Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 74 of 290
Found at i:22362143 original size:39 final size:39
Alignment explanation
Indices: 22362095--22362235 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
22362085 GGTAAACTAA
*
22362095 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTGC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* * *
22362134 TGTATTGAATAATTGATAGTTATTGAATAACTAAACTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* * * *
22362173 TGCACTGAATATTTGATAGTTATTGAATGACTAAATTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
*
22362212 TGTACTGAATAATTGATTGTTACT
1 TGTACTGAATAATTGATAGTTACT
22362236 AATTAAATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (39 bp):
TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
Found at i:22362215 original size:78 final size:78
Alignment explanation
Indices: 22362087--22362233 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 78
22362077 TTAATAGGGG
* * *
22362087 TAAACTAATGTACTGAATAATTGATAGTTACTGAATAACTAAATTGCTGTATTGAATAATTGATA
1 TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
22362152 GTTATTGAATAAC
66 GTTATTGAATAAC
* * * * *
22362165 TAAACTACTGCACTGAATATTTGATAGTTATTGAATGACTAAATTACTGTACTGAATAATTGATT
1 TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
22362230 GTTA
66 GTTA
22362234 CTAATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (78 bp):
TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
GTTATTGAATAAC
Found at i:22369383 original size:19 final size:19
Alignment explanation
Indices: 22369346--22369383 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22369336 ACCTGTCAGA
*
22369346 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
22369365 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
22369384 TAAATTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:22375165 original size:34 final size:33
Alignment explanation
Indices: 22375105--22375170 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
22375095 GTTTTAGTCA
* *
22375105 GGGCCTTAGCCCATTACAATATCAGTATCAGTGT
1 GGGCCTGAGCCCATTACAATAACAGTA-CAGTGT
*
22375139 GGGCCTGAGCCCATCT-CAGTAACAGTACAGTG
1 GGGCCTGAGCCCAT-TACAATAACAGTACAGTG
22375171 CATATATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 5 0.18
34 22 0.79
35 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (33 bp):
GGGCCTGAGCCCATTACAATAACAGTACAGTGT
Found at i:22375649 original size:17 final size:18
Alignment explanation
Indices: 22375618--22375651 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22375608 CCATATTACG
22375618 GCCCATGTGGGCCCACAC
1 GCCCATGTGGGCCCACAC
22375636 GCCCATGT-GGCCCACA
1 GCCCATGTGGGCCCACA
22375652 TAGCCTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.18, C:0.44, G:0.26, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGGCCCACAC
Found at i:22377389 original size:16 final size:17
Alignment explanation
Indices: 22377365--22377398 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22377355 TAATAACAAG
22377365 ATTCATCTTAGGT-TTT
1 ATTCATCTTAGGTATTT
*
22377381 ATTCCTCTTAGGTATTT
1 ATTCATCTTAGGTATTT
22377398 A
1 A
22377399 GGGGTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTCATCTTAGGTATTT
Found at i:22380916 original size:3 final size:3
Alignment explanation
Indices: 22380908--22380947 Score: 53
Period size: 3 Copynumber: 12.3 Consensus size: 3
22380898 CTGTAATATA
22380908 AAT AAT AAT AAT AAT AAT AAT AGAT AAAT GAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A-AT -AAT -AAT AAT AAT A
22380948 GGTAAAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
3 26 0.76
4 7 0.21
5 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:22380948 original size:18 final size:17
Alignment explanation
Indices: 22380908--22380953 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
22380898 CTGTAATATA
22380908 AATAATA-AT-AATAAT
1 AATAATAGATAAATAAT
22380923 AATAATAGATAAATGAAT
1 AATAATAGATAAAT-AAT
*
22380941 AATAATAGGTAAA
1 AATAATAGATAAA
22380954 GAAATTCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.26
16 2 0.07
17 3 0.11
18 15 0.56
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (17 bp):
AATAATAGATAAATAAT
Found at i:22394509 original size:28 final size:28
Alignment explanation
Indices: 22394478--22394533 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
22394468 TTTCTAATTA
* *
22394478 AATTTAATTTTAAT-CGTTTTTATATTTT
1 AATTTAATTTAAATAC-TTTATATATTTT
*
22394506 AATTTACTTTAAATACTTTATATATTTT
1 AATTTAATTTAAATACTTTATATATTTT
22394534 TATAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
AATTTAATTTAAATACTTTATATATTTT
Found at i:22394629 original size:14 final size:14
Alignment explanation
Indices: 22394584--22394648 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
22394574 TTATTTTATC
*
22394584 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
22394599 AAATTATATTATATT
1 ATA-TATTTTATTTT
22394614 ATATATTTTATTTT
1 ATATATTTTATTTT
*
22394628 ATATA-TTT-CTTT
1 ATATATTTTATTTT
22394640 ATATATTTT
1 ATATATTTT
22394649 TATAAAATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:22395001 original size:14 final size:12
Alignment explanation
Indices: 22394963--22395010 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 12
22394953 CTATCTTTCT
22394963 TATATTTTTTTA
1 TATATTTTTTTA
22394975 TATATATTTTTTA
1 TATAT-TTTTTTA
22394988 TACTATTTATTTTA
1 TA-TATTT-TTTTA
22395002 CTATATTTT
1 -TATATTTT
22395011 ATATGCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.16
13 12 0.38
14 13 0.41
15 2 0.06
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (12 bp):
TATATTTTTTTA
Found at i:22402227 original size:40 final size:40
Alignment explanation
Indices: 22402144--22402328 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
22402134 TTGAATGATG
* * * * *
22402144 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
22402184 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
22402224 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22402263 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22402304 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22402329 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22402350 original size:79 final size:79
Alignment explanation
Indices: 22402197--22402361 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
22402187 GGACTAAGAT
** *
22402197 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
* *
22402262 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
22402276 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTA-AATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
22402339 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
22402355 CCGAAGG
1 CCGAAGG
22402362 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 48 0.65
80 26 0.35
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCTCGGTTAAATC
Found at i:22402705 original size:13 final size:13
Alignment explanation
Indices: 22402687--22402728 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
22402677 AACCCGAGAT
22402687 CATACTTGCTTCA
1 CATACTTGCTTCA
22402700 CATACTTGCTTCA
1 CATACTTGCTTCA
22402713 CATACTTGCTTCA
1 CATACTTGCTTCA
22402726 CAT
1 CAT
22402729 TACCAACCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.38
Consensus pattern (13 bp):
CATACTTGCTTCA
Found at i:22403056 original size:79 final size:81
Alignment explanation
Indices: 22402955--22403139 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
22402945 GCTCCTCGTT
* *
22402955 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
22403018 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
22403035 CAAATGCCTTC-GGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
22403099 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
22403115 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22403140 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:22403139 original size:40 final size:40
Alignment explanation
Indices: 22402955--22403139 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
22402945 GCTCCTCGTT
* *
22402955 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
22402995 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
22403035 CAAATGCCTTC-GGACTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
22403074 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
22403115 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22403140 CATCATTCAA
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 38 0.30
40 77 0.61
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:22419640 original size:19 final size:18
Alignment explanation
Indices: 22419616--22419671 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
22419606 TATTGACAAT
22419616 CCCACTAAAATCCTAACTC
1 CCCACTAAAATCC-AACTC
*
22419635 CCCACTAACCATCCAACT-
1 CCCACTAA-AATCCAACTC
*
22419653 ACC-CTAAAATCCCAACTC
1 CCCACTAAAAT-CCAACTC
22419671 C
1 C
22419672 ACCAAAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 2 0.07
17 10 0.33
18 2 0.07
19 12 0.40
20 4 0.13
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (18 bp):
CCCACTAAAATCCAACTC
Found at i:22427408 original size:22 final size:22
Alignment explanation
Indices: 22427352--22427400 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
22427342 TCTCTGTTCA
22427352 GTAGACTCTTATTTAATTATTG
1 GTAGACTCTTATTTAATTATTG
22427374 GTAGACTCTTATTTAATTATTG
1 GTAGACTCTTATTTAATTATTG
22427396 GTAGA
1 GTAGA
22427401 GTTATATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (22 bp):
GTAGACTCTTATTTAATTATTG
Found at i:22432350 original size:23 final size:23
Alignment explanation
Indices: 22432305--22432350 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22432295 AATAAAAAAC
* *
22432305 AAAAGTAAAGAGAAAGAATAGGA
1 AAAAGAAAAGAGAAAGAACAGGA
22432328 AAAAGAAAAG-GAAAGAAACAGGA
1 AAAAGAAAAGAGAAAG-AACAGGA
22432351 TGCAATAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.04
Consensus pattern (23 bp):
AAAAGAAAAGAGAAAGAACAGGA
Found at i:22438871 original size:29 final size:29
Alignment explanation
Indices: 22438839--22438936 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 29
22438829 AGTGGTGCCA
22438839 AAAATGCAAACACGGAAGACCCAAGGACT
1 AAAATGCAAACACGGAAGACCCAAGGACT
** ** * *
22438868 AAAATGCAATGAAAGAGAGA---AATGGTGCCA
1 AAAATGCAAACACGGA-AGACCCAA--G-GACT
22438898 AAAATGCAAACACGGAAGACCCAAGGACT
1 AAAATGCAAACACGGAAGACCCAAGGACT
22438927 AAAATGCAAA
1 AAAATGCAAA
22438937 AGAAGAGATT
Statistics
Matches: 50, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
27 2 0.04
29 28 0.56
30 18 0.36
32 2 0.04
ACGTcount: A:0.51, C:0.18, G:0.21, T:0.09
Consensus pattern (29 bp):
AAAATGCAAACACGGAAGACCCAAGGACT
Found at i:22438943 original size:59 final size:59
Alignment explanation
Indices: 22438813--22438944 Score: 223
Period size: 59 Copynumber: 2.3 Consensus size: 59
22438803 ATGGGCCAAC
*
22438813 ATGCAAAA-AAGAGAGAAGTGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
1 ATGCAAAAGAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
*
22438871 ATGC-AATGAAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
1 ATGCAAAAG-AAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
22438930 ATGCAAAAGAAGAGA
1 ATGCAAAAGAAGAGA
22438945 TTTTATAGCA
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
57 2 0.03
58 4 0.06
59 59 0.87
60 3 0.04
ACGTcount: A:0.51, C:0.16, G:0.24, T:0.09
Consensus pattern (59 bp):
ATGCAAAAGAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
Found at i:22439040 original size:10 final size:10
Alignment explanation
Indices: 22439025--22439074 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
22439015 TAATTTTAGG
22439025 ATTTAT-TTT
1 ATTTATCTTT
22439034 CATTTATCTTT
1 -ATTTATCTTT
22439045 ATTTATCTTT
1 ATTTATCTTT
22439055 ATTTAT-TTGT
1 ATTTATCTT-T
22439065 ATTTATCTTT
1 ATTTATCTTT
22439075 TAGAATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:22444501 original size:15 final size:16
Alignment explanation
Indices: 22444470--22444509 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
22444460 TAATTGGAGT
*
22444470 TTTAAAAAATAAAATA
1 TTTATAAAATAAAATA
22444486 TTTATAAAAT-AAATA
1 TTTATAAAATAAAATA
22444501 TTT-TAAAAT
1 TTTATAAAAT
22444510 TATAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTATAAAATAAAATA
Found at i:22444527 original size:25 final size:21
Alignment explanation
Indices: 22444487--22444544 Score: 55
Period size: 25 Copynumber: 2.5 Consensus size: 21
22444477 AATAAAATAT
22444487 TTATAAAATA-AATATTTTAAAA
1 TTATAAAATATAATA--TTAAAA
22444509 TTATAAAATATGAATTATTAAAA
1 TTATAAAATAT-AA-TATTAAAA
22444532 TAATATAAAATAT
1 T--TATAAAATAT
22444545 CTTAAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 10 0.32
23 7 0.23
24 2 0.06
25 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTATAAAATATAATATTAAAA
Found at i:22453977 original size:217 final size:218
Alignment explanation
Indices: 22453579--22453995 Score: 683
Period size: 217 Copynumber: 1.9 Consensus size: 218
22453569 TGTAGGGTCG
* *
22453579 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTGTTAGACTAATTTGATTAGGATA
1 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTGATTAGGATA
* * *
22453644 CTAATGTATGCCTGATTATACTAATATATGTGTATCTGTTATTTGTATAAAACATTTTGAGCATG
66 CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
* * * *
22453709 TTTAGTCTGATAAATCTGTATCTGATATCTGCATCTGTTCTGGGTTGGGTTTTATATATATGT-G
131 TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
22453773 AGGAACCCACACTTCTAGAGTCA
196 AGGAACCCACACTTCTAGAGTCA
* * *
22453796 GTAAGGGCTAATTAAACTCCTATCTGTATGCTATGAAATTCTATTAGACTAATCTGATTAGGGTA
1 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTGATTAGGATA
* *
22453861 CTAATGTATGCCTGATTATACTGATATATGTGTATCTATTAGTTGTATAAAGCATGTTGAGCATG
66 CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
* *
22453926 TTTAGTCTAATAAATATGTATCTGATATTTGCATTTGGTCTGGGGTGGGTTTTATATATATGTGG
131 TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
22453991 AGGAA
196 AGGAA
22453996 GTGTTCTGTA
Statistics
Matches: 183, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
217 177 0.97
218 6 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (218 bp):
GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTGATTAGGATA
CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
AGGAACCCACACTTCTAGAGTCA
Found at i:22455676 original size:188 final size:190
Alignment explanation
Indices: 22455378--22455755 Score: 503
Period size: 188 Copynumber: 2.0 Consensus size: 190
22455368 TTTATACAAG
* *
22455378 AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTATGTATTATCTTGTTTGAATA
1 AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTA-GCATAATCTTGTTTGAATA
* * * * **
22455443 GATAAAATTAGTAAACAAAAAGAATTTAGTCGATGTACTCTTCGTAAATTTAAAATTTAATCTTT
65 GACAAAAATAGTAAACAAAAAGAAATTAGCCGATGTACTCTTCGTAAATTTAAAATTTAAT-AAT
* * * * *
22455508 A-TACTTTTCTTTTTAAGAATTTAGT-ATTTTATTTTTCAAATTTCAAAATTCAAGTTTAAA
129 AGTACTTATATTTTTAAGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAAA
*
22455568 AAAAAGTTAAAATTAGTAAACCAAAACAATGAAAAGGAAATGATTA-CA-AATCTTGTTTGAATA
1 AAAAAGTT-AAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTAGCATAATCTTGTTTGAATA
* ** ** * *
22455631 GACAAAAATAGTAAACAAAAGGAAATTAGCCTCTGTGTTCTTCGTAAATTTAGAATTTAGTAATA
65 GACAAAAATAGTAAACAAAAAGAAATTAGCCGATGTACTCTTCGTAAATTTAAAATTTAATAATA
*
22455696 GTACTTATATTTTTAGGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAA
130 GTACTTATATTTTTAAGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAA
22455756 CTGTTAACAC
Statistics
Matches: 163, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
187 2 0.01
188 85 0.52
189 32 0.20
190 8 0.05
191 36 0.22
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (190 bp):
AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTAGCATAATCTTGTTTGAATAG
ACAAAAATAGTAAACAAAAAGAAATTAGCCGATGTACTCTTCGTAAATTTAAAATTTAATAATAG
TACTTATATTTTTAAGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAAA
Found at i:22456398 original size:20 final size:20
Alignment explanation
Indices: 22456356--22456398 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
22456346 ATTAACTCTA
* **
22456356 TTAAATAGTAAATGATATTT
1 TTAAACAGTAAATGATAACT
*
22456376 TTAAACAGTAAATGTTAACT
1 TTAAACAGTAAATGATAACT
22456396 TTA
1 TTA
22456399 TTCCAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (20 bp):
TTAAACAGTAAATGATAACT
Found at i:22463341 original size:26 final size:26
Alignment explanation
Indices: 22463312--22463381 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
22463302 AAATATATGT
22463312 TAAAAATTAAAAAATATAATAATAGA
1 TAAAAATTAAAAAATATAATAATAGA
* *
22463338 TAAAACA-TAGTAAAATA-AATAATATA
1 TAAAA-ATTA-AAAAATATAATAATAGA
* *
22463364 T-ACAATGAAAAAATATAA
1 TAAAAATTAAAAAATATAA
22463382 CAAAGTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
24 7 0.20
25 5 0.14
26 16 0.46
27 7 0.20
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (26 bp):
TAAAAATTAAAAAATATAATAATAGA
Found at i:22465298 original size:19 final size:19
Alignment explanation
Indices: 22465276--22465319 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
22465266 TGGTAGCCTG
22465276 CAAAACGTGCCTTTGATAT
1 CAAAACGTGCCTTTGATAT
*
22465295 CAAAACGTGCCTTTGATGT
1 CAAAACGTGCCTTTGATAT
22465314 CAAAAC
1 CAAAAC
22465320 AATCCCCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (19 bp):
CAAAACGTGCCTTTGATAT
Found at i:22476375 original size:291 final size:291
Alignment explanation
Indices: 22475851--22476432 Score: 1164
Period size: 291 Copynumber: 2.0 Consensus size: 291
22475841 ATTTCTCCAA
22475851 ATTAAGTTTATATTATTAATTGTACGGATTATTTGGATTATTTGAACTAAGAACCCAAATATTAT
1 ATTAAGTTTATATTATTAATTGTACGGATTATTTGGATTATTTGAACTAAGAACCCAAATATTAT
22475916 AATGTCGATGCTAACTATGCAAATAGAAAAGATTTTCTTGCACCGAATATGGTACAATTTGAGAT
66 AATGTCGATGCTAACTATGCAAATAGAAAAGATTTTCTTGCACCGAATATGGTACAATTTGAGAT
22475981 AATTGTGTCAAACACAAACATCATGAGCAGCTTGCGAACTCTTTAATTTGAGAAATTTAAAGCTT
131 AATTGTGTCAAACACAAACATCATGAGCAGCTTGCGAACTCTTTAATTTGAGAAATTTAAAGCTT
22476046 CAAAATGTGGTTGAGAAAATATTTGTTGCTTTGAAAAAATATCCAATTTAGTATAACATAAAAAC
196 CAAAATGTGGTTGAGAAAATATTTGTTGCTTTGAAAAAATATCCAATTTAGTATAACATAAAAAC
22476111 AAGTTTGGATCGTACTATCATGTTACATATT
261 AAGTTTGGATCGTACTATCATGTTACATATT
22476142 ATTAAGTTTATATTATTAATTGTACGGATTATTTGGATTATTTGAACTAAGAACCCAAATATTAT
1 ATTAAGTTTATATTATTAATTGTACGGATTATTTGGATTATTTGAACTAAGAACCCAAATATTAT
22476207 AATGTCGATGCTAACTATGCAAATAGAAAAGATTTTCTTGCACCGAATATGGTACAATTTGAGAT
66 AATGTCGATGCTAACTATGCAAATAGAAAAGATTTTCTTGCACCGAATATGGTACAATTTGAGAT
22476272 AATTGTGTCAAACACAAACATCATGAGCAGCTTGCGAACTCTTTAATTTGAGAAATTTAAAGCTT
131 AATTGTGTCAAACACAAACATCATGAGCAGCTTGCGAACTCTTTAATTTGAGAAATTTAAAGCTT
22476337 CAAAATGTGGTTGAGAAAATATTTGTTGCTTTGAAAAAATATCCAATTTAGTATAACATAAAAAC
196 CAAAATGTGGTTGAGAAAATATTTGTTGCTTTGAAAAAATATCCAATTTAGTATAACATAAAAAC
22476402 AAGTTTGGATCGTACTATCATGTTACATATT
261 AAGTTTGGATCGTACTATCATGTTACATATT
22476433 TCATAACTTC
Statistics
Matches: 291, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
291 291 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (291 bp):
ATTAAGTTTATATTATTAATTGTACGGATTATTTGGATTATTTGAACTAAGAACCCAAATATTAT
AATGTCGATGCTAACTATGCAAATAGAAAAGATTTTCTTGCACCGAATATGGTACAATTTGAGAT
AATTGTGTCAAACACAAACATCATGAGCAGCTTGCGAACTCTTTAATTTGAGAAATTTAAAGCTT
CAAAATGTGGTTGAGAAAATATTTGTTGCTTTGAAAAAATATCCAATTTAGTATAACATAAAAAC
AAGTTTGGATCGTACTATCATGTTACATATT
Found at i:22478332 original size:17 final size:18
Alignment explanation
Indices: 22478291--22478336 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
22478281 CTTAAAAATA
*
22478291 AATATAATTAAATTTATTT
1 AATATAATTAAA-TTATTG
22478310 AATATAATTAAA-TATTG
1 AATATAATTAAATTATTG
*
22478327 ATTATAATTA
1 AATATAATTA
22478337 TTTTTTGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.52
19 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATATAATTAAATTATTG
Found at i:22478458 original size:16 final size:16
Alignment explanation
Indices: 22478437--22478480 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
22478427 ATTTATGTTT
22478437 AATATTTATTTTT-AA
1 AATATTTATTTTTAAA
22478452 AA-A--TATTTTTAAA
1 AATATTTATTTTTAAA
*
22478465 AATTTTTATTTTTAAA
1 AATATTTATTTTTAAA
22478481 GTTTTCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
12 7 0.29
13 4 0.17
14 1 0.04
15 2 0.08
16 10 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATATTTATTTTTAAA
Found at i:22478460 original size:12 final size:12
Alignment explanation
Indices: 22478443--22478471 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22478433 GTTTAATATT
22478443 TATTTTTAAAAA
1 TATTTTTAAAAA
22478455 TATTTTTAAAAA
1 TATTTTTAAAAA
22478467 T-TTTT
1 TATTTT
22478472 ATTTTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTTTAAAAA
Found at i:22480298 original size:63 final size:63
Alignment explanation
Indices: 22480221--22480475 Score: 273
Period size: 62 Copynumber: 4.1 Consensus size: 63
22480211 GTGCAGGGTT
* * * * * *
22480221 CACATGGCCAGGGACACAAGTGTGTGCCTAGGCCGTGTAACTCACTGTTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* * ** *
22480284 CATACGGCCAGGGACACGGGCGTGTGCCCAAGCCATGTAACTTGCTATTT-GGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* ** * *
22480346 CACACAGCCAGGGACATGGGCATGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* * * * * * *
22480409 CACAAGACC-GGGACACAGGTGTGTGCCCAAGCCGTGTAATTCACTGTTTGTGCT-TAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
*
22480470 GACACG
1 CACACG
22480476 ACCAAGGCAC
Statistics
Matches: 158, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
61 11 0.07
62 90 0.57
63 57 0.36
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (63 bp):
CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
Found at i:22480496 original size:125 final size:125
Alignment explanation
Indices: 22480243--22480502 Score: 312
Period size: 125 Copynumber: 2.1 Consensus size: 125
22480233 GACACAAGTG
* * * * * *
22480243 TGTGCCTAGGCCGTGTAACTCACTGTTTGGGGTATAAAAACCATACGGCCAGGGACACGGGCGTG
1 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
* * * *
22480308 TGCCCAAGCCATGTAACTTGCTATTTGGGTATAAAAACCACACAGCCAGGGACATGGGCA
66 TGCCCAAGCCATGTAACTTACTATTTGGCTATAAAAACCACACAGCCAGGCACACGGGCA
*
22480368 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACC-GGGACACAGGTGTG
1 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
* * * *
22480432 TGCCCAAGCCGTGTAA-TTCACTGTTTGTGCT-TAAAAACGACAC-GACCAAGGCACACGGGTA
66 TGCCCAAGCCATGTAACTT-ACTATTTG-GCTATAAAAACCACACAG-CC-AGGCACACGGGCA
*
22480493 TGTGGCCAGG
1 TGTGCCCAGG
22480503 AAGTGTTACA
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
123 3 0.03
124 46 0.40
125 66 0.57
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (125 bp):
TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
TGCCCAAGCCATGTAACTTACTATTTGGCTATAAAAACCACACAGCCAGGCACACGGGCA
Found at i:22484162 original size:13 final size:13
Alignment explanation
Indices: 22484144--22484168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22484134 ATGAATTCGT
22484144 AAATATTTATTAG
1 AAATATTTATTAG
22484157 AAATATTTATTA
1 AAATATTTATTA
22484169 AGCTAGTAGT
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
AAATATTTATTAG
Found at i:22492843 original size:63 final size:62
Alignment explanation
Indices: 22492767--22492989 Score: 241
Period size: 63 Copynumber: 3.5 Consensus size: 62
22492757 ATGCAGGGTT
*
22492767 CACACGGCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTGTTTAGGGTATAAAAAC
1 CACACGGCCAGGGACACGGACGTGTGCCCAGGCCGTGTAACTCACTGTTT-GGGTATAAAAAC
* * * ** * * *
22492830 CACACGACCAGGGACACGGATGTGTACGTAAGCCATGTAACTCACTATTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACGGACGTGTGCCCAGGCCGTGTAACTCACTGTTT-GGGTATAAAAAC
* * * * *
22492893 CACACGGTCAAGGACACAGACGTGTGCCCAGGCCGCGTAACTCACTGTTTGTGCT-TAAAAAC
1 CACACGGCCAGGGACACGGACGTGTGCCCAGGCCGTGTAACTCACTGTTTG-GGTATAAAAAC
* ** *
22492955 CACACGGCCAAGGCACACGGTTGTGTGGCCAGGCC
1 CACACGGCC-AGGGACACGGACGTGTGCCCAGGCC
22492990 ATGTGGCAGG
Statistics
Matches: 128, Mismatches: 30, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
62 16 0.12
63 112 0.88
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (62 bp):
CACACGGCCAGGGACACGGACGTGTGCCCAGGCCGTGTAACTCACTGTTTGGGTATAAAAAC
Found at i:22498417 original size:30 final size:30
Alignment explanation
Indices: 22498383--22498443 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
22498373 TCCTTAACTC
22498383 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
22498413 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
22498443 A
1 A
22498444 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:22500376 original size:15 final size:14
Alignment explanation
Indices: 22500356--22500387 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
22500346 ATAATACGAT
22500356 TTTATTATATTATTA
1 TTTATTATA-TATTA
22500371 TTTATTATATATTA
1 TTTATTATATATTA
22500385 TTT
1 TTT
22500388 TTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:22511434 original size:44 final size:44
Alignment explanation
Indices: 22511378--22511590 Score: 159
Period size: 44 Copynumber: 4.8 Consensus size: 44
22511368 TTAGCATGGC
* *
22511378 ATCCTTGTGTTTATAGGGAACAAGTTGAAGATAACAGATTTGGA
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
* * *
22511422 ATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCT-GA
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
* * ** * * ** *
22511465 CA-CTCCTGTGCTTACAACGATGC-AGATCGAGGATTTCAGCA--TGGC
1 -ATC-CCTGTGTTTATAGGGA-ACAAG-TCGAAGATAACAG-ATTTGGA
** * *
22511510 ATCCCTGTGTTTATAGGGAACAAGTTAAAGATAGCAGATTTGGC
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
*
22511554 ATCCCTATGTTTATAGGGAAC-AGATCGAAGATAACAG
1 ATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAACAG
22511591 CTCTAACACT
Statistics
Matches: 129, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 14 0.11
44 100 0.78
45 13 0.10
46 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (44 bp):
ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
Found at i:22511519 original size:132 final size:132
Alignment explanation
Indices: 22511273--22511693 Score: 646
Period size: 132 Copynumber: 3.2 Consensus size: 132
22511263 ATGTAGATCA
*
22511273 AAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAGGATAGCAGATCTGACACT
1 AAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACT
* * * * *
22511337 CCTGCGCTTACAGCGAAGTAGATTGAAGATTTTAGCATGGCATCCTTGTGTTTATAGGGAACAAG
65 CCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAG
22511402 TTG
130 TTG
*
22511405 AAGATAACAGATTTGGAATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
* * *
22511470 CTGTGCTTACAACGATGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
66 CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGT
*
22511535 TA
131 TG
* * * * * *
22511537 AAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGCTCTAACACTC
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
*
22511602 ATGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGT
66 CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGT
22511667 TG
131 TG
* *
22511669 AAGATAGCAGATTTGGCATCTCTGT
1 AAGATAACAGATTTGGCATCCCTGT
22511694 ATTGTCAGAG
Statistics
Matches: 263, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
132 260 0.99
133 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGT
TG
Found at i:22511717 original size:44 final size:44
Alignment explanation
Indices: 22511669--22511775 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 44
22511659 GAACAAGTTG
*
22511669 AAGATAGCAGATTTGGCATCTCTGTATT-GTC-AGAGAGCAGATCT
1 AAGATAGCAGATTTGGCATCTCTGTATTAG-CGA-AGAGCAGATCA
* *
22511713 AAGATACCGGATTTGGCATCTCTGTATTAGCGAAGAGCAGATCA
1 AAGATAGCAGATTTGGCATCTCTGTATTAGCGAAGAGCAGATCA
*
22511757 AAGACATAGCTGATTTGGC
1 AAG--ATAGCAGATTTGGC
22511776 TTTCACATGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
44 40 0.74
45 2 0.04
46 12 0.22
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
AAGATAGCAGATTTGGCATCTCTGTATTAGCGAAGAGCAGATCA
Found at i:22512104 original size:198 final size:201
Alignment explanation
Indices: 22511753--22512232 Score: 687
Period size: 198 Copynumber: 2.4 Consensus size: 201
22511743 CGAAGAGCAG
* * *
22511753 ATCAAAGACATAGCTGATTTGGCTTTCACATGCTTACGTTGAAACAAATCTAAGATGATTTGGCA
1 ATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
* *
22511818 TCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATA
66 TCTCTGTATTGT---AG-ACAAATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGACACATA
*
22511883 GCAGATCCAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGTATCCTTGTGCTTA
127 GCAGATCCAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTA
22511948 CAAGGAACAA
192 CAAGGAACAA
* *
22511958 ATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCC
1 ATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
* * *
22512023 TCTCTGTATT-T-G-TAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCTGACACATAGCAG
66 TCTCTGTATTGTAGACAAATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGACACATAGCAG
* * *
22512085 ATTCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
131 ATCCAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
* *
22512150 GAGCGA
196 GAACAA
* * * * ** *
22512156 ATCGAAGACATATCCGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAATATGATGAGTCA
1 ATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
*
22512221 TCTTTGTATTGT
66 TCTCTGTATTGT
22512233 CAGAGAACGA
Statistics
Matches: 248, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
198 175 0.71
199 1 0.00
200 1 0.00
204 1 0.00
205 70 0.28
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (201 bp):
ATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGTAGACAAATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGACACATAGCAG
ATCCAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
GAACAA
Found at i:22513987 original size:27 final size:28
Alignment explanation
Indices: 22513902--22513988 Score: 79
Period size: 33 Copynumber: 3.0 Consensus size: 28
22513892 TACGATTTTA
22513902 TTATATTATTAT-TTATTATATATTATTT
1 TTATATTATTATATTA-TATATATTATTT
* * *
22513930 TTCACAAATTATTATTATTTTACATCATTATTT
1 TT---ATATTATTA-TATTATATAT-ATTATTT
22513963 TTATATTATTATATTATATAT-TTATT
1 TTATATTATTATATTATATATATTATT
22513989 AATTACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
27 5 0.11
28 2 0.04
29 8 0.17
30 8 0.17
31 8 0.17
32 5 0.11
33 11 0.23
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATATTATTATATTATATATATTATTT
Found at i:22513988 original size:19 final size:19
Alignment explanation
Indices: 22513966--22514003 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22513956 ATTATTTTTA
22513966 TATT-ATTATATTATATATT
1 TATTAATTA-ATTATATATT
*
22513985 TATTAATTACTTATATATT
1 TATTAATTAATTATATATT
22514004 GTTCTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTAATTAATTATATATT
Found at i:22514003 original size:15 final size:15
Alignment explanation
Indices: 22513899--22514003 Score: 56
Period size: 16 Copynumber: 6.8 Consensus size: 15
22513889 TAATACGATT
22513899 TTATTATATTATTAT-
1 TTATTATA-TATTATA
22513914 TTATTATATATTAT-
1 TTATTATATATTATA
* *
22513928 TT-TTCACAAATTATTA
1 TTATT-ATATATTA-TA
* * *
22513944 TTATTTTACATCATTA
1 TTATTATATATTA-TA
*
22513960 TTTTTATATTATTATA
1 TTATTATA-TATTATA
*
22513976 TTATATATTTATTA-A
1 TTAT-TATATATTATA
22513991 TTACTTATATATT
1 TTA-TTATATATT
22514004 GTTCTTACAT
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
13 2 0.03
14 14 0.20
15 20 0.29
16 26 0.37
17 8 0.11
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATATATTATA
Found at i:22514403 original size:28 final size:27
Alignment explanation
Indices: 22514372--22514437 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
22514362 AATATTTTGT
*
22514372 TATTATGTTTTATATATTATATAGCAAA
1 TATTATGTTTTATAGATTAT-TAGCAAA
**
22514400 TATTA--TTTTA-AGATTATTATTAAA
1 TATTATGTTTTATAGATTATTAGCAAA
22514424 TATTATGTCTTTAT
1 TATTATGT-TTTAT
22514438 TTGTGTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 10 0.32
25 6 0.19
26 6 0.19
27 4 0.13
28 5 0.16
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (27 bp):
TATTATGTTTTATAGATTATTAGCAAA
Found at i:22519147 original size:22 final size:22
Alignment explanation
Indices: 22519093--22519156 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
22519083 TAATAACATG
*
22519093 ATTA-ATAATATCT-TTTTTAT
1 ATTATATAATATTTATTTTTAT
*
22519113 AATTAT-CAA-ATTTATTTTTAT
1 -ATTATATAATATTTATTTTTAT
*
22519134 ATTATATAATATTTAATTTTAT
1 ATTATATAATATTTATTTTTAT
22519156 A
1 A
22519157 AAATGCACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.23
21 15 0.43
22 12 0.34
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATATAATATTTATTTTTAT
Found at i:22523166 original size:13 final size:13
Alignment explanation
Indices: 22523148--22523173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22523138 GAAACGAAAC
22523148 AGAAAAGAAAGAA
1 AGAAAAGAAAGAA
22523161 AGAAAAGAAAGAA
1 AGAAAAGAAAGAA
22523174 GGAGAATTAG
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAGAA
Found at i:22526590 original size:35 final size:33
Alignment explanation
Indices: 22526526--22526590 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
22526516 TAAAAAAATA
*
22526526 TTAAAACAAATAAAAATAATACTAAAATAATTC
1 TTAAAACAAATAAAAATAATAATAAAATAATTC
*
22526559 TTAAAAC-AATACACAAATTAATAATATAATAA
1 TTAAAACAAATA-A-AAA-TAATAATAAAATAA
22526591 AAAATGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.15
33 8 0.30
34 3 0.11
35 12 0.44
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (33 bp):
TTAAAACAAATAAAAATAATAATAAAATAATTC
Found at i:22526632 original size:15 final size:16
Alignment explanation
Indices: 22526602--22526634 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22526592 AAATGGTTAT
22526602 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
22526619 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
22526634 A
1 A
22526635 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:22536845 original size:18 final size:18
Alignment explanation
Indices: 22536800--22536844 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
22536790 TACTCGAGCC
*
22536800 GGCC-CGTTTTCTAAACG
1 GGCCTCGTTTTCTAAACA
22536817 GGCCTCGTTTTCTAAACA
1 GGCCTCGTTTTCTAAACA
22536835 GG-CTCGTTTT
1 GGCCTCGTTTT
22536845 TTGCCCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (18 bp):
GGCCTCGTTTTCTAAACA
Found at i:22538080 original size:35 final size:34
Alignment explanation
Indices: 22538035--22538102 Score: 118
Period size: 35 Copynumber: 2.0 Consensus size: 34
22538025 GAAAATACAT
22538035 ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
*
22538069 ATTTTGTTTAACTTGACTTGCAAGCAATGTCTTA
1 ATTTT-TTTAACTTGACTTGCAAGCAATCTCTTA
22538103 AAATTTGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 5 0.16
35 27 0.84
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (34 bp):
ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
Found at i:22539112 original size:39 final size:39
Alignment explanation
Indices: 22539069--22539146 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
22539059 TTGCTGCTCC
22539069 CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
1 CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
*
22539108 CAAATCATTCATTTTAAATTCTTCACTAAGTTGAGTTTT
1 CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
22539147 AACCTTTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.45
Consensus pattern (39 bp):
CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
Found at i:22549430 original size:105 final size:104
Alignment explanation
Indices: 22548888--22549440 Score: 484
Period size: 105 Copynumber: 5.3 Consensus size: 104
22548878 CAGAGTGTTG
* * * * * *
22548888 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGCCAAAAATATCTTCAGCTTCAGA
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
* * *
22548953 AACCATACTAATCTTGCAAAGAGAATCCATCAATATATTA
66 AACCATAC-CATCTTGCAAAGAGAATCGATCAATATACTA
* * ** ** ** * *
22548993 TACGTGATAACATTAGG-TTCAACACCTTGCTTTCTCATCGTGCCAACAATAAATTCAGCTTCAG
1 TATGTGACAACATTAGGCTT-AATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAG
* * *
22549057 AAACCATACCATTCTTGCAAAGCGAATCTATCAATGTACTA
65 AAACCATACCA-TCTTGCAAAGAGAATCGATCAATATACTA
* * * *** * * *
22549098 TACGTGACAACAGTAGG-TTCGATGCCTTGCTTTCTCATCGCGTCAACAACAACTTCGGCTTTAG
1 TATGTGACAACATTAGGCTT-AATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAG
* * * *
22549162 AAACC-TCCCCCATCTTGCAAAGAGTATCTATGAATATACTA
65 AAACCAT--ACCATCTTGCAAAGAGAATCGATCAATATACTA
* * * * * *
22549203 TATGTGACAACATCAAGCTTAATGCCTTGCTTTGTCA-TAGTGCCGACGATATTTTCGGCTTTAG
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTA-TGCCAACAATATCTTCGGCTTTAG
* * * * * *
22549267 AAATCATTCCTTTCTTACAAAGAGCATCGATCAATATGCTA
65 AAACCATACC-ATCTTGCAAAGAGAATCGATCAATATACTA
* *
22549308 TATGTGACAACATTAGGCTTAATGCCTTGCTTTGTCATTATGCCAACAATATCTTCGGCTTTGGA
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
* * * * * *
22549373 TATCATTCCCTGCTTGCAAAGCGCATCGATCAATATACTA
66 AACCATACCAT-CTTGCAAAGAGAATCGATCAATATACTA
* *
22549413 TATGTGACGACATTAGGCTTACTGCCTT
1 TATGTGACAACATTAGGCTTAATGCCTT
22549441 TTTTTATCAT
Statistics
Matches: 370, Mismatches: 68, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
104 6 0.02
105 356 0.96
106 8 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (104 bp):
TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
AACCATACCATCTTGCAAAGAGAATCGATCAATATACTA
Found at i:22552497 original size:34 final size:34
Alignment explanation
Indices: 22552453--22552532 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
22552443 ATTAGAGTTT
* *
22552453 TAAATAAATTAAACTAGGATT-TATGGTGTT-TAAA
1 TAAATTAATTAAACTAGGGTTATA-GG-GTTCTAAA
*
22552487 TAAATTAATTAAATTAGGGTTATAGGGTTCTAAA
1 TAAATTAATTAAACTAGGGTTATAGGGTTCTAAA
22552521 TAAATTATATTA
1 TAAATTA-ATTA
22552533 GGGTTTAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 3 0.08
34 31 0.77
35 6 0.15
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.40
Consensus pattern (34 bp):
TAAATTAATTAAACTAGGGTTATAGGGTTCTAAA
Found at i:22552521 original size:30 final size:31
Alignment explanation
Indices: 22552487--22552572 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 31
22552477 GGTGTTTAAA
22552487 TAAATTAATTAAATTAGGGTT-A-TAGGGTT
1 TAAATTAATTAAATTAGGGTTAAGTAGGGTT
* *
22552516 CTAAATAAATTATATTAGGGTTTAAGGTTTAGGGTT
1 -TAAATTAATTAAATTAGGG-TTAA-G--TAGGGTT
*
22552552 AAAATTAATTAAATTAGGGTT
1 TAAATTAATTAAATTAGGGTT
22552573 TAGTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
30 17 0.38
31 2 0.04
32 1 0.02
34 2 0.04
35 16 0.36
36 7 0.16
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (31 bp):
TAAATTAATTAAATTAGGGTTAAGTAGGGTT
Found at i:22552568 original size:35 final size:37
Alignment explanation
Indices: 22552504--22552574 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 37
22552494 ATTAAATTAG
* *
22552504 GGTTATAGGGTTCTAAATAAATTATATTAGGGTTTAA
1 GGTTATAGGGTTCAAAATAAATTAAATTAGGGTTTAA
*
22552541 GGTT-TAGGGTT-AAAATTAATTAAATTAGGGTTTA
1 GGTTATAGGGTTCAAAATAAATTAAATTAGGGTTTA
22552575 GTTTTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 20 0.65
36 7 0.23
37 4 0.13
ACGTcount: A:0.35, C:0.01, G:0.23, T:0.41
Consensus pattern (37 bp):
GGTTATAGGGTTCAAAATAAATTAAATTAGGGTTTAA
Found at i:22556892 original size:7 final size:7
Alignment explanation
Indices: 22556882--22556913 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22556872 TTATATACAT
22556882 AATACTA
1 AATACTA
22556889 AATACTA
1 AATACTA
22556896 AATACTA
1 AATACTA
*
22556903 AGTACTA
1 AATACTA
22556910 AATA
1 AATA
22556914 TGAAATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22557850 original size:54 final size:54
Alignment explanation
Indices: 22557775--22557886 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
22557765 TATAAAATAC
*
22557775 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATAAAAAAAATATTAAATAATATTCAAAAATTA
* * * *
22557829 AAATTAATTAAGATTACATAAATAAAAAAAATATTAAATAATTTTCAACATTTA
1 AAATTAATTAAAATTACATAAATAAAAAAAATATTAAATAATATTCAAAAATTA
22557883 AAAT
1 AAAT
22557887 AAACCGTTAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (54 bp):
AAATTAATTAAAATTACATAAATAAAAAAAATATTAAATAATATTCAAAAATTA
Found at i:22557854 original size:24 final size:23
Alignment explanation
Indices: 22557761--22557855 Score: 57
Period size: 25 Copynumber: 3.7 Consensus size: 23
22557751 CTGTTATAGA
*
22557761 AAATTATA-AAATACAAATTAATT
1 AAATTACATAAATA-AAATTAATT
**
22557784 AAAATTACATAAATGAAAAAAATATT
1 -AAATTACATAAAT-AAAATTA-ATT
*
22557810 AAATAATATTCAAAAATTAAAATTAATT
1 AAAT--TA--CATAAA-TAAAATTAATT
22557838 AAGATTACATAAATAAAA
1 AA-ATTACATAAATAAAA
22557856 AAAATATTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
24 12 0.22
25 17 0.31
26 4 0.07
27 4 0.07
28 5 0.09
29 12 0.22
30 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATTACATAAATAAAATTAATT
Found at i:22558671 original size:10 final size:10
Alignment explanation
Indices: 22558656--22558725 Score: 54
Period size: 10 Copynumber: 7.0 Consensus size: 10
22558646 AATTTTCTAA
22558656 AAAAAATTAT
1 AAAAAATTAT
*
22558666 AAAAAAATCAT
1 -AAAAAATTAT
* *
22558677 TAAAAATCAT
1 AAAAAATTAT
22558687 AAAAAA-TATT
1 AAAAAATTA-T
**
22558697 AAAATTTTAT
1 AAAAAATTAT
22558707 AAAAAA-TAT
1 AAAAAATTAT
*
22558716 TAAAAATTAT
1 AAAAAATTAT
22558726 GGTTAAGTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
9 9 0.19
10 27 0.57
11 11 0.23
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:22558671 original size:11 final size:11
Alignment explanation
Indices: 22558655--22558692 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
22558645 CAATTTTCTA
*
22558655 AAAAAAATTAT
1 AAAAAAATCAT
22558666 AAAAAAATCAT
1 AAAAAAATCAT
*
22558677 -TAAAAATCAT
1 AAAAAAATCAT
22558687 AAAAAA
1 AAAAAA
22558693 TATTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAAAATCAT
Found at i:22558690 original size:20 final size:19
Alignment explanation
Indices: 22558657--22558725 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 19
22558647 ATTTTCTAAA
22558657 AAAAATTATAAAAAAATCATT
1 AAAAATTAT-AAAAAAT-ATT
*
22558678 AAAAATCATAAAAAATATT
1 AAAAATTATAAAAAATATT
*
22558697 AAAATTTTATAAAAAATATT
1 AAAA-ATTATAAAAAATATT
22558717 AAAAATTAT
1 AAAAATTAT
22558726 GGTTAAGTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.26
20 24 0.56
21 8 0.19
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAAATATT
Found at i:22565265 original size:16 final size:16
Alignment explanation
Indices: 22565244--22565277 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22565234 CATTTCACTA
*
22565244 TTATGTCTTTTGTATT
1 TTATGTCTTTTATATT
22565260 TTATGTCTTTTATATT
1 TTATGTCTTTTATATT
22565276 TT
1 TT
22565278 GCATGCACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (16 bp):
TTATGTCTTTTATATT
Found at i:22568091 original size:20 final size:20
Alignment explanation
Indices: 22568063--22568120 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
22568053 TAAAAAAAAT
*
22568063 AATCAATTGAAACCAAGAAC
1 AATCGATTGAAACCAAGAAC
*
22568083 AAAT-GATTGAAACCAAGAGC
1 -AATCGATTGAAACCAAGAAC
*
22568103 AATCGATTAAAACCAAGA
1 AATCGATTGAAACCAAGA
22568121 GTAAAAAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.16
Consensus pattern (20 bp):
AATCGATTGAAACCAAGAAC
Found at i:22568230 original size:20 final size:20
Alignment explanation
Indices: 22568205--22568243 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22568195 ATAGCTTGCG
22568205 AAACAAACTTAAGAACTGCT
1 AAACAAACTTAAGAACTGCT
*
22568225 AAACAAACTTAATAACTGC
1 AAACAAACTTAAGAACTGC
22568244 CTAACCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.21, G:0.08, T:0.21
Consensus pattern (20 bp):
AAACAAACTTAAGAACTGCT
Found at i:22569177 original size:45 final size:45
Alignment explanation
Indices: 22569113--22569204 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
22569103 AAGTTTAAGA
*
22569113 TTACTGAAGATTGCTCACAAAGCATAATGTAAAACAATTGCTCTT
1 TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
*
22569158 TTACTGAAGATTGCTCACAAAGCATAATATGAAACAATTGCTCTT
1 TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
22569203 TT
1 TT
22569205 GTTTGGCAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (45 bp):
TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
Found at i:22571960 original size:15 final size:15
Alignment explanation
Indices: 22571940--22571969 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22571930 AAACAAAACA
22571940 TGATTTCTACTAATC
1 TGATTTCTACTAATC
*
22571955 TGATTTTTACTAATC
1 TGATTTCTACTAATC
22571970 CAGTTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (15 bp):
TGATTTCTACTAATC
Found at i:22575456 original size:18 final size:16
Alignment explanation
Indices: 22575419--22575473 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
22575409 GTTTTTTATA
22575419 TTTTTTATATATT-AT
1 TTTTTTATATATTAAT
* *
22575434 TTTTTATAAATTTTAAT
1 TTTTT-TATATATTAAT
22575451 TTTTTTATATATTAAT
1 TTTTTTATATATTAAT
22575467 TTTTTTA
1 TTTTTTA
22575474 CATTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.15
16 22 0.65
17 7 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTATATATTAAT
Found at i:22575489 original size:34 final size:33
Alignment explanation
Indices: 22575412--22575502 Score: 102
Period size: 32 Copynumber: 2.8 Consensus size: 33
22575402 TATTATAGTT
*
22575412 TTTTATATTTTTTATATATT-ATTTTTTATAAA
1 TTTTAAATTTTTTATATATTAATTTTTTATAAA
* *
22575444 TTTTAATTTTTTTATATATTAATTTTTT-TACAT
1 TTTTAAATTTTTTATATATTAATTTTTTATA-AA
22575477 TTTTAAAATTTTTT-TA-A-TAATTTTTT
1 TTTT-AAATTTTTTATATATTAATTTTTT
22575503 GAGATGTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
31 9 0.17
32 21 0.40
33 14 0.27
34 8 0.15
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTTAAATTTTTTATATATTAATTTTTTATAAA
Found at i:22575930 original size:17 final size:18
Alignment explanation
Indices: 22575889--22575931 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
22575879 TGTATTTACT
22575889 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
22575907 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
22575924 TATTATAT
1 TATTATAT
22575932 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:22575942 original size:18 final size:17
Alignment explanation
Indices: 22575919--22575955 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
22575909 ATATAAAGTA
*
22575919 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
22575937 AATTATAATATATTAAT
1 AATTATAATATATTAAT
22575954 AA
1 AA
22575956 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:22583213 original size:17 final size:18
Alignment explanation
Indices: 22583172--22583214 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
22583162 TGTATTCACT
22583172 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
22583190 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
22583207 TATTATAT
1 TATTATAT
22583215 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:22584180 original size:6 final size:6
Alignment explanation
Indices: 22584169--22584206 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
22584159 CCTGAATATG
*
22584169 ACTGTT ACTGTT ACTGTT ATTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
22584207 CCTACAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ACTGTT
Found at i:22586258 original size:2 final size:2
Alignment explanation
Indices: 22586251--22586275 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22586241 TTGAATTGAT
22586251 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22586276 GGAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22588117 original size:15 final size:14
Alignment explanation
Indices: 22588089--22588127 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
22588079 TGTTAATTGC
*
22588089 ATAAAATGTAAATAT
1 ATAAAAT-TTAATAT
22588104 ATAATAATTTAATAT
1 ATAA-AATTTAATAT
22588119 ATAAAATTT
1 ATAAAATTT
22588128 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 14 0.64
16 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
ATAAAATTTAATAT
Found at i:22590924 original size:10 final size:10
Alignment explanation
Indices: 22590891--22590935 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
22590881 TTAAAATATT
*
22590891 AAAATTGATAT
1 AAAATT-ATAA
*
22590902 AAAGTTATAA
1 AAAATTATAA
*
22590912 AAAATTTTAA
1 AAAATTATAA
22590922 AAAATTATAA
1 AAAATTATAA
22590932 AAAA
1 AAAA
22590936 CTTGAACTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 24 0.83
11 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAATTATAA
Found at i:22592878 original size:16 final size:16
Alignment explanation
Indices: 22592857--22592897 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
22592847 ATGAAAGCTT
*
22592857 AAAATGGTGTTTTAGC
1 AAAATGATGTTTTAGC
22592873 AAAATGATGTTTTAGC
1 AAAATGATGTTTTAGC
22592889 AAAATGATG
1 AAAATGATG
22592898 GCTAATGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (16 bp):
AAAATGATGTTTTAGC
Found at i:22593659 original size:26 final size:26
Alignment explanation
Indices: 22593630--22593737 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
22593620 TGGTACAAAT
*
22593630 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
**
22593656 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
22593682 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
22593708 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
22593734 TGAT
1 TGAT
22593738 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:22596864 original size:7 final size:7
Alignment explanation
Indices: 22596852--22596967 Score: 117
Period size: 7 Copynumber: 16.4 Consensus size: 7
22596842 ACAATTGAAG
22596852 ACCCTAA
1 ACCCTAA
22596859 ACCCTAA
1 ACCCTAA
22596866 ACCCTAA
1 ACCCTAA
*
22596873 ACCATAA
1 ACCCTAA
*
22596880 ACTCTAA
1 ACCCTAA
*
22596887 ACCATAA
1 ACCCTAA
22596894 ACCCTAA
1 ACCCTAA
22596901 ACCCTAAA
1 ACCCT-AA
22596909 ACCCTAA
1 ACCCTAA
*
22596916 ACTCTAA
1 ACCCTAA
*
22596923 ACACTAAA
1 ACCCT-AA
* *
22596931 ATCATAA
1 ACCCTAA
*
22596938 ACCATAA
1 ACCCTAA
*
22596945 ACTCTAA
1 ACCCTAA
*
22596952 ACCATAA
1 ACCCTAA
22596959 A-CCTAA
1 ACCCTAA
22596965 ACC
1 ACC
22596968 ATCTACCAAT
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
6 5 0.06
7 73 0.82
8 11 0.12
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (7 bp):
ACCCTAA
Found at i:22601414 original size:9 final size:9
Alignment explanation
Indices: 22601393--22601422 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22601383 TTCCCAAAAT
22601393 ATTAATT-A
1 ATTAATTAA
22601401 ATTAATTAA
1 ATTAATTAA
22601410 ATTAATTAA
1 ATTAATTAA
22601419 ATTA
1 ATTA
22601423 CTTCCTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATTAA
Found at i:22615876 original size:14 final size:14
Alignment explanation
Indices: 22615857--22615896 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22615847 TTGATTGGCA
22615857 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
22615871 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
22615885 GGAAAATGTTTT
1 GTAAAATGTTTT
22615897 ACTTTTCTGT
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:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:22615909 original size:34 final size:35
Alignment explanation
Indices: 22615865--22615931 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
22615855 CAGTAAAATG
* *
22615865 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
22615899 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
22615932 CTGGTGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:22615918 original size:20 final size:20
Alignment explanation
Indices: 22615880--22615919 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22615870 CGTAAAATGA
**
22615880 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
22615900 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
22615920 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:22617476 original size:13 final size:13
Alignment explanation
Indices: 22617458--22617483 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22617448 CCAGAAACTG
22617458 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
22617471 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
22617484 TACCCATTTG
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:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:22618849 original size:24 final size:24
Alignment explanation
Indices: 22618814--22618860 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
22618804 AAATTTATAT
*
22618814 TATAAAATTGTTT-ATTACATTAAG
1 TATAAAACTGTTTGA-TACATTAAG
22618838 TATAAAACTGTTTGATACATTAA
1 TATAAAACTGTTTGATACATTAA
22618861 TTTTAATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (24 bp):
TATAAAACTGTTTGATACATTAAG
Found at i:22620504 original size:22 final size:22
Alignment explanation
Indices: 22620478--22620525 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22620468 TGTTAATTTT
*
22620478 AAATGA-CATTATAGAAAAATTA
1 AAATGATCATGATA-AAAAATTA
*
22620500 AAATGATCATGATAAAAATTTA
1 AAATGATCATGATAAAAAATTA
22620522 AAAT
1 AAAT
22620526 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (22 bp):
AAATGATCATGATAAAAAATTA
Found at i:22624268 original size:34 final size:34
Alignment explanation
Indices: 22624220--22624290 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
22624210 AAAAAAACTT
* * *
22624220 TAACAAACTCAGCTTCTTACTCTCATTATCAAGC
1 TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
* *
22624254 TAACAAACTTAGCTTCCTACTCTTACTAACAAGC
1 TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
22624288 TAA
1 TAA
22624291 TGATCTCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (34 bp):
TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
Found at i:22625559 original size:13 final size:13
Alignment explanation
Indices: 22625541--22625567 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22625531 GTTTAACATT
22625541 TAACCATATCATA
1 TAACCATATCATA
22625554 TAACCATATCATA
1 TAACCATATCATA
22625567 T
1 T
22625568 TGTAATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (13 bp):
TAACCATATCATA
Found at i:22625786 original size:34 final size:34
Alignment explanation
Indices: 22625743--22625856 Score: 149
Period size: 34 Copynumber: 3.4 Consensus size: 34
22625733 CAGATATATG
* *
22625743 AGTAACTACACCACACCAGGTTGCTCGTTAGAGC
1 AGTAACTACACCACACCAGATTGCTCGTCAGAGC
* *
22625777 AGTAACTACACCACACCAGATTGCTTGTCAGAGT
1 AGTAACTACACCACACCAGATTGCTCGTCAGAGC
* * *
22625811 AATAACTACACCACACTAGATTGCTC-TGACGAGC
1 AGTAACTACACCACACCAGATTGCTCGTCA-GAGC
22625845 AGTAACTACACC
1 AGTAACTACACC
22625857 TTACCAGCTC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
33 2 0.03
34 67 0.97
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (34 bp):
AGTAACTACACCACACCAGATTGCTCGTCAGAGC
Found at i:22632198 original size:17 final size:17
Alignment explanation
Indices: 22632178--22632221 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
22632168 TTCATAAGCA
22632178 TATATCATTCATTTCAT-
1 TATATCATT-ATTTCATC
*
22632195 TATATCAATATTTCATGC
1 TATATCATTATTTCAT-C
22632213 TATATCATT
1 TATATCATT
22632222 TCCATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (17 bp):
TATATCATTATTTCATC
Found at i:22632491 original size:46 final size:46
Alignment explanation
Indices: 22632426--22632745 Score: 388
Period size: 46 Copynumber: 7.0 Consensus size: 46
22632416 TTATCTTTGA
* * * * **
22632426 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
22632472 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * **
22632518 CACGCTGCCATAGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
22632564 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
22632610 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
22632656 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
22632702 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
22632746 ATCAGAGAGC
Statistics
Matches: 248, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 248 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:22632636 original size:138 final size:137
Alignment explanation
Indices: 22632404--22632743 Score: 430
Period size: 138 Copynumber: 2.5 Consensus size: 137
22632394 CGTCTCCCAT
* * * * *
22632404 CCATGGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTT
1 CCATGGTCTTATTTAT-TTCTGTCATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
** ** *
22632468 TTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATAGTA
65 CCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATAGTA
22632533 TCTTTCAA
130 TCTTTCAA
* * * *
22632541 CCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTC
1 CCATGGTCTTATTTATTT-CTGTCATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
* *
22632606 CCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
65 CCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATAGTA
22632671 TCTTTCAA
130 TCTTTCAA
**** * * * *
22632679 CCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CCATGGTCTTATTTATTTC-TGTCATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
22632744 ATATCAGAGA
Statistics
Matches: 173, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
136 2 0.01
137 17 0.10
138 154 0.89
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (137 bp):
CCATGGTCTTATTTATTTCTGTCATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCC
CGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATAGTAT
CTTTCAA
Found at i:22634923 original size:18 final size:20
Alignment explanation
Indices: 22634908--22634944 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22634898 TAATAATAAA
*
22634908 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
22634928 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
22634945 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:22640047 original size:81 final size:82
Alignment explanation
Indices: 22639907--22640071 Score: 287
Period size: 82 Copynumber: 2.0 Consensus size: 82
22639897 TTACGCTTTC
*
22639907 AAAGAAATAACGGAATTTAAAAGGTTAGAATTGATATTATTAAGAAAAACAACCATAAACTTTAA
1 AAAGAAATAACGAAATTTAAAAGGTTAGAATTGATATTATTAAGAAAAACAACCATAAACTTTAA
*
22639972 ATATAAACTGTAAAACA
66 ATATAAACGGTAAAACA
* *
22639989 AAAGAAATGACGAAATTTAAAAGGTTGGAATTGATATTATTAA-AAAAACAACCATAAACTTTAA
1 AAAGAAATAACGAAATTTAAAAGGTTAGAATTGATATTATTAAGAAAAACAACCATAAACTTTAA
22640053 ATATAAACGGTAAAACA
66 ATATAAACGGTAAAACA
22640070 AA
1 AA
22640072 CCTCAAAAGT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
81 39 0.49
82 40 0.51
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (82 bp):
AAAGAAATAACGAAATTTAAAAGGTTAGAATTGATATTATTAAGAAAAACAACCATAAACTTTAA
ATATAAACGGTAAAACA
Found at i:22649282 original size:23 final size:24
Alignment explanation
Indices: 22649250--22649321 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
22649240 CCATATAGCC
* * *
22649250 ACATAACAGGAAGTTCA-AACGAG
1 ACATATCAGGAAGCTCACAAAGAG
*
22649273 TCATATCAGGAAGCTCACAAAGAG
1 ACATATCAGGAAGCTCACAAAGAG
* *
22649297 ACTATATCAGGACGCTCATAAAGAG
1 AC-ATATCAGGAAGCTCACAAAGAG
22649322 CTGTGTTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.35
24 6 0.15
25 20 0.50
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (24 bp):
ACATATCAGGAAGCTCACAAAGAG
Found at i:22652155 original size:21 final size:21
Alignment explanation
Indices: 22652131--22652174 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22652121 TTTATTTTAC
*
22652131 TTTTTTA-AATTTTTCGTA-A
1 TTTTTTATAATTTTTCATATA
22652150 TATTTTTATAATTTTTCATATA
1 T-TTTTTATAATTTTTCATATA
22652172 TTT
1 TTT
22652175 ATGATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.05
20 6 0.29
21 12 0.57
22 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTTATAATTTTTCATATA
Found at i:22652172 original size:20 final size:20
Alignment explanation
Indices: 22652132--22652174 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
22652122 TTATTTTACT
*
22652132 TTTTTAAATTTTTCGTAATA
1 TTTTTAAATTTTTCATAATA
22652152 TTTTTATAATTTTTCAT-ATA
1 TTTTTA-AATTTTTCATAATA
22652172 TTT
1 TTT
22652175 ATGATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTAAATTTTTCATAATA
Found at i:22652175 original size:18 final size:18
Alignment explanation
Indices: 22652149--22652183 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22652139 ATTTTTCGTA
*
22652149 ATATTTTTATAATTTTTC
1 ATATATTTATAATTTTTC
*
22652167 ATATATTTATGATTTTT
1 ATATATTTATAATTTTT
22652184 AATGATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
ATATATTTATAATTTTTC
Found at i:22652229 original size:45 final size:46
Alignment explanation
Indices: 22652178--22652271 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 46
22652168 TATATTTATG
*
22652178 ATTTTTAATGATTTTAAAT-AGAAAATACTAGTTTTGCCACATGGC
1 ATTTTTAATGATTTTAAATAAAAAAATACTAGTTTTGCCACATGGC
*
22652223 ATTTTTAATGATTTTAAATAAAAAAAATACTAGTTTTGCCACGTGGC
1 ATTTTTAATGATTTTAAAT-AAAAAAATACTAGTTTTGCCACATGGC
22652270 AT
1 AT
22652272 AATCTTGGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 19 0.42
47 26 0.58
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (46 bp):
ATTTTTAATGATTTTAAATAAAAAAATACTAGTTTTGCCACATGGC
Found at i:22660472 original size:17 final size:18
Alignment explanation
Indices: 22660440--22660474 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
22660430 TATTTTGTAA
22660440 TTTTAAAAAATCATTATTT
1 TTTTAAAAAA-CATTATTT
22660459 TTTTAAAAAA-ATTATT
1 TTTTAAAAAACATTATT
22660475 ATTGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAAAACATTATTT
Found at i:22664028 original size:19 final size:19
Alignment explanation
Indices: 22663997--22664041 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
22663987 GTTTATATTA
*
22663997 ATGTGTG-AATATATGTAT
1 ATGTGTGTAATATATATAT
22664015 ATGTGTGTAATATATATAT
1 ATGTGTGTAATATATATAT
*
22664034 ATATGTGT
1 ATGTGTGT
22664042 GGATCGAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (19 bp):
ATGTGTGTAATATATATAT
Found at i:22664316 original size:41 final size:41
Alignment explanation
Indices: 22664254--22664511 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
22664244 GTTTGGAATT
* *
22664254 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
22664295 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
22664336 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
22664377 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
22664418 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
22664459 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
22664500 GGTGATCCGAAT
1 GGTGATCTGAAT
22664512 ATGATGAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:22664391 original size:82 final size:82
Alignment explanation
Indices: 22664254--22664505 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
22664244 GTTTGGAATT
*
22664254 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
22664319 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
22664336 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
22664401 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
22664418 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
22664483 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
22664500 GGTGAT
1 GGTGAT
22664506 CCGAATATGA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:22671711 original size:19 final size:19
Alignment explanation
Indices: 22671687--22671724 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22671677 TTAATGTGCG
* *
22671687 AATATATGTATATGTGTGT
1 AATATATATATATATGTGT
22671706 AATATATATATATATGTGT
1 AATATATATATATATGTGT
22671725 GGATCGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
AATATATATATATATGTGT
Found at i:22671999 original size:41 final size:41
Alignment explanation
Indices: 22671937--22672194 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
22671927 GTTTGGAATT
* *
22671937 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
22671978 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
22672019 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
22672060 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
22672101 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
22672142 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
22672183 GGTGATCCGAAT
1 GGTGATCTGAAT
22672195 ATGATGAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:22672074 original size:82 final size:82
Alignment explanation
Indices: 22671937--22672188 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
22671927 GTTTGGAATT
*
22671937 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
22672002 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
22672019 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
22672084 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
22672101 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
22672166 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
22672183 GGTGAT
1 GGTGAT
22672189 CCGAATATGA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:22673969 original size:57 final size:57
Alignment explanation
Indices: 22673880--22674011 Score: 219
Period size: 57 Copynumber: 2.3 Consensus size: 57
22673870 ATCCGCTCAC
* *
22673880 CAAAGTCACAACATTCAAGCCAGTAGCTTGAAGATGGAAGTTGATCCCAAACAATAG
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
*
22673937 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAGCAG
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
* *
22673994 CAAAGTCGCGACATTCAA
1 CAAAGTCACAACATTCAA
22674012 CACGGTCTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 70 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (57 bp):
CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
Found at i:22676468 original size:16 final size:15
Alignment explanation
Indices: 22676440--22676482 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
22676430 TCAGTCATGC
22676440 AATACTCAATTCATA
1 AATACTCAATTCATA
*
22676455 AATACATCATTTCATA
1 AATAC-TCAATTCATA
*
22676471 CCATACTCAATT
1 -AATACTCAATT
22676483 TACGAGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 14 0.61
17 4 0.17
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (15 bp):
AATACTCAATTCATA
Found at i:22676804 original size:41 final size:41
Alignment explanation
Indices: 22676675--22676810 Score: 138
Period size: 41 Copynumber: 3.4 Consensus size: 41
22676665 ACTAGTTTGG
* * *
22676675 CACCCAGTGCCTCATC-AAATAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
* ** * *
22676715 CACTCAGTGTCTCATCG-GCTAAACCG-A--AGTAAATTGG
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
* * *
22676752 CACTCAATGTCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
22676793 CACCCAGTGTCTCATCGA
1 CACCCAGTGTCTCATCGA
22676811 CTTGAAGTCG
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 24 0.32
38 6 0.08
39 2 0.03
40 19 0.25
41 25 0.33
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
Found at i:22706233 original size:3 final size:3
Alignment explanation
Indices: 22706218--22706344 Score: 130
Period size: 3 Copynumber: 42.7 Consensus size: 3
22706208 CAATTTAATA
* * * * *
22706218 TAT TAT TAC TAT TAT TAT TAT TAC CAT TAT TAT TAC TAT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
22706266 TAT TAC TAT TAT TAT TAC TAT TTT TGT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
22706314 TAT T-G TAT TAT TAC TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22706345 CATTTTTTTG
Statistics
Matches: 98, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
2 1 0.01
3 97 0.99
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:22706534 original size:3 final size:3
Alignment explanation
Indices: 22706507--22706553 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
22706497 CAAAATTTAG
*
22706507 ATT ATTT ATT ATT -TGT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22706553 A
1 A
22706554 AAACTACCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 1 0.03
3 34 0.87
4 4 0.10
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:22711478 original size:8 final size:8
Alignment explanation
Indices: 22711436--22711460 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22711426 ATATATACTA
22711436 AATAAAAT
1 AATAAAAT
22711444 AATAAAAT
1 AATAAAAT
22711452 AATAAAAT
1 AATAAAAT
22711460 A
1 A
22711461 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:22711484 original size:29 final size:31
Alignment explanation
Indices: 22711433--22711501 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
22711423 TATATATATA
*
22711433 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
22711462 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
22711493 CTAATTAAA
1 CTAATTAAA
22711502 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:22711781 original size:30 final size:30
Alignment explanation
Indices: 22711714--22711781 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
22711704 CACCCTTAAA
* * *
22711714 ATATTTGCACTATTAGTCCTTAAACTTTTT
1 ATATTTACACTATTAGTCCTCAAACTTTTG
22711744 ATATTTACACT-TTAGTCCCTCAAA-TTTTG
1 ATATTTACACTATTAGT-CCTCAAACTTTTG
22711773 AGTATTTAC
1 A-TATTTAC
22711782 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAGTCCTCAAACTTTTG
Found at i:22712927 original size:17 final size:18
Alignment explanation
Indices: 22712892--22712926 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22712882 TCAAAACAGG
22712892 TCGGTTAACCAAAAAAAA
1 TCGGTTAACCAAAAAAAA
22712910 TCGGTTAACCAAAAAAA
1 TCGGTTAACCAAAAAAA
22712927 TAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (18 bp):
TCGGTTAACCAAAAAAAA
Found at i:22717217 original size:9 final size:9
Alignment explanation
Indices: 22717203--22717263 Score: 77
Period size: 9 Copynumber: 6.8 Consensus size: 9
22717193 TTTTCTTTTT
22717203 GTTAATTCG
1 GTTAATTCG
*
22717212 GTTAATTCA
1 GTTAATTCG
*
22717221 GTTAAATCG
1 GTTAATTCG
* *
22717230 TTTAAATCG
1 GTTAATTCG
*
22717239 ATTAATTCG
1 GTTAATTCG
22717248 GTTAATTCG
1 GTTAATTCG
22717257 GTTAATT
1 GTTAATT
22717264 TTTATACTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (9 bp):
GTTAATTCG
Found at i:22717778 original size:12 final size:12
Alignment explanation
Indices: 22717761--22717794 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22717751 ATACAGAAGG
22717761 AGATGCAAGAAC
1 AGATGCAAGAAC
*
22717773 AGATGCAAGCAC
1 AGATGCAAGAAC
*
22717785 AAATGCAAGA
1 AGATGCAAGA
22717795 GCAATTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:22734412 original size:17 final size:18
Alignment explanation
Indices: 22734390--22734423 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22734380 TAGTTGACAT
22734390 AACAAATACAA-AAATAA
1 AACAAATACAACAAATAA
*
22734407 AACAAATCCAACAAATA
1 AACAAATACAACAAATA
22734424 TATATATGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.12
Consensus pattern (18 bp):
AACAAATACAACAAATAA
Done.