT
1 ATATAT
30304961 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATATTTTAATCATTAATATATTTA
Found at i:30309523 original size:94 final size:94
Alignment explanation
Indices: 30309420--30309607 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
30309410 AAAATCGAAA
30309420 CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAAAAAATTATTTTAATTTTATTTCATGGTCT
1 CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAAAAAATTATTTTAATTTTATTTCATGGTCT
30309485 GCATTATGATAGAAATATCGTATGAAAAT
66 GCATTATGATAGAAATATCGTATGAAAAT
*
30309514 CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAGAAAATTATTTTAATTTTATTTCATGGTCT
1 CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAAAAAATTATTTTAATTTTATTTCATGGTCT
30309579 GCATTATGATAGAAATATCGTATGAAAAT
66 GCATTATGATAGAAATATCGTATGAAAAT
30309608 TTCGTTAGGA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (94 bp):
CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAAAAAATTATTTTAATTTTATTTCATGGTCT
GCATTATGATAGAAATATCGTATGAAAAT
Found at i:30310252 original size:15 final size:15
Alignment explanation
Indices: 30310232--30310263 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30310222 TATGAATTAC
*
30310232 ATGTTATATGTAAAA
1 ATGTTATAAGTAAAA
30310247 ATGTTATAAGTAAAA
1 ATGTTATAAGTAAAA
30310262 AT
1 AT
30310264 TGACTAGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (15 bp):
ATGTTATAAGTAAAA
Found at i:30310908 original size:26 final size:26
Alignment explanation
Indices: 30310879--30310949 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
30310869 TATATATGGT
*
30310879 TCTTCGTGAGCTTCCCGATTAAAGGC
1 TCTTCGTGAGCTTCTCGATTAAAGGC
* *
30310905 TCTTTGTGAGCTTCTCG-TTAATGGC
1 TCTTCGTGAGCTTCTCGATTAAAGGC
30310930 TC-TC-TGGAGCTTCTCGATTA
1 TCTTCGT-GAGCTTCTCGATTA
30310950 TGGCTCACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 12 0.31
26 15 0.38
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
TCTTCGTGAGCTTCTCGATTAAAGGC
Found at i:30310944 original size:24 final size:24
Alignment explanation
Indices: 30310886--30311003 Score: 103
Period size: 24 Copynumber: 4.8 Consensus size: 24
30310876 GGTTCTTCGT
* *
30310886 GAGCTTCCCGATTAAAGGCTCTTTG
1 GAGCTTCCCG-TTAATGGCTCTCTG
*
30310911 TGAGCTTCTCGTTAATGGCTCTCTG
1 -GAGCTTCCCGTTAATGGCTCTCTG
* * *
30310936 GAGCTTCTCGATT-ATGGCTCACTT
1 GAGCTTCCCG-TTAATGGCTCTCTG
* * *
30310960 GAACTTCCCGATATATGGCTATCTG
1 GAGCTTCCCGTTA-ATGGCTCTCTG
*
30310985 GAGCTTCCTGTTAATGGCT
1 GAGCTTCCCGTTAATGGCT
30311004 TTTCAAAGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
23 1 0.01
24 33 0.44
25 32 0.43
26 9 0.12
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTCTG
Found at i:30310991 original size:25 final size:24
Alignment explanation
Indices: 30310886--30310992 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 24
30310876 GGTTCTTCGT
* * *
30310886 GAGCTTCCCGATTAAAGGCTCTTTG
1 GAGCTTCCCGATT-ATGGCTATCTG
* *
30310911 TGAGCTTCTCG-TTAATGGCTCTCTG
1 -GAGCTTCCCGATT-ATGGCTATCTG
* *
30310936 GAGCTTCTCGATTATGGCTCA-CTT
1 GAGCTTCCCGATTATGGCT-ATCTG
*
30310960 GAACTTCCCGATATATGGCTATCTG
1 GAGCTTCCCGAT-TATGGCTATCTG
30310985 GAGCTTCC
1 GAGCTTCC
30310993 TGTTAATGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
24 29 0.43
25 30 0.44
26 9 0.13
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGATTATGGCTATCTG
Found at i:30311052 original size:24 final size:23
Alignment explanation
Indices: 30311025--30311121 Score: 70
Period size: 25 Copynumber: 4.0 Consensus size: 23
30311015 CTCATTATTG
30311025 GCTCGCATGAGCTTCCCGATTATA
1 GCTCGCATGAGCTTCCCG-TTATA
**
30311049 GCTCTTATGAGCTTCCCGTTATACA
1 GCTCGCATGAGCTTCCCGTTAT--A
* * * *
30311074 GC-CTGGATAAGCTTCCCATTACATG
1 GCTC-GCATGAGCTTCCCGTT--ATA
*
30311099 GCTCACATGAGCTTCCCGTTATA
1 GCTCGCATGAGCTTCCCGTTATA
30311122 TGGCTCGAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
23 6 0.11
24 17 0.31
25 29 0.53
26 1 0.02
27 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (23 bp):
GCTCGCATGAGCTTCCCGTTATA
Found at i:30315745 original size:51 final size:51
Alignment explanation
Indices: 30315669--30315771 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
30315659 TTTGAAACAT
30315669 CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
1 CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
30315720 CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
1 CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
30315771 C
1 C
30315772 GATGCAACTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (51 bp):
CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
Found at i:30323512 original size:13 final size:13
Alignment explanation
Indices: 30323494--30323522 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30323484 ACAGACTGTC
30323494 ATATCTTTCATAT
1 ATATCTTTCATAT
30323507 ATATCTTTCATAT
1 ATATCTTTCATAT
30323520 ATA
1 ATA
30323523 AAAAGATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATCTTTCATAT
Found at i:30328459 original size:50 final size:49
Alignment explanation
Indices: 30328342--30328576 Score: 170
Period size: 50 Copynumber: 4.6 Consensus size: 49
30328332 ACATGTCAAA
* *
30328342 GCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC-TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAAT
* * *
30328391 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAAT
* ** * *
30328441 GCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCAGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATG-GGAGTTCTCATATC-GTGCCAAT
* * * * *** *
30328491 ACCATGTCCAAGACATGGTCTAACATGAGACCGCTCATAACCTCAATGATGCGAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G-TGCCAAT
*
30328547 GCCATGTCACAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
30328577 TCTCTTTACC
Statistics
Matches: 146, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
48 4 0.03
49 33 0.23
50 75 0.51
51 1 0.01
53 2 0.01
55 1 0.01
56 30 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAAT
Found at i:30330237 original size:19 final size:19
Alignment explanation
Indices: 30330213--30330250 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30330203 TTCCACAGGG
30330213 ATACTTTCAAAAACACTTT
1 ATACTTTCAAAAACACTTT
30330232 ATACTTTCAAAAACACTTT
1 ATACTTTCAAAAACACTTT
30330251 GTCACCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (19 bp):
ATACTTTCAAAAACACTTT
Found at i:30336040 original size:56 final size:51
Alignment explanation
Indices: 30335922--30336065 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 51
30335912 TGATAATAAC
* *
30335922 ATGCCAAAGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTTAG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTAAG
*
30335973 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CT-AA-G
* *
30336028 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA
30336066 TCTTTTTACC
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
50 40 0.49
51 2 0.02
53 2 0.02
54 1 0.01
55 1 0.01
56 35 0.43
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (51 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAAG
Found at i:30345497 original size:36 final size:36
Alignment explanation
Indices: 30345450--30345521 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
30345440 TTTAAGAAAG
30345450 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
1 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
* *
30345486 ATCGAGAAATCCCCATTCTATTTGGTAGGTCATTTC
1 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
30345522 TGGTCACTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (36 bp):
ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
Found at i:30352774 original size:8 final size:8
Alignment explanation
Indices: 30352761--30352786 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
30352751 ATTTATCAGC
30352761 TTTTATTA
1 TTTTATTA
30352769 TTTTATTA
1 TTTTATTA
30352777 TTTTATTA
1 TTTTATTA
30352785 TT
1 TT
30352787 CCAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:30353011 original size:20 final size:20
Alignment explanation
Indices: 30352986--30353038 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
30352976 ATTCAACAAC
30352986 TTCTCTTTTGAGTTAATAAA
1 TTCTCTTTTGAGTTAATAAA
*
30353006 TTCTCTTTTGAGTTAATAAG
1 TTCTCTTTTGAGTTAATAAA
*
30353026 TTC-CCTTTGAGTT
1 TTCTCTTTTGAGTT
30353039 TTATTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 9 0.29
20 22 0.71
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (20 bp):
TTCTCTTTTGAGTTAATAAA
Found at i:30357209 original size:15 final size:15
Alignment explanation
Indices: 30357189--30357224 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
30357179 CCTCATCATG
30357189 ACGTCGGTGTCCTCC
1 ACGTCGGTGTCCTCC
30357204 ACGTCGGTGTCCTCC
1 ACGTCGGTGTCCTCC
30357219 ACGTCG
1 ACGTCG
30357225 TGACGTCGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.39, G:0.28, T:0.25
Consensus pattern (15 bp):
ACGTCGGTGTCCTCC
Found at i:30360992 original size:25 final size:26
Alignment explanation
Indices: 30360955--30361022 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 26
30360945 ATTTGACCCT
*
30360955 ATTAATTTAAATTTAAA-TTCGATGCA
1 ATTAATTTAAATTTAAATTTC-ATCCA
*
30360981 ATT-ATTTAAATTTAAATTTCATCCC
1 ATTAATTTAAATTTAAATTTCATCCA
30361006 ATTAATTTAAATTTAAA
1 ATTAATTTAAATTTAAA
30361023 CTAAATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (26 bp):
ATTAATTTAAATTTAAATTTCATCCA
Found at i:30361830 original size:32 final size:33
Alignment explanation
Indices: 30361767--30361834 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
30361757 CCCCTCCGCC
30361767 TTTTAATGTTTTTGTAATTAAGTTTTTTTTATT
1 TTTTAATGTTTTTGTAATTAAGTTTTTTTTATT
*
30361800 TTTTTATGTTTTTGTAATTAA-TTTTTTTTATT
1 TTTTAATGTTTTTGTAATTAAGTTTTTTTTATT
30361832 TTT
1 TTT
30361835 ATTTTTCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 14 0.41
33 20 0.59
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (33 bp):
TTTTAATGTTTTTGTAATTAAGTTTTTTTTATT
Found at i:30362685 original size:98 final size:98
Alignment explanation
Indices: 30362562--30362756 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
30362552 AAAAATCATG
*
30362562 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
30362627 AAATATTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATATTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
30362660 AAGGAAATATTTCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
30362725 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATATTGGATAAGTGGATGTTCTTTTAAAGT
30362757 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATATTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:30365241 original size:23 final size:23
Alignment explanation
Indices: 30365207--30365401 Score: 136
Period size: 23 Copynumber: 8.5 Consensus size: 23
30365197 AATGGAAAGT
*
30365207 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
30365230 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
30365253 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
30365276 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
30365299 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
30365322 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
30365344 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
30365367 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
30365390 AGCACTTAAACA
1 AGCACTTAAACA
30365402 NNNNNNNNNN
Statistics
Matches: 134, Mismatches: 25, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
22 20 0.15
23 111 0.83
24 3 0.02
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.29
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:30367302 original size:146 final size:146
Alignment explanation
Indices: 30367188--30368166 Score: 942
Period size: 146 Copynumber: 6.6 Consensus size: 146
30367178 CGGTGTTTTC
* ** * * *
30367188 ATAAAAACGCAGCAAATTTTTTTCATTTTGAATAAAACGACGCTGTTTTACTATTCT-AATTTTT
1 ATAAAAA-GCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTT
* * * *
30367252 TTTTATTTTTTAATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAACGTCGCTATTGCTTA
65 TTAT-TTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTA
30367317 CCTTTAGCGGCGCTTCTT
129 CCTTTAGCGGCGCTTCTT
* * * *
30367335 ATAAAACGCCGCAAAATTTTTTTATTTCGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTT
1 ATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAA-TTTTT
*
30367400 TTATTTTTTT-ATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAATGCCGCTATTGCTTAC
65 TTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTAC
30367464 CTTTAGCGGCGCTTCTT
130 CTTTAGCGGCGCTTCTT
30367481 ATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTT
1 ATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTT
*
30367546 TATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAATGCCGCTATTGCTTACC
66 TATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACC
30367611 TTTAGCGGCGCTTCTT
131 TTTAGCGGCGCTTCTT
30367627 ATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTT
1 ATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTT
*
30367692 TATTTTTTTAATAAACTGATTTATTCTTTGCGGCG------T---AAACGCCGCTATTGCTTACC
66 TATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACC
*
30367748 TTTTTGCGGCG------
131 -TTTAGCGGCGCTTCTT
* * ** * * ** *
30367759 -T-AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTT--ATAAAACGCCGCAAAATTTTTTCA
1 ATAAAAAGCCGCAAAAG-TT---TTT--CA----TT-TTGAACAAAACGACGC---CGTTTTGC-
* *
30367820 TTTTGAACAAAACGGCGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAATTGATTTAT
51 TATT---CTAAA---------TTT--T-TT-T--A----T---TTTTTT-AATAAATTGATTTAT
* *
30367885 TCTTTGCGGCG------T---AAACGCCACTATTGTTTACCTTTAGCGGCGCTTCTT
90 TCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTT
* * * *
30367933 ATAAAACGCCGCAAAATTTTTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTT
1 ATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAA-TTTTT
*
30367998 TTATTTTTTT-ATAAATTGATTTATTCTTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTAC
65 TTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTAC
30368062 CTTTAGCGGCGCTTCTT
130 CTTTAGCGGCGCTTCTT
* * ** *
30368079 ATAAAACGCCACAAATTTTTTTCATTTTGAACAAAACGACGCTGTTTTGCTATTCTAAAATTTTT
1 ATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAATTTTT
30368144 TTATTTTTTT-ATAAATTGATTTA
65 TTATTTTTTTAATAAATTGATTTA
30368167 AAAATGCCGC
Statistics
Matches: 712, Mismatches: 55, Indels: 131
0.79 0.06 0.15
Matches are distributed among these distances:
130 10 0.01
131 3 0.00
134 3 0.00
136 2 0.00
137 43 0.06
138 9 0.01
139 16 0.02
140 3 0.00
141 2 0.00
142 6 0.01
143 4 0.01
145 15 0.02
146 452 0.63
147 17 0.02
148 9 0.01
149 2 0.00
150 1 0.00
152 4 0.01
155 3 0.00
157 1 0.00
158 2 0.00
159 1 0.00
160 4 0.01
161 1 0.00
163 3 0.00
164 5 0.01
165 2 0.00
166 2 0.00
167 10 0.01
168 15 0.02
169 44 0.06
170 2 0.00
172 3 0.00
175 3 0.00
176 10 0.01
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (146 bp):
ATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTT
TATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACC
TTTAGCGGCGCTTCTT
Found at i:30367759 original size:32 final size:32
Alignment explanation
Indices: 30367718--30367782 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
30367708 TGATTTATTC
30367718 TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
30367750 TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
30367782 T
1 T
30367783 AGCAGCGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.15, C:0.28, G:0.22, T:0.35
Consensus pattern (32 bp):
TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
Found at i:30367883 original size:169 final size:169
Alignment explanation
Indices: 30367595--30367919 Score: 560
Period size: 169 Copynumber: 1.9 Consensus size: 169
30367585 TATAGAAAAT
*
30367595 GCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACA
1 GCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACA
** *
30367660 AAACGACGCCGTTTTGCTATTCTAAATTTTTTTATTTTTTTAATAAACTGATTTATTCTTTGCGG
66 AAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAACTGATTTATTCTTTGCGG
*
30367725 CGTAAACGCCGCTATTGCTTACCTTTTTGCGGCGTAAAC
131 CGTAAACGCCACTATTGCTTACCTTTTTGCGGCGTAAAC
* *
30367764 GCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACA
1 GCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACA
* *
30367829 AAACGGCGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAATTGATTTATTCTTTGCGG
66 AAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAACTGATTTATTCTTTGCGG
*
30367894 CGTAAACGCCACTATTGTTTACCTTT
131 CGTAAACGCCACTATTGCTTACCTTT
30367920 AGCGGCGCTT
Statistics
Matches: 146, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
169 146 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (169 bp):
GCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACA
AAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAACTGATTTATTCTTTGCGG
CGTAAACGCCACTATTGCTTACCTTTTTGCGGCGTAAAC
Found at i:30367996 original size:137 final size:137
Alignment explanation
Indices: 30367750--30368300 Score: 750
Period size: 137 Copynumber: 4.0 Consensus size: 137
30367740 TGCTTACCTT
*
30367750 TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
* **
30367815 TTTCATTTTGAACAAAACGGCGCCGTTTTGCTATTCT-AAATTTTTAAATTTTTTAAATAAATTG
66 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT-AATAAATTG
30367879 ATTTATTC
130 ATTTATTC
* *
30367887 TTTGCGGCGTAAACGCCACTATTGTTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
* * * *
30367952 TTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTTATTTTTTTATAAATTGA
66 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTAATAAATTGA
30368017 TTTATTC
131 TTTATTC
*
30368024 TTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCC
1 TTTGCGGCG------T---AAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCC
* * * *
30368089 ACAAATTTTTTTCATTTTGAACAAAACGACGCTGTTTTGCTATTCTAAAATTTTTTTATTTTTTT
57 GCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTA
30368154 ATAAATTGATTTA---
122 ATAAATTGATTTATTC
* *
30368167 ---------AAAATGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
*
30368223 TTTCATTTTGAACAAAACGACGTCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTG
66 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTA-TTTTTTAATAAATTG
30368288 ATTTATTC
130 ATTTATTC
30368296 TTTGC
1 TTTGC
30368301 AACGTTTTTA
Statistics
Matches: 369, Mismatches: 26, Indels: 41
0.85 0.06 0.09
Matches are distributed among these distances:
125 99 0.27
126 19 0.05
137 120 0.33
138 14 0.04
143 1 0.00
146 116 0.31
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (137 bp):
TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTAATAAATTGA
TTTATTC
Found at i:30368053 original size:452 final size:454
Alignment explanation
Indices: 30367299--30368166 Score: 1404
Period size: 452 Copynumber: 1.9 Consensus size: 454
30367289 TTTTTATAGA
* * *
30367299 AAACGTCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTTATTTCG
1 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTCG
** *
30367364 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTATAAATTGATTTATTCTTT
66 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTAAATTTTTTAATAAATTGATTTATTCTTT
* *
30367429 GCGGCGTTTTTATAGAAAATGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCA
131 GCGGCG----T-T--AAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCA
* *
30367494 AAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTATTTTTTTAATA
189 AAAGTTTTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTATTTTTTTAATA
*
30367559 AATTGATTTATTCTTTGCGGCGTTTTTATAGAAAATGCCGCTATTGCTTACCTTTAGCGGCGCTT
254 AATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTT
*
30367624 CTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAATT
319 CTTATAAAAAGCCACAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATT
30367688 TTTTTATTTTTTTAATAAACTGATTTATTCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTT
384 TTTTTATTTTTTT-ATAAACTGATTTATTCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTT
30367753 GCGGCGT
448 GCGGCGT
*
30367760 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTG
1 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTCG
*
30367825 AACAAAACGGCGCCGTTTTGCTATTCTAAA-TTTTTAAATTTTTTAAATAAATTGATTTATTCTT
66 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTAAATTTTTT-AATAAATTGATTTATTCTT
* * *
30367889 TGCGGCG-T-AAACGCCACTATTGTTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
130 TGCGGCGTTAAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAGTT
30367952 TTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTTATTTTTTT-ATAAATTG
195 TTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAA-TTTTTTTATTTTTTTAATAAATTG
*
30368016 ATTTATTCTTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTAT
259 ATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTAT
* ** *
30368081 AAAACGCCACAAATTTTTTTCATTTTGAACAAAACGACGCTGTTTTGCTATTCTAAAATTTTTTT
324 AAAAAGCCACAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTT
*
30368146 ATTTTTTTATAAATTGATTTA
389 ATTTTTTTATAAACTGATTTA
30368167 AAAATGCCGC
Statistics
Matches: 381, Mismatches: 23, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
452 220 0.58
453 33 0.09
455 1 0.00
460 12 0.03
461 115 0.30
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (454 bp):
AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTCG
AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTAAATTTTTTAATAAATTGATTTATTCTTT
GCGGCGTTAAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAGTTT
TTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTATTTTTTTAATAAATTGAT
TTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAA
AAAGCCACAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTAT
TTTTTTATAAACTGATTTATTCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTTGCGGCGT
Found at i:30368065 original size:315 final size:308
Alignment explanation
Indices: 30367449--30368033 Score: 933
Period size: 315 Copynumber: 1.9 Consensus size: 308
30367439 TATAGAAAAT
*
30367449 GCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACA
1 GCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACA
** *
30367514 AAACGACGCCGTTTTGCTATTCTAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGG
66 AAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAATTGATTTATTCTTTGCGG
* *
30367579 CGTTTTTATAGAAAATGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAG
131 CG----T-T--AAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAG
* *
30367644 TTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTATTTTTTTAATAAACT
189 TTTTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTATTTTTTTAATAAACT
30367709 GATTTATTCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTTGCGGCGTAAAC
254 GATTTATTCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTTGCGGCGTAAAC
* *
30367764 GCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACA
1 GCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACA
*
30367829 AAACGGCGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAATTGATTTATTCTTTGCGG
66 AAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAATTGATTTATTCTTTGCGG
* * *
30367894 CG-T-AAACGCCACTATTGTTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCA
131 CGTTAAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCA
*
30367957 TTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTTATTTTTTT-ATAAATTGATTTA
196 TTTCGAACAAAACGACGCCATTTTGCTATTCTAAA-TTTTTTTATTTTTTTAATAAACTGATTTA
*
30368021 TTCTTTGTGGCGT
260 TTCTTTGCGGCGT
30368034 TTTTATAGAA
Statistics
Matches: 253, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
306 112 0.44
307 15 0.06
309 1 0.00
315 125 0.49
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (308 bp):
GCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCATTTTGAACA
AAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAATTGATTTATTCTTTGCGG
CGTTAAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAGTTTTTCA
TTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTATTTTTTTAATAAACTGATTTAT
TCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTTGCGGCGTAAAC
Found at i:30368199 original size:125 final size:126
Alignment explanation
Indices: 30368042--30368292 Score: 452
Period size: 125 Copynumber: 2.0 Consensus size: 126
30368032 GTTTTTATAG
*
30368042 AAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCACAAATTTTTTTCATTTT
1 AAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCACAAAATTTTTTCATTTT
30368107 GAACAAAACGACG-CTGTTTTGCTATTCTAAAATTTTTTTATTTTTTT-ATAAATTGATTTA
66 GAACAAAACGACGTC-GTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTA
* *
30368167 AAAATGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTT
1 AAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCACAAAATTTTTTCATTTT
30368232 GAACAAAACGACGTCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTA
66 GAACAAAACGACGTCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTA
30368293 TTCTTTGCAA
Statistics
Matches: 121, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
125 107 0.88
126 14 0.12
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (126 bp):
AAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCACAAAATTTTTTCATTTT
GAACAAAACGACGTCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTA
Found at i:30368698 original size:70 final size:70
Alignment explanation
Indices: 30368494--30368704 Score: 177
Period size: 70 Copynumber: 3.0 Consensus size: 70
30368484 TTTATCATTA
30368494 ACTCATAATTTCAATATATTGGATTTATTATTATCTATTTTACAATTATATAAGAACATGTTTAA
1 ACTCATAATTTCAATATATTGGATTTATTATTATCTATTTTACAATTATATAAGAACATGTTTAA
30368559 AATAT
66 AATAT
* * * * ** * ** * * *
30368564 AAATTC-TAAATT-AACCATTCAATACATATAAAATCTATCTATTATA-TATCTCT-TAA-ATA-
1 --ACTCATAATTTCAA-TA-T-ATTGGATTTATTAT-TATCTATTTTACAAT-TATATAAGA-AC
*
30368623 A--TTTAAACTAT
58 ATGTTTAAAATAT
30368634 ACTCATAATTTCAATATATTGGATTTATTATTATCTATTTTACAATTATATAAGAACATGTTTAA
1 ACTCATAATTTCAATATATTGGATTTATTATTATCTATTTTACAATTATATAAGAACATGTTTAA
30368699 AATAT
66 AATAT
30368704 A
1 A
30368705 AATTAATCTA
Statistics
Matches: 99, Mismatches: 26, Indels: 30
0.64 0.17 0.19
Matches are distributed among these distances:
66 12 0.12
67 14 0.14
68 6 0.06
69 6 0.06
70 23 0.23
71 6 0.06
72 6 0.06
73 14 0.14
74 12 0.12
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (70 bp):
ACTCATAATTTCAATATATTGGATTTATTATTATCTATTTTACAATTATATAAGAACATGTTTAA
AATAT
Found at i:30368778 original size:14 final size:14
Alignment explanation
Indices: 30368759--30368792 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
30368749 AACCTTAAAT
30368759 CCCTAAC-TCTTAAC
1 CCCTAACATC-TAAC
30368773 CCCTAACATCTAAC
1 CCCTAACATCTAAC
30368787 CCCTAA
1 CCCTAA
30368793 ACCCCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACATCTAAC
Found at i:30368845 original size:15 final size:15
Alignment explanation
Indices: 30368799--30368836 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
30368789 CTAAACCCCT
30368799 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
30368813 T-AATTCATAATCCC
1 TAAATCCATAATCCC
30368827 TAAATCCATA
1 TAAATCCATA
30368837 CTCCTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.55
15 7 0.35
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:30369043 original size:22 final size:20
Alignment explanation
Indices: 30369018--30369066 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
30369008 ATCCCGGAAT
* *
30369018 CCCTAACTTTTAATCCATAAAC
1 CCCTAACCTTAAATCC-T-AAC
30369040 CCCTAAACCTTAAATCCTAAC
1 CCCT-AACCTTAAATCCTAAC
30369061 CCCTAA
1 CCCTAA
30369067 TCCATAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 7 0.29
22 5 0.21
23 10 0.42
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (20 bp):
CCCTAACCTTAAATCCTAAC
Found at i:30369079 original size:21 final size:21
Alignment explanation
Indices: 30369028--30369080 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
30369018 CCCTAACTTT
* *
30369028 TAATCCATAAACCCCTAAACCT
1 TAATCCCT-AACCCCTAAACCA
*
30369050 TAAAT-CCTAACCCCTAATCCA
1 T-AATCCCTAACCCCTAAACCA
30369071 TAATCCCTAA
1 TAATCCCTAA
30369081 ACCCATACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 3 0.12
23 3 0.12
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
TAATCCCTAACCCCTAAACCA
Found at i:30369092 original size:15 final size:15
Alignment explanation
Indices: 30369028--30369098 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 15
30369018 CCCTAACTTT
* *
30369028 TAATCCATAAACCCC
1 TAATCCCTAAACCCA
* * *
30369043 TAAACCTTAAATCC-
1 TAATCCCTAAACCCA
* *
30369057 TAACCCCT-AATCCA
1 TAATCCCTAAACCCA
30369071 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
30369086 TACTCCCTAAACC
1 TAATCCCTAAACC
30369099 TTAAAATATG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
13 5 0.11
14 13 0.28
15 28 0.61
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:30369819 original size:41 final size:41
Alignment explanation
Indices: 30369768--30369858 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
30369758 TAGGTTTTTT
* *
30369768 GCGGCACTTTCCCAAAAACGCTGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
30369809 GCGGCGCTTTCCCAATAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
30369850 GCGGCGCTT
1 GCGGCGCTT
30369859 CCTTTTAAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:30369870 original size:41 final size:42
Alignment explanation
Indices: 30369768--30369877 Score: 154
Period size: 41 Copynumber: 2.7 Consensus size: 42
30369758 TAGGTTTTTT
* *
30369768 GCGGCACTTTCCCAA-AAACGCTGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAATAAACGCCGCTAAAGCCCTGAGCATTA
30369809 GCGGCGCTTTCCCAAT-AACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAATAAACGCCGCTAAAGCCCTGAGCATTA
***
30369850 GCGGCGC-TTCCTTTTAAACGCCGCTAAA
1 GCGGCGCTTTCCCAATAAACGCCGCTAAA
30369878 TCCCCGAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
40 5 0.08
41 57 0.92
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (42 bp):
GCGGCGCTTTCCCAATAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:30376572 original size:16 final size:17
Alignment explanation
Indices: 30376541--30376573 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30376531 ATTTTAATAA
*
30376541 TTTAAATTATTTATTAC
1 TTTAAATTAATTATTAC
30376558 TTTAAA-TAATTATTAC
1 TTTAAATTAATTATTAC
30376574 ATGATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTAATTATTAC
Found at i:30378395 original size:31 final size:31
Alignment explanation
Indices: 30378359--30378425 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
30378349 AGTTCAGAAG
30378359 TACTTGGTAAAGGAATGATTTTACTCAAACT
1 TACTTGGTAAAGGAATGATTTTACTCAAACT
30378390 TACTTGGTAAAGGAATGATTTTACTCAAACT
1 TACTTGGTAAAGGAATGATTTTACTCAAACT
30378421 TACTT
1 TACTT
30378426 CTGGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (31 bp):
TACTTGGTAAAGGAATGATTTTACTCAAACT
Found at i:30381494 original size:87 final size:86
Alignment explanation
Indices: 30381387--30381548 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 86
30381377 CATGCATAAG
* *
30381387 GTTGAGTTCTTACTCTTAATGAATTCA-TATC-TCATG-TTTTAGGTGGTCCTATTTAGACGGAC
1 GTTGAGTTCTTACTCTTAATGAATT-ATTATCGT-A-GAGTTTAGGTGGTCCTATTGAGACGGAC
30381449 ATGATGAATTCACCGACATGTGAA
63 ATGATGAATTCACCGACATGTGAA
* * * *
30381473 GTTGAGTTTCTTACTTTTAATGAGTTATTATCGTAGAGTTTAGTTGGTCCTATTGAGACGGACTT
1 GTTGAG-TTCTTACTCTTAATGAATTATTATCGTAGAGTTTAGGTGGTCCTATTGAGACGGACAT
30381538 GATGAATTCAC
65 GATGAATTCAC
30381549 TGAATTTAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
86 8 0.12
87 57 0.86
88 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (86 bp):
GTTGAGTTCTTACTCTTAATGAATTATTATCGTAGAGTTTAGGTGGTCCTATTGAGACGGACATG
ATGAATTCACCGACATGTGAA
Found at i:30388984 original size:36 final size:36
Alignment explanation
Indices: 30388944--30389015 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
30388934 TGAGATTGTC
30388944 AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
1 AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
30388980 AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
1 AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
30389016 CGCGATTCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (36 bp):
AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
Found at i:30390569 original size:77 final size:77
Alignment explanation
Indices: 30390481--30390634 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 77
30390471 AGAGTTTGGT
* * * *
30390481 TATTAAATAGGGCTATTTTGTAAAGAAATTTTTTTTAGTTTCGAGTTTAGGTACTAAATTGATAG
1 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTGTTAGTTTCGAGTTTAAGTACCAAATTGATAG
30390546 AGATCTAATTTA
66 AGATCTAATTTA
*
30390558 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTGTTAGTTTTGAGTTTAAGTACCAAATTGATAG
1 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTGTTAGTTTCGAGTTTAAGTACCAAATTGATAG
*
30390623 AGATTTAATTTA
66 AGATCTAATTTA
30390635 ACATGTAATT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.44
Consensus pattern (77 bp):
TATTAAATAGGGCTATGTTGTAAAGAAATTTTTGTTAGTTTCGAGTTTAAGTACCAAATTGATAG
AGATCTAATTTA
Found at i:30402273 original size:21 final size:19
Alignment explanation
Indices: 30402247--30402296 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
30402237 TAACCAGACC
*
30402247 AAAAAATATAAAATAATTGT
1 AAAAAATATAAAA-AATAGT
*
30402267 ACAAAAATTATTAAAAATAGT
1 A-AAAAA-TATAAAAAATAGT
30402288 AAAAAATAT
1 AAAAAATAT
30402297 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.12
20 6 0.23
21 11 0.42
22 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAAATATAAAAAATAGT
Found at i:30402435 original size:21 final size:21
Alignment explanation
Indices: 30402374--30402492 Score: 88
Period size: 20 Copynumber: 5.8 Consensus size: 21
30402364 AAACTTTTTT
30402374 ATTATTTTAAAA-TTGTTAAAACA
1 ATTA-TTTAAAATTTG-TAAAA-A
*
30402397 GA-TATTTAAAA-TTATAAAAA
1 -ATTATTTAAAATTTGTAAAAA
30402417 ATTATTTAAAATTTGT-AAAA
1 ATTATTTAAAATTTGTAAAAA
*
30402437 ATTA-TTAAAATTTGT-GAAA
1 ATTATTTAAAATTTGTAAAAA
* * * * *
30402456 GTTATTAAAAAATTGCAAATA
1 ATTATTTAAAATTTGTAAAAA
*
30402477 ATTATTAAAAATTTGT
1 ATTATTTAAAATTTGT
30402493 GAACAAGTGG
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
19 18 0.23
20 26 0.33
21 23 0.29
22 9 0.11
23 2 0.03
24 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTATTTAAAATTTGTAAAAA
Found at i:30402444 original size:19 final size:20
Alignment explanation
Indices: 30402413--30402492 Score: 99
Period size: 20 Copynumber: 4.0 Consensus size: 20
30402403 TAAAATTATA
*
30402413 AAAAATTATTTAAAATTTGT
1 AAAAATTATTAAAAATTTGT
30402433 AAAAATTATT-AAAATTTGT
1 AAAAATTATTAAAAATTTGT
* * * *
30402452 GAAAGTTATTAAAAAATTGC
1 AAAAATTATTAAAAATTTGT
30402472 AAATAATTATTAAAAATTTGT
1 AAA-AATTATTAAAAATTTGT
30402493 GAACAAGTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.34
20 19 0.38
21 14 0.28
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (20 bp):
AAAAATTATTAAAAATTTGT
Found at i:30402480 original size:40 final size:40
Alignment explanation
Indices: 30402418--30402495 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
30402408 TTATAAAAAA
* * *
30402418 TTATTTAAAATTTGTAAAAATTATT-AAAATTTGTGAAAG
1 TTATTAAAAAATTGCAAAAATTATTAAAAATTTGTGAAAG
30402457 TTATTAAAAAATTGCAAATAATTATTAAAAATTTGTGAA
1 TTATTAAAAAATTGCAAA-AATTATTAAAAATTTGTGAA
30402496 CAAGTGGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.44
40 7 0.21
41 12 0.35
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (40 bp):
TTATTAAAAAATTGCAAAAATTATTAAAAATTTGTGAAAG
Found at i:30402489 original size:10 final size:10
Alignment explanation
Indices: 30402399--30402489 Score: 57
Period size: 10 Copynumber: 9.1 Consensus size: 10
30402389 TTAAAACAGA
*
30402399 TATTTAAAAT
1 TATTAAAAAT
*
30402409 TATAAAAAAT
1 TATTAAAAAT
*
30402419 TATTTAAAAT
1 TATTAAAAAT
30402429 T-TGTAAAAAT
1 TAT-TAAAAAT
30402439 TATT-AAAAT
1 TATTAAAAAT
* *
30402448 T-TGTGAAAGT
1 TAT-TAAAAAT
30402458 TATTAAAAA-
1 TATTAAAAAT
30402467 -ATTGCAAATAAT
1 TATT--AAA-AAT
30402479 TATTAAAAAT
1 TATTAAAAAT
30402489 T
1 T
30402490 TGTGAACAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
8 4 0.06
9 8 0.13
10 41 0.65
11 7 0.11
13 3 0.05
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:30409117 original size:23 final size:24
Alignment explanation
Indices: 30409090--30409140 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
30409080 CAAGAATATA
30409090 TTACATAAATATCGAATAATTTT-
1 TTACATAAATATCGAATAATTTTC
30409113 TTACATAAATATCGAATAATTTTC
1 TTACATAAATATCGAATAATTTTC
30409137 TTAC
1 TTAC
30409141 TCTATAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (24 bp):
TTACATAAATATCGAATAATTTTC
Found at i:30409910 original size:41 final size:41
Alignment explanation
Indices: 30409865--30409981 Score: 162
Period size: 41 Copynumber: 2.9 Consensus size: 41
30409855 ACCGACAATT
* **
30409865 AGCCTGCTAGACTTATCGTCCGAATTATTTCACCGGCACAA
1 AGCCTGCTAGACATAAAGTCCGAATTATTTCACCGGCACAA
* *
30409906 AGCCTGCTAGACATAAAATCCTAATTATTTCACCGGCACAA
1 AGCCTGCTAGACATAAAGTCCGAATTATTTCACCGGCACAA
* * *
30409947 AGCTTGCTAGACATAAAGTCCGAATAACTTCACCG
1 AGCCTGCTAGACATAAAGTCCGAATTATTTCACCG
30409982 ACCTTAAGCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCCGAATTATTTCACCGGCACAA
Found at i:30411957 original size:47 final size:47
Alignment explanation
Indices: 30411895--30412024 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
30411885 AGTCGATAAT
* * * * *
30411895 TCATCTGTTTGACCAGTGGGTTATCCGCAACTTATTCTAG-TCGGCAA
1 TCATCTGCTCGACCAGTGGTTTATCCACAACGTATTCTAGCT-GGCAA
* *
30411942 TCATTTGCTCGACCAGTGGTTTATCCACAACGTATTCTAGCTGGCAG
1 TCATCTGCTCGACCAGTGGTTTATCCACAACGTATTCTAGCTGGCAA
*
30411989 TCATCTGCTCGACCATTGGTTTATCCACAACGTATT
1 TCATCTGCTCGACCAGTGGTTTATCCACAACGTATT
30412025 AGTAGCTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 72 0.99
48 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (47 bp):
TCATCTGCTCGACCAGTGGTTTATCCACAACGTATTCTAGCTGGCAA
Found at i:30412143 original size:91 final size:92
Alignment explanation
Indices: 30411958--30412154 Score: 236
Period size: 91 Copynumber: 2.2 Consensus size: 92
30411948 GCTCGACCAG
* * * * * *
30411958 TGGTTTATCCACAACGTATTCTAGCTGGCAGTCATCTGCTCGACCATTGGTTTATCCACAACGTA
1 TGGTTCATCCACCACGTATTCTAGCTGACAGTCATATGCTCAACCAATGGTTTATCCACAACGTA
* * * * **
30412023 TTAGTAGCTTTTATATGCACAAATGGA
66 TTAGCAACTTTCATATACACAAACAGA
30412050 TGGTTCATCCACCA-GTATTCTAG-TAGACAGTCATATGCTCAACCAATGGTTTATCCACAACGT
1 TGGTTCATCCACCACGTATTCTAGCT-GACAGTCATATGCTCAACCAATGGTTTATCCACAACGT
* * *
30412113 ATTAGCAACTTTCATCTACATAGACAGA
65 ATTAGCAACTTTCATATACACAAACAGA
30412141 TGGTTCATCCACCA
1 TGGTTCATCCACCA
30412155 ATAAATTTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
90 1 0.01
91 76 0.85
92 12 0.13
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (92 bp):
TGGTTCATCCACCACGTATTCTAGCTGACAGTCATATGCTCAACCAATGGTTTATCCACAACGTA
TTAGCAACTTTCATATACACAAACAGA
Found at i:30413122 original size:20 final size:21
Alignment explanation
Indices: 30413099--30413143 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
30413089 ATTTAAAAAA
*
30413099 TTAAATAA-TGTTTT-ATAATT
1 TTAAATAACT-TTTTAACAATT
30413119 TT-AATAACTTTTTAACAATT
1 TTAAATAACTTTTTAACAATT
30413139 TTAAA
1 TTAAA
30413144 ATGTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 9 0.43
20 10 0.48
21 2 0.10
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAAATAACTTTTTAACAATT
Found at i:30413150 original size:20 final size:20
Alignment explanation
Indices: 30413127--30413193 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
30413117 TTTTAATAAC
30413127 TTTTTAACAATTTTAAAATGT
1 TTTTTAACAATTTTAAAAT-T
* *
30413148 TTTTTTACAATTTT-TAATAT
1 TTTTTAACAATTTTAAAAT-T
* * *
30413168 TTTTTAATAATTTCAATATT
1 TTTTTAACAATTTTAAAATT
30413188 TTTTTA
1 TTTTTA
30413194 CAGTTTTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTTTAACAATTTTAAAATT
Found at i:30413169 original size:9 final size:9
Alignment explanation
Indices: 30413157--30413240 Score: 53
Period size: 10 Copynumber: 8.7 Consensus size: 9
30413147 TTTTTTTACA
30413157 ATTTTTAAT
1 ATTTTTAAT
30413166 ATTTTTTAAT
1 A-TTTTTAAT
* *
30413176 AATTTCAAT
1 ATTTTTAAT
* *
30413185 ATTTTTTTAC
1 A-TTTTTAAT
30413195 AGTTTTTATAT
1 A-TTTTTA-AT
30413206 ATTTTTAAAT
1 ATTTTT-AAT
30413216 AATTTTTACA-
1 -ATTTTTA-AT
*
30413226 ATTGTTAAT
1 ATTTTTAAT
30413235 ATTTTT
1 ATTTTT
30413241 TTACAATTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
8 1 0.02
9 19 0.33
10 27 0.47
11 10 0.18
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:30413172 original size:19 final size:19
Alignment explanation
Indices: 30413148--30413211 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
30413138 TTTAAAATGT
30413148 TTTTTTACAATTTTTAATA
1 TTTTTTACAATTTTTAATA
* *
30413167 TTTTTTA-ATAATTTCAATA
1 TTTTTTACA-ATTTTTAATA
*
30413186 TTTTTTTACAGTTTTTATATA
1 -TTTTTTACAATTTTTA-ATA
30413207 TTTTT
1 TTTTT
30413212 AAATAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.42
20 16 0.44
21 4 0.11
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTTACAATTTTTAATA
Found at i:30413200 original size:50 final size:50
Alignment explanation
Indices: 30413146--30413252 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
30413136 ATTTTAAAAT
* *
30413146 GTTTTTTTACAATTTTT-AATATTTTTTAATAATT-TCAATATTTTTTTACA
1 GTTTTTTTA-AATTTTTAAATAATTTTT-ACAATTGTCAATATTTTTTTACA
* * *
30413196 GTTTTTATATATTTTTAAATAATTTTTACAATTGTTAATATTTTTTTACA
1 GTTTTTTTAAATTTTTAAATAATTTTTACAATTGTCAATATTTTTTTACA
*
30413246 ATTTTTT
1 GTTTTTT
30413253 GGACTGGTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 11 0.23
50 37 0.77
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (50 bp):
GTTTTTTTAAATTTTTAAATAATTTTTACAATTGTCAATATTTTTTTACA
Found at i:30413252 original size:30 final size:28
Alignment explanation
Indices: 30413187--30413252 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
30413177 ATTTCAATAT
* *
30413187 TTTTTTACAGTTTTTATATATTTTTAAA
1 TTTTTTACAATTTTAATATATTTTTAAA
*
30413215 TAATTTTTACAATTGTTAATATTTTTTTACAA
1 T--TTTTTACAATT-TTAATATATTTTTA-AA
30413247 TTTTTT
1 TTTTTT
30413253 GGACTGGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 1 0.03
30 15 0.48
31 12 0.39
32 3 0.10
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTTTACAATTTTAATATATTTTTAAA
Found at i:30419290 original size:48 final size:48
Alignment explanation
Indices: 30419222--30419354 Score: 194
Period size: 48 Copynumber: 2.8 Consensus size: 48
30419212 CTATTTATCA
*
30419222 TGTAGGTTCAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
* * *
30419270 TGTAGGTTTAACCTTGACGGGTAACCATGCACTATTATTCATTATTTG
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
** **
30419318 TGTAGGTTTAACCCAAATAGGTAACCAGGCACTATTA
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTA
30419355 TTTTCACTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (48 bp):
TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
Found at i:30422176 original size:26 final size:25
Alignment explanation
Indices: 30422120--30422181 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
30422110 AATTTTACTA
*
30422120 GGGGTAAAATCACCAAAATTTTATC
1 GGGGTAAAATCACCAAAATTTAATC
* *
30422145 GAGGGTAAAATCATCAAAATTTAAATT
1 G-GGGTAAAATCACCAAAATTT-AATC
30422172 GGGGTAAAAT
1 GGGGTAAAAT
30422182 AGGGATGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 28 0.88
27 3 0.09
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (25 bp):
GGGGTAAAATCACCAAAATTTAATC
Found at i:30440324 original size:26 final size:26
Alignment explanation
Indices: 30440295--30440472 Score: 106
Period size: 24 Copynumber: 7.2 Consensus size: 26
30440285 CTTATAAGCG
* *
30440295 TCCCGATTTATGGTTCTTCGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* *
30440321 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* * * *
30440347 TTCTGATTAATGGCTCTCCG-AAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* * *
30440372 TCCCGA-TATATGGCTATCCG-AAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
*
30440397 TCCCG-TTAATGGCTCTTCG-AAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* * * *
30440421 ACCTG-TTATTGGCT-TGT-ATGAGCT
1 TCCCGATTAATGGCTCT-TCGTGAGCT
* *
30440445 TCCTGATT-ATGGCTCTT-ATGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
30440469 TCCC
1 TCCC
30440473 TATACAGCCT
Statistics
Matches: 123, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.01
24 52 0.42
25 33 0.27
26 37 0.30
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:30440384 original size:25 final size:24
Alignment explanation
Indices: 30440354--30440420 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
30440344 GCTTTCTGAT
30440354 TAATGGCTCTCCGAAGCTTCCCGA
1 TAATGGCTCTCCGAAGCTTCCCGA
* *
30440378 TATATGGCTATCCGAAGCTTCCCGT
1 TA-ATGGCTCTCCGAAGCTTCCCGA
*
30440403 TAATGGCTCTTCGAAGCT
1 TAATGGCTCTCCGAAGCT
30440421 ACCTGTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 16 0.42
25 22 0.58
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (24 bp):
TAATGGCTCTCCGAAGCTTCCCGA
Found at i:30440417 original size:24 final size:25
Alignment explanation
Indices: 30440290--30440420 Score: 113
Period size: 26 Copynumber: 5.2 Consensus size: 25
30440280 CAGCTCTTAT
* * *
30440290 AAGCGTCCCGATTTATGGTTCTTCG
1 AAGCTTCCCGATTAATGGCTCTTCG
* * *
30440315 TGAGCTTCCCGATTAAAGGCTCTTTG
1 -AAGCTTCCCGATTAATGGCTCTTCG
* * * *
30440341 TGAGCTTTCTGATTAATGGCTCTCCG
1 -AAGCTTCCCGATTAATGGCTCTTCG
* *
30440367 AAGCTTCCCGA-TATATGGCTATCCG
1 AAGCTTCCCGATTA-ATGGCTCTTCG
30440392 AAGCTTCCCG-TTAATGGCTCTTCG
1 AAGCTTCCCGATTAATGGCTCTTCG
30440416 AAGCT
1 AAGCT
30440421 ACCTGTTATT
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
24 16 0.19
25 30 0.35
26 40 0.47
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (25 bp):
AAGCTTCCCGATTAATGGCTCTTCG
Found at i:30441921 original size:12 final size:11
Alignment explanation
Indices: 30441899--30441929 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
30441889 ATTAAGTAAA
30441899 TAAATAAATAT
1 TAAATAAATAT
30441910 TAAATGAAATAT
1 TAAAT-AAATAT
30441922 TAAATAAA
1 TAAATAAA
30441930 CTGTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAATAAATAT
Done.