Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 55 of 161
Found at i:17179549 original size:21 final size:21
Alignment explanation
Indices: 17179523--17179563 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
17179513 ATGATATTCT
*
17179523 TGTTTGTTTCTCTTGAAAATA
1 TGTTTGTTTCTATTGAAAATA
17179544 TGTTTGTTTCTATTGAAAAT
1 TGTTTGTTTCTATTGAAAAT
17179564 GATCACATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (21 bp):
TGTTTGTTTCTATTGAAAATA
Found at i:17180438 original size:43 final size:43
Alignment explanation
Indices: 17180368--17180491 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
17180358 CACATAGTAC
* * * * * *
17180368 CGTAACAATGCC-ATATCCCAGATATGGTCTTACATGTAATCT
1 CGTATCAATGCCAATAGCCCAGACATGGTCTTACACGAAATCA
*
17180410 CGTATCAATGCCAATAGCCCAGCCATGGTCTTACACGAAATCA
1 CGTATCAATGCCAATAGCCCAGACATGGTCTTACACGAAATCA
* * *
17180453 CATATCGATACCAAT-GTCCCAGACATGGTCTTACACGAA
1 CGTATCAATGCCAATAG-CCCAGACATGGTCTTACACGAA
17180492 GTCTCATAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 12 0.17
43 57 0.83
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
CGTATCAATGCCAATAGCCCAGACATGGTCTTACACGAAATCA
Found at i:17187362 original size:43 final size:43
Alignment explanation
Indices: 17187292--17187460 Score: 139
Period size: 43 Copynumber: 4.0 Consensus size: 43
17187282 CACATAGTAC
* * * * *
17187292 CGTAACAATGCC-ATATCCCAGATATGGTCTTACATGTAAT-A
1 CGTATCAATGCCAATAGCCCAGACATGGTCTTACACGAAATCA
*
17187333 TCGTATCAATGCCAATAGCCCAGCCATGGTCTTACACGAAATCA
1 -CGTATCAATGCCAATAGCCCAGACATGGTCTTACACGAAATCA
* * * * *
17187377 CATATCGATACCAAT-GTCCCAGACATGGTCTTACACGAAGTCT
1 CGTATCAATGCCAATAG-CCCAGACATGGTCTTACACGAAATCA
* ** * * *
17187420 CATATTGATGCC-ATATCCCAGATATGGTCTTACACGTAATC
1 CGTATCAATGCCAATAGCCCAGACATGGTCTTACACGAAATC
17187461 TCGGTAACCC
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
42 36 0.34
43 68 0.65
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
CGTATCAATGCCAATAGCCCAGACATGGTCTTACACGAAATCA
Found at i:17188017 original size:14 final size:14
Alignment explanation
Indices: 17187998--17188024 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17187988 CCGAAACTAG
17187998 AAAGAAAAAAAAAC
1 AAAGAAAAAAAAAC
17188012 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
17188025 TGCTCATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:17189420 original size:40 final size:40
Alignment explanation
Indices: 17189102--17189406 Score: 438
Period size: 40 Copynumber: 7.7 Consensus size: 40
17189092 TTGAATGATG
* * * * *
17189102 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
17189142 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17189182 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
17189221 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
17189261 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
17189301 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17189341 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
17189382 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
17189407 AACGAGGAGC
Statistics
Matches: 246, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
39 35 0.14
40 201 0.82
41 10 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17190559 original size:28 final size:28
Alignment explanation
Indices: 17190507--17190560 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
17190497 CCATAACAGC
*
17190507 CCACATTTTTCATTTATTCACAATTTTA
1 CCACATTTATCATTTATTCACAATTTTA
*
17190535 CCACGATTTATCATTT-TTCTCAATTT
1 CCAC-ATTTATCATTTATTCACAATTT
17190561 AGTCCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.26, C:0.22, G:0.02, T:0.50
Consensus pattern (28 bp):
CCACATTTATCATTTATTCACAATTTTA
Found at i:17192710 original size:6 final size:6
Alignment explanation
Indices: 17192699--17192724 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17192689 AAAAATCCAA
17192699 TTTCAG TTTCAG TTTCAG TTTCAG TT
1 TTTCAG TTTCAG TTTCAG TTTCAG TT
17192725 GGATCGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (6 bp):
TTTCAG
Found at i:17197535 original size:15 final size:15
Alignment explanation
Indices: 17197511--17197553 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
17197501 AATTCGACAA
17197511 TTAATTTTTCAGTAC
1 TTAATTTTTCAGTAC
* **
17197526 TTATTTTTTCAACAC
1 TTAATTTTTCAGTAC
17197541 TTAATTTTTCAGT
1 TTAATTTTTCAGT
17197554 TTATCAAACA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.56
Consensus pattern (15 bp):
TTAATTTTTCAGTAC
Found at i:17200630 original size:5 final size:6
Alignment explanation
Indices: 17200612--17200638 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17200602 TCCTCCTTCT
17200612 CCTCCC CCTCCC CCTCCC CCTCCC CCT
1 CCTCCC CCTCCC CCTCCC CCTCCC CCT
17200639 TTCTTTCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTCCC
Found at i:17208862 original size:9 final size:9
Alignment explanation
Indices: 17208848--17208923 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
17208838 TTTAGTTAAA
17208848 AATTAACCG
1 AATTAACCG
*
17208857 AATTAACTG
1 AATTAACCG
17208866 AATT-ACTCG
1 AATTAAC-CG
*
17208875 AATTAACTG
1 AATTAACCG
*
17208884 TATTAACCG
1 AATTAACCG
17208893 AATT-ACCTG
1 AATTAACC-G
*
17208902 AATTAACCA
1 AATTAACCG
17208911 AATTAACCG
1 AATTAACCG
17208920 AATT
1 AATT
17208924 GAATCACTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 5 0.09
9 45 0.82
10 5 0.09
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTAACCG
Found at i:17208888 original size:27 final size:27
Alignment explanation
Indices: 17208848--17208923 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
17208838 TTTAGTTAAA
*
17208848 AATTAACCGAATTAACTGAATTA-CTCG
1 AATTAACCGAATTAACCGAATTACCT-G
* *
17208875 AATTAACTGTATTAACCGAATTACCTG
1 AATTAACCGAATTAACCGAATTACCTG
*
17208902 AATTAACCAAATTAACCGAATT
1 AATTAACCGAATTAACCGAATT
17208924 GAATCACTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCTG
Found at i:17209025 original size:18 final size:18
Alignment explanation
Indices: 17209002--17209045 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
17208992 AATTTTTATG
17209002 ATTGGGTTGGGTTAGG-TA
1 ATTGGGTTGGGTT-GGATA
17209020 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
17209038 CTTGGGTT
1 ATTGGGTT
17209046 TGGATTGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:17215165 original size:21 final size:21
Alignment explanation
Indices: 17215139--17215197 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
17215129 AGGTGGATTG
17215139 GCTCTTACGAGCTTCTATTAA
1 GCTCTTACGAGCTTCTATTAA
* * **
17215160 GCTCTTACGAGATTCTGTTTC
1 GCTCTTACGAGCTTCTATTAA
17215181 GCT-TT-CGAGCTTCTATT
1 GCTCTTACGAGCTTCTATT
17215198 GGAGTATTCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 10 0.31
20 2 0.06
21 20 0.62
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (21 bp):
GCTCTTACGAGCTTCTATTAA
Found at i:17221175 original size:31 final size:31
Alignment explanation
Indices: 17221140--17221204 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
17221130 ACAGCCCAAG
*
17221140 GACTTAAGTAAAAACTTTTGAATAGTTCAGT
1 GACTTAAATAAAAACTTTTGAATAGTTCAGT
* * * *
17221171 GACTTAAATGAAAATTTTTTAATAGTTTAGT
1 GACTTAAATAAAAACTTTTGAATAGTTCAGT
17221202 GAC
1 GAC
17221205 CAAAATGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (31 bp):
GACTTAAATAAAAACTTTTGAATAGTTCAGT
Found at i:17221211 original size:31 final size:31
Alignment explanation
Indices: 17221150--17221211 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
17221140 GACTTAAGTA
**
17221150 AAAACTTTTGAATAGTTCAGTGACTTAAATG
1 AAAACTTTTGAATAGTTCAGTGACCAAAATG
* * *
17221181 AAAATTTTTTAATAGTTTAGTGACCAAAATG
1 AAAACTTTTGAATAGTTCAGTGACCAAAATG
17221212 TAACTACACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (31 bp):
AAAACTTTTGAATAGTTCAGTGACCAAAATG
Found at i:17222250 original size:50 final size:50
Alignment explanation
Indices: 17222196--17222302 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
17222186 CTTTACTAAG
* * *
17222196 GGAATGTCGTAACCATAGAAG-CAGTAACTTGATGTCACAACTTCAGTAGA
1 GGAATGTCATAACCAT-GAAGCCAATAACTTGATGTCACAACTTCAATAGA
* * * * *
17222246 GGAATGCCATAACCATGGAGCCAATAGCTTGATGTCACGACTTCAATAGG
1 GGAATGTCATAACCATGAAGCCAATAACTTGATGTCACAACTTCAATAGA
17222296 GGAATGT
1 GGAATGT
17222303 TGTGATGATG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 3 0.06
50 44 0.94
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (50 bp):
GGAATGTCATAACCATGAAGCCAATAACTTGATGTCACAACTTCAATAGA
Found at i:17225365 original size:13 final size:13
Alignment explanation
Indices: 17225347--17225393 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
17225337 CTAATCTCTG
17225347 TTTCGATTTTTCC
1 TTTCGATTTTTCC
* * *
17225360 TTTCGATCTCTCTG
1 TTTCGATTTTTC-C
17225374 TTTCGATTTTTCC
1 TTTCGATTTTTCC
17225387 TTTCGAT
1 TTTCGAT
17225394 CTCGCAAGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.09, C:0.23, G:0.11, T:0.57
Consensus pattern (13 bp):
TTTCGATTTTTCC
Found at i:17225376 original size:27 final size:27
Alignment explanation
Indices: 17225341--17225396 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
17225331 ACCATTCTAA
17225341 TCTCTGTTTCGATTTTTCCTTTCGATC
1 TCTCTGTTTCGATTTTTCCTTTCGATC
17225368 TCTCTGTTTCGATTTTTCCTTTCGATC
1 TCTCTGTTTCGATTTTTCCTTTCGATC
17225395 TC
1 TC
17225397 GCAAGTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.07, C:0.27, G:0.11, T:0.55
Consensus pattern (27 bp):
TCTCTGTTTCGATTTTTCCTTTCGATC
Found at i:17234613 original size:23 final size:23
Alignment explanation
Indices: 17234587--17234635 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17234577 TATAATTAGG
* *
17234587 TTAACTTTTTAAATATATTAATT
1 TTAAATTTATAAATATATTAATT
* *
17234610 TTAAATTTATAATTATATTTATT
1 TTAAATTTATAAATATATTAATT
17234633 TTA
1 TTA
17234636 TTGATGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTAAATTTATAAATATATTAATT
Found at i:17242466 original size:42 final size:41
Alignment explanation
Indices: 17242402--17242483 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 41
17242392 CTCTTGATTT
17242402 GCATCTATATCTTCAGCCACATTTAAAGCATAAGCAACTAG
1 GCATCTATATCTTCAGCCACATTTAAAGCATAAGCAACTAG
*
17242443 NGCATTTATATCTTCAGCCACATTTAAAGCATAAGCAACTA
1 -GCATCTATATCTTCAGCCACATTTAAAGCATAAGCAACTA
17242484 AATCAGCCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.28
Consensus pattern (41 bp):
GCATCTATATCTTCAGCCACATTTAAAGCATAAGCAACTAG
Found at i:17246494 original size:42 final size:42
Alignment explanation
Indices: 17246427--17246529 Score: 170
Period size: 42 Copynumber: 2.5 Consensus size: 42
17246417 AAGCCATACA
* *
17246427 CCCGTGTTCCAGGTCGTGTACCCTTCGAAATAGCCTCACACG
1 CCCGTGTGCCAGGCCGTGTACCCTTCGAAATAGCCTCACACG
* *
17246469 CCTGTGTGCCAGGCCGTGTACCCTTCGAAATAGCGTCACACG
1 CCCGTGTGCCAGGCCGTGTACCCTTCGAAATAGCCTCACACG
17246511 CCCGTGTGCCAGGCCGTGT
1 CCCGTGTGCCAGGCCGTGT
17246530 GTTAGGCCGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.17, C:0.35, G:0.26, T:0.22
Consensus pattern (42 bp):
CCCGTGTGCCAGGCCGTGTACCCTTCGAAATAGCCTCACACG
Found at i:17246890 original size:29 final size:29
Alignment explanation
Indices: 17246857--17246913 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
17246847 ATCCACACTT
17246857 ATATGTACTTAATTTACAATTTAACATTC
1 ATATGTACTTAATTTACAATTTAACATTC
17246886 ATATGTACTTAATTTACAATTTAACATT
1 ATATGTACTTAATTTACAATTTAACATT
17246914 TAGCATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.46
Consensus pattern (29 bp):
ATATGTACTTAATTTACAATTTAACATTC
Found at i:17247814 original size:20 final size:19
Alignment explanation
Indices: 17247784--17247826 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
17247774 CGTTTCCAAA
17247784 ATTTCTTACTTTC-ATTTGC
1 ATTTCTTACTTTCTA-TTGC
17247803 ATTTCATTACTTTCTATTGC
1 ATTTC-TTACTTTCTATTGC
17247823 ATTT
1 ATTT
17247827 ACTTTCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 16 0.73
21 1 0.05
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTCTTACTTTCTATTGC
Found at i:17248462 original size:25 final size:25
Alignment explanation
Indices: 17248418--17248482 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
17248408 ACCCGGGATA
* * *
17248418 GCTCACACAAGTTGTGAATCAGAAT
1 GCTCACACGAGCTGTAAATCAGAAT
17248443 GCTCACACGAGCTGTAAATCAGAAT
1 GCTCACACGAGCTGTAAATCAGAAT
17248468 GCTCACACGAGCTGT
1 GCTCACACGAGCTGT
17248483 GAAAATGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (25 bp):
GCTCACACGAGCTGTAAATCAGAAT
Found at i:17252399 original size:16 final size:16
Alignment explanation
Indices: 17252378--17252415 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
17252368 TTTGGTTCGT
*
17252378 TGTAATGAAATAGAGC
1 TGTAATGAAATAGAAC
*
17252394 TGTAATGGAATAGAAC
1 TGTAATGAAATAGAAC
17252410 TGTAAT
1 TGTAAT
17252416 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (16 bp):
TGTAATGAAATAGAAC
Found at i:17252458 original size:45 final size:44
Alignment explanation
Indices: 17252394--17252489 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
17252384 GAAATAGAGC
*
17252394 TGTAATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTCGAA
*
17252439 TGTAATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTCGAA
1 TGTAATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTCGAA
*
17252483 TGGAATG
1 TGTAATG
17252490 ATGTTCTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.45
45 25 0.53
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTCGAA
Found at i:17253051 original size:23 final size:23
Alignment explanation
Indices: 17253023--17253217 Score: 121
Period size: 23 Copynumber: 8.5 Consensus size: 23
17253013 TTCAGCAATA
17253023 AAACACTTCAATTTACAACATTT
1 AAACACTTCAATTTACAACATTT
* * * * *
17253046 ATACACCTCAA-TTACAGCAATA
1 AAACACTTCAATTTACAACATTT
* * **
17253068 AAACA-TCTCAATTTTCAGCAACT
1 AAACACT-TCAATTTACAACATTT
* * *
17253091 AAACAATTCAATTTGCAGTAC-TTA
1 AAACACTTCAATTTACA--ACATTT
* *
17253115 AAACACTTCAATTTAAAACATTC
1 AAACACTTCAATTTACAACATTT
* *
17253138 AAACACTTCAATTTGCAGCACTTT
1 AAACACTTCAATTTACAACA-TTT
* *
17253162 -AACACTTCAATTCACAGCATTT
1 AAACACTTCAATTTACAACATTT
* * *
17253184 AAATACTTCAATATGCAACACTTT
1 AAACACTTCAATTTACAACA-TTT
17253208 -AACACTTCAA
1 AAACACTTCAA
17253218 ACATGATAAA
Statistics
Matches: 132, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
22 21 0.16
23 90 0.68
24 20 0.15
25 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.31
Consensus pattern (23 bp):
AAACACTTCAATTTACAACATTT
Found at i:17253077 original size:22 final size:21
Alignment explanation
Indices: 17253015--17253080 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
17253005 ATCCAATTTT
17253015 CAGCAATAAAACACTTCAATTTA
1 CAGCAATAAAACAC-TCAA-TTA
* * * *
17253038 CAACATTTATACACCTCAATTA
1 CAGCAATAAAACA-CTCAATTA
17253060 CAGCAATAAAACATCTCAATT
1 CAGCAATAAAACA-CTCAATT
17253081 TTCAGCAACT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
22 19 0.58
23 13 0.39
24 1 0.03
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.27
Consensus pattern (21 bp):
CAGCAATAAAACACTCAATTA
Found at i:17253192 original size:46 final size:46
Alignment explanation
Indices: 17253091--17253217 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
17253081 TTCAGCAACT
* * * *
17253091 AAACAATTCAATTTGCAGTACTTAAAACACTTCAATTTAAAACATTC
1 AAACACTTCAATTTGCAGCACTT-TAACACTTCAATTCAAAACATTC
* * *
17253138 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTCACAGCATTT
1 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTCAAAACATTC
* * *
17253184 AAATACTTCAATATGCAACACTTTAACACTTCAA
1 AAACACTTCAATTTGCAGCACTTTAACACTTCAA
17253218 ACATGATAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
46 49 0.70
47 21 0.30
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (46 bp):
AAACACTTCAATTTGCAGCACTTTAACACTTCAATTCAAAACATTC
Found at i:17258122 original size:45 final size:46
Alignment explanation
Indices: 17258040--17258137 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 46
17258030 TTTGAGTACT
* *
17258040 TCTGATC-AGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAACTGATAAGTGGTAGCTCTAGCTACACTTA
17258085 TCTGATCAAGTGACAAACTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAACTGATAAGTGGTAGCTCTAGCTACACTTA
*
17258130 TCTAATCA
1 TCTGATCA
17258138 GGGACAAGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 26 0.53
46 23 0.47
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAACTGATAAGTGGTAGCTCTAGCTACACTTA
Found at i:17260792 original size:21 final size:21
Alignment explanation
Indices: 17260766--17260810 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
17260756 TTTGATGTTA
17260766 GATTTTCATCTTTTATAAAGT
1 GATTTTCATCTTTTATAAAGT
17260787 GATTTTCATCTTTTATAAAGT
1 GATTTTCATCTTTTATAAAGT
17260808 GAT
1 GAT
17260811 GTTTAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (21 bp):
GATTTTCATCTTTTATAAAGT
Found at i:17261467 original size:43 final size:43
Alignment explanation
Indices: 17261369--17261524 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
17261359 TAGGGTTACC
* * *
17261369 GAGATTACGTGTAAGACCATACCTGGGATA-TGGCATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGACATTGGCATCGATAT
*
17261411 GAGAATT-CATGTAAGACCATGTCTGGGACATTGGCATCGATAT
1 GAG-ATTACATGTAAGACCATATCTGGGACATTGGCATCGATAT
* * * * *
17261454 GTGATTTCGTGTAAGACCATAGT-TGGG-CTATTGGCATCAATAC
1 GAGATTACATGTAAGACCATA-TCTGGGAC-ATTGGCATCGATAT
17261497 GAGATTACATGTAAGACCATATCTGGGA
1 GAGATTACATGTAAGACCATATCTGGGA
17261525 TATGACATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 27 0.28
43 67 0.71
44 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
GAGATTACATGTAAGACCATATCTGGGACATTGGCATCGATAT
Found at i:17263405 original size:52 final size:52
Alignment explanation
Indices: 17263338--17263529 Score: 240
Period size: 52 Copynumber: 3.6 Consensus size: 52
17263328 GCTACATGAT
17263338 AATCGATTTAAACATATAAACAATTGATTCAAAAGAAGTATTCCAACATAAC
1 AATCGATTTAAACATATAAACAATTGATTCAAAAGAAGTATTCCAACATAAC
** * * * *
17263390 AATTTATTTAAACATATAAACAGTTTATTTAAAAGAAGCAATATTCTAACATAAC
1 AATCGATTTAAACATATAAACAATTGATTCAAAAGAAG---TATTCCAACATAAC
* ** * *
17263445 AGTCGATTTAAACATATAAACAATCAATTCAAAAGTAGTATTCCAACATGAC
1 AATCGATTTAAACATATAAACAATTGATTCAAAAGAAGTATTCCAACATAAC
* *
17263497 AATCGATTTGAACATATAAACAATAGATTCAAA
1 AATCGATTTAAACATATAAACAATTGATTCAAA
17263530 GTTCATAAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
52 74 0.63
55 43 0.37
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (52 bp):
AATCGATTTAAACATATAAACAATTGATTCAAAAGAAGTATTCCAACATAAC
Found at i:17270953 original size:33 final size:33
Alignment explanation
Indices: 17270916--17270983 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
17270906 GATAGACAAG
17270916 TAGAAGTACTTGGAAGAGTGTTACATAAAGAAT
1 TAGAAGTACTTGGAAGAGTGTTACATAAAGAAT
17270949 TAGAAGTACTTGGAAGAGTGTTACATAAAGAAT
1 TAGAAGTACTTGGAAGAGTGTTACATAAAGAAT
17270982 TA
1 TA
17270984 ACTTTTTGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.28
Consensus pattern (33 bp):
TAGAAGTACTTGGAAGAGTGTTACATAAAGAAT
Found at i:17273641 original size:31 final size:31
Alignment explanation
Indices: 17273606--17273720 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
17273596 GTATATGTTT
* *
17273606 TATACATTGTTGAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATGGA
*
17273637 TATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGTCGAATTTGATTTGTATATGGA
*
17273668 TATACATTGTCGAATTTGATTCGTATATGGA
1 TATACATTGTCGAATTTGATTTGTATATGGA
* *
17273699 TATATATTGCCGAA-TTGATTTG
1 TATACATTGTCGAATTTGATTTG
17273721 AGCATTGGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
30 7 0.09
31 69 0.91
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (31 bp):
TATACATTGTCGAATTTGATTTGTATATGGA
Found at i:17274202 original size:78 final size:78
Alignment explanation
Indices: 17274073--17274228 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
17274063 GAAAAGACAA
*
17274073 CGTATGATCATGTTGAAAGGATACAGGTAGGTACGAAAAATTCATGAGTAATGAAATCGATGTAT
1 CGTATGATCATGTTCAAAGGATACAGGTAGGTACGAAAAATTCATGAGTAATGAAATCGATGTAT
17274138 ATTGGACATTTTG
66 ATTGGACATTTTG
17274151 CGTATGATCATGTTCAAAGGATACAGGTAGGTACGAAAAATTCATGAGTAATGAAATCGATGTAT
1 CGTATGATCATGTTCAAAGGATACAGGTAGGTACGAAAAATTCATGAGTAATGAAATCGATGTAT
17274216 ATTGGACATTTTG
66 ATTGGACATTTTG
17274229 GCAAGAATGT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (78 bp):
CGTATGATCATGTTCAAAGGATACAGGTAGGTACGAAAAATTCATGAGTAATGAAATCGATGTAT
ATTGGACATTTTG
Found at i:17284267 original size:18 final size:19
Alignment explanation
Indices: 17284244--17284286 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
17284234 AATATTTTGC
*
17284244 ATTTTAATTTT-ACATTAA
1 ATTTTAATTTTCACACTAA
*
17284262 ATTTTAATTTTCACACTAT
1 ATTTTAATTTTCACACTAA
17284281 ATTTTA
1 ATTTTA
17284287 CTTATTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTAATTTTCACACTAA
Found at i:17284786 original size:3 final size:3
Alignment explanation
Indices: 17284778--17284808 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17284768 TTTTCTTTTG
17284778 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
17284809 ACTATCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:17290411 original size:10 final size:10
Alignment explanation
Indices: 17290396--17290445 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 10
17290386 CATTATAATT
17290396 ATTATAAAAA
1 ATTATAAAAA
17290406 ATTAT-AAAA
1 ATTATAAAAA
*
17290415 ATATACAAAAA
1 AT-TATAAAAA
*
17290426 ATT-TTAAAA
1 ATTATAAAAA
17290435 ATTA-AAAAA
1 ATTATAAAAA
17290444 AT
1 AT
17290446 ATTTATTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
9 19 0.58
10 8 0.24
11 6 0.18
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:17290426 original size:20 final size:18
Alignment explanation
Indices: 17290396--17290445 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 18
17290386 CATTATAATT
17290396 ATTATAAAAAATTATAAAA
1 ATTA-AAAAAATTATAAAA
*
17290415 ATATACAAAAAATTTTAAAA
1 AT-TA-AAAAAATTATAAAA
17290435 ATTAAAAAAAT
1 ATTAAAAAAAT
17290446 ATTTATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 17 0.61
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
ATTAAAAAAATTATAAAA
Found at i:17290545 original size:16 final size:17
Alignment explanation
Indices: 17290524--17290556 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
17290514 TTGAAAAAAT
17290524 ATTAAAAATTAT-TAAA
1 ATTAAAAATTATATAAA
17290540 ATTAAAAATTATATAAA
1 ATTAAAAATTATATAAA
17290557 TTGCAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAAAAATTATATAAA
Found at i:17290936 original size:18 final size:18
Alignment explanation
Indices: 17290915--17290964 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
17290905 TTGTAGATAT
17290915 TTATATATTTTTTAAATA
1 TTATATATTTTTTAAATA
* * *
17290933 TTATATATATTTAAAATT
1 TTATATATTTTTTAAATA
*
17290951 TTCTATTATTTTTT
1 TTATA-TATTTTTT
17290965 CAACTTTTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATATTTTTTAAATA
Found at i:17291012 original size:9 final size:9
Alignment explanation
Indices: 17290992--17291040 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
17290982 ATATATTTTC
17290992 ATTTTTAT-
1 ATTTTTATA
17291000 ATTTTTATA
1 ATTTTTATA
17291009 A-TTTTATA
1 ATTTTTATA
17291017 ATTTTTATA
1 ATTTTTATA
* *
17291026 ATTATTATG
1 ATTTTTATA
17291035 ATTTTT
1 ATTTTT
17291041 GTTTTTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
8 16 0.44
9 20 0.56
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:17291046 original size:49 final size:50
Alignment explanation
Indices: 17290969--17291073 Score: 115
Period size: 49 Copynumber: 2.1 Consensus size: 50
17290959 TTTTTTCAAC
*
17290969 TTTTTGTAATTATATATATTTTCATTTTTATATTT-TTATAATTTTATAA
1 TTTTTATAATTATATATATTTTCATTTTTATATTTATTATAATTTTATAA
** * * * * *
17291018 TTTTTATAATTAT-TATGATTTTTGTTTTTGTTTTTATTTTATTTTTATAG
1 TTTTTATAATTATATAT-ATTTTCATTTTTATATTTATTATAATTTTATAA
17291068 TTTTTA
1 TTTTTA
17291074 AATGAAAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 3 0.07
49 26 0.57
50 17 0.37
ACGTcount: A:0.25, C:0.01, G:0.05, T:0.70
Consensus pattern (50 bp):
TTTTTATAATTATATATATTTTCATTTTTATATTTATTATAATTTTATAA
Found at i:17295054 original size:34 final size:34
Alignment explanation
Indices: 17295011--17295079 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
17295001 TTAATTCTTG
17295011 ATAAAATTCATCATTATTACCAACTTGTTCCAAT
1 ATAAAATTCATCATTATTACCAACTTGTTCCAAT
* *
17295045 ATAAAATTCATCATTATTATCAACTTGTTCTAAT
1 ATAAAATTCATCATTATTACCAACTTGTTCCAAT
17295079 A
1 A
17295080 GAATCTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (34 bp):
ATAAAATTCATCATTATTACCAACTTGTTCCAAT
Found at i:17298329 original size:37 final size:37
Alignment explanation
Indices: 17298268--17298413 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
17298258 TACGTATGAT
* *
17298268 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17298303 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17298340 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17298377 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17298414 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:17298430 original size:46 final size:46
Alignment explanation
Indices: 17298377--17298645 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
17298367 TAAGTGTAGC
* **
17298377 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
17298423 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17298469 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
17298521 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
17298567 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17298619 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17298646 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:17298496 original size:52 final size:52
Alignment explanation
Indices: 17298420--17298639 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
17298410 TAGCTAAAGC
* *
17298420 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17298473 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17298525 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
17298571 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
17298623 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
17298640 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:17298542 original size:98 final size:98
Alignment explanation
Indices: 17298377--17298645 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
17298367 TAAGTGTAGC
* * *
17298377 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
17298442 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
17298476 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
17298541 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
17298574 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
17298639 GATCAGA
66 GATCAGA
17298646 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:17301826 original size:49 final size:49
Alignment explanation
Indices: 17301771--17301916 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
17301761 TTCGTTTTCT
* *
17301771 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
17301820 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
17301869 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
17301917 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:17303230 original size:37 final size:37
Alignment explanation
Indices: 17303169--17303314 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
17303159 TACGTATGAT
* *
17303169 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17303204 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17303241 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17303278 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17303315 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:17303331 original size:46 final size:46
Alignment explanation
Indices: 17303278--17303546 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
17303268 TAAGTGTAGC
* **
17303278 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
17303324 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17303370 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
17303422 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
17303468 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17303520 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17303547 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:17303397 original size:52 final size:52
Alignment explanation
Indices: 17303321--17303540 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
17303311 TAGCTAAAGC
* *
17303321 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17303374 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17303426 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
17303472 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
17303524 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
17303541 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:17303443 original size:98 final size:98
Alignment explanation
Indices: 17303278--17303546 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
17303268 TAAGTGTAGC
* * *
17303278 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
17303343 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
17303377 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
17303442 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
17303475 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
17303540 GATCAGA
66 GATCAGA
17303547 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:17309877 original size:124 final size:118
Alignment explanation
Indices: 17309724--17309971 Score: 322
Period size: 124 Copynumber: 2.1 Consensus size: 118
17309714 TAATTTGAAA
* * *
17309724 TTAATTAAACTGTTGACAAATAATATGGTAATTCAAT-TTATTTTAATTGGATGGTATCACAATG
1 TTAATTAAACGGTTGACAAATAATATGGTAA-TCAATCTTATTTTAATTGGATGGCATCACAATA
* * *
17309788 TTCTTCAGATGAACCTGTTGGTGAAATGTCAATAGGAGCTAAATACATT-AATTTGATTAT
65 TTATTCAAATGAACCTCTTGGTGAAATG-C--TA--AG-TAAATACATTAAATTT-ATTAT
*
17309848 TTAATTAAACGGTTGA-AATATAATATGGTAATCCATCTTATTTTAATTGGATGGCATCACAATA
1 TTAATTAAACGGTTGACAA-ATAATATGGTAATCAATCTTATTTTAATTGGATGGCATCACAATA
*
17309912 TTATTCAAATGAACCTCTTTGTGAAATGCTAAGTAAATACATTAAATTTATTAT
65 TTATTCAAATGAACCTCTTGGTGAAATGCTAAGTAAATACATTAAATTTATTAT
17309966 TTAATT
1 TTAATT
17309972 TGCTATTGCA
Statistics
Matches: 113, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
118 21 0.19
119 7 0.06
121 2 0.02
123 7 0.06
124 76 0.67
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (118 bp):
TTAATTAAACGGTTGACAAATAATATGGTAATCAATCTTATTTTAATTGGATGGCATCACAATAT
TATTCAAATGAACCTCTTGGTGAAATGCTAAGTAAATACATTAAATTTATTAT
Found at i:17317047 original size:29 final size:28
Alignment explanation
Indices: 17317015--17317075 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
17317005 AAAAAGCCCT
17317015 TTTTTTAAAAATTTACCGAAATGGACCA
1 TTTTTTAAAAATTTACCGAAATGGACCA
** * *
17317043 CTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTTAAAAATTTACCGAAATGGACCA
17317072 TTTT
1 TTTT
17317076 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (28 bp):
TTTTTTAAAAATTTACCGAAATGGACCA
Found at i:17317522 original size:125 final size:125
Alignment explanation
Indices: 17317294--17317575 Score: 401
Period size: 125 Copynumber: 2.3 Consensus size: 125
17317284 TTATTTGGAG
* * ** *
17317294 TTGACATTTCTG-GTCAAATAGTATAAAATCGTTTCTACTAGGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGT
**
17317358 GAAATCGTGCCCTCGTGGATGCGATTTCAGTAAAGTTGGTCATGTAAGAAATAATT-TTTT
65 GAAATCGCACCCTCGTGGATGCGATTTCAGTAAAGTTGGTCATGTAAGAAATAATTATTTT
17317418 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTG
* *
17317482 TGAAATCGCACCCTCGTGGATGCGATTTC-GCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCACCCTCGTGGATGCGATTTCAG-TAAAGTTGGTCATGTAAGAAATAATTATTTT
* *
17317544 TTGACGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
17317576 GCCCTCGTGG
Statistics
Matches: 142, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
124 7 0.05
125 124 0.87
126 11 0.08
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGTG
AAATCGCACCCTCGTGGATGCGATTTCAGTAAAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:17320440 original size:29 final size:29
Alignment explanation
Indices: 17320398--17322408 Score: 2167
Period size: 29 Copynumber: 68.6 Consensus size: 29
17320388 TAATTAAAAT
**
17320398 GGGTTTTTAATTAAATTAGTTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
17320427 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
** *
17320456 GGGTTTTTAATTAAATTAGGTTAGAGTTTA
1 GGGTTTTTAATTAAATTAAATTAG-GGTTA
*
17320486 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
**** *
17320514 GGGTTTAGGGTTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
**
17320543 GGG-------TTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
* *
17320566 AGG-TTTTAATTAAATTATATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* *
17320594 GGGTTTTTAATTAAATTAAACTAGAGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* * ***
17320623 GGATTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17320652 GGGTTTTTAATTAAATTAAATTAAATTAGGGTTA
1 GGG--TTT--TT-AATTAAATTAAATTAGGGTTA
* * * *
17320686 AGATTTTTAATTAAATTAAATGAAGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17320715 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
17320744 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17320773 GGGTTTTTAATTAAATTAAATTAAATTAGGGTTA
1 GGG--TTT--TT-AATTAAATTAAATTAGGGTTA
* * * *
17320807 AGATTTTTAATTAAATTAAATGAAGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17320836 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
17320865 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17320894 GGGTTTTTAATTAAATTAAATTAAATTAGGGTTA
1 GGG--TTT--TT-AATTAAATTAAATTAGGGTTA
*
17320928 GGATTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* * *
17320957 AGGTTTTTAATTAAATTAAACTAGAGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* **
17320986 GGG-TTTTATTTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
*
17321015 GGG-TTTTAATTAAATGAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321043 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* * * ***
17321072 GGATTTTTTATTAAAATGGTTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17321101 GGGTTTTTAATTAAATTAAATTAAATTAGGGTTA
1 GGG--TTT--TT-AATTAAATTAAATTAGGGTTA
*
17321135 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* * ***
17321164 GGATTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17321193 GGGTTTTTAATTAAATTAAATTAAATTAGGGTTA
1 GGG--TTT--TT-AATTAAATTAAATTAGGGTTA
*
17321227 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
17321256 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17321285 GGGTTTTTAGTTAAATTAAATTAAATTAGGGTTA
1 GGG--TTT--TT-AATTAAATTAAATTAGGGTTA
17321319 -GGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321347 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17321376 GGGTTTTTAATTAAATT--A--A--GTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321399 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ** *
17321427 GGGTTTTTATTTAAATTAGGTTAGAGTTTA
1 GGGTTTTTAATTAAATTAAATTAG-GGTTA
*
17321457 GGG-TTTTAATTAAA-TAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* * **
17321484 GGGGTTTTATTTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
*
17321514 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
17321543 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17321572 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321601 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
**
17321630 GGGTTTTTAATTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
*
17321660 GGG-TTTTAATTAAATTAAAGTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* **
17321688 AGGTTTTTAATTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
* *
17321718 -GGATTTTAATTAAATTAATTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321746 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321775 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* *** *
17321804 GGGTTTTTAATTAAAATGGGTCAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17321833 GGGTTTTTAACTAAATTAAATTAAATTAGGGTTA
1 GGG-TTTT---T-AATTAAATTAAATTAGGGTTA
*
17321867 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* *
17321895 GGGTTTTTAATTAAATTAAACTAGGCTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
** *
17321924 GGGTTTTTAATTAAATTAGGTTAGAGTTTA
1 GGGTTTTTAATTAAATTAAATTAG-GGTTA
*
17321954 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321982 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* **
17322011 GGGTTTTTATTTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
*
17322041 GAGTTTTTAATTTAATTAAATTAAATTAGGGTTA
1 G-G--GTT--TTTAATTAAATTAAATTAGGGTTA
17322075 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* * *
17322104 GGGTTTTTCATTAAATTAAACTAGGGTTT
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* *
17322133 GAG-TTTT--TT-AATTAAAAT-GGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17322157 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17322186 GGGTTTTTAATTTAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17322215 GGGTTTTTAATTAAATTAAATTAAATTAGGGTTA
1 GGG--TTT--TT-AATTAAATTAAATTAGGGTTA
* *
17322249 GAGTTTTTAATTAAATTAAATTAAGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17322278 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
17322307 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17322336 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
17322365 GGGTTTTTAATTAAATTAAATTA-GGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
17322393 GGGTTTTTAATCAAAT
1 GGGTTTTTAATTAAAT
17322409 AATATCAAAA
Statistics
Matches: 1675, Mismatches: 225, Indels: 165
0.81 0.11 0.08
Matches are distributed among these distances:
22 26 0.02
23 12 0.01
24 8 0.00
25 13 0.01
26 3 0.00
27 10 0.01
28 148 0.09
29 1139 0.68
30 74 0.04
31 27 0.02
32 21 0.01
33 20 0.01
34 156 0.09
35 18 0.01
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (29 bp):
GGGTTTTTAATTAAATTAAATTAGGGTTA
Found at i:17320559 original size:80 final size:80
Alignment explanation
Indices: 17320466--17320624 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 80
17320456 GGGTTTTTAA
* **
17320466 TTAAATTAGGTTAGAGTTTAGGGTTTTAATTAAATTAAACTAGGGTTAGGGTTTAGGGTTAAATT
1 TTAAATTAGGTTAGAGTTTAAGGTTTTAATTAAATTAAACTAGGGTTAGGGTTTAGAATTAAATT
*
17320531 AAACTAGGGTTAGGG
66 AAACTAGAGTTAGGG
* * * **
17320546 TTAAATTAGGTTAGGGTTTAAGGTTTTAATTAAATTATATTAGGGTTAGGGTTTTTAATTAAATT
1 TTAAATTAGGTTAGAGTTTAAGGTTTTAATTAAATTAAACTAGGGTTAGGGTTTAGAATTAAATT
17320611 AAACTAGAGTTAGG
66 AAACTAGAGTTAGG
17320625 ATTTTTAATT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.33, C:0.02, G:0.25, T:0.40
Consensus pattern (80 bp):
TTAAATTAGGTTAGAGTTTAAGGTTTTAATTAAATTAAACTAGGGTTAGGGTTTAGAATTAAATT
AAACTAGAGTTAGGG
Found at i:17320560 original size:22 final size:22
Alignment explanation
Indices: 17320500--17320563 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
17320490 TTTAATTAAA
*
17320500 TTAAACTAGGGTTAGGGTTTAGGG
1 TTAAATTA-GGTTAGGG-TTAGGG
***
17320524 TTAAATTAAACTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
17320546 TTAAATTAGGTTAGGGTT
1 TTAAATTAGGTTAGGGTT
17320564 TAAGGTTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 21 0.64
23 5 0.15
24 7 0.21
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.36
Consensus pattern (22 bp):
TTAAATTAGGTTAGGGTTAGGG
Found at i:17320589 original size:45 final size:46
Alignment explanation
Indices: 17320500--17320593 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
17320490 TTTAATTAAA
*
17320500 TTAAACTAGGGTTAGGGTTTAGGGTTAAATTAAACTAGGGTTAGGG
1 TTAAACTAGGGTTAGGGTTTAGGGTTAAATTAAACTAGGATTAGGG
* * * * *
17320546 TTAAATTA-GGTTAGGGTTTAAGGTTTTAATTAAATTA-TATTAGGG
1 TTAAACTAGGGTTAGGGTTT-AGGGTTAAATTAAACTAGGATTAGGG
17320591 TTA
1 TTA
17320594 GGGTTTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
45 20 0.49
46 21 0.51
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (46 bp):
TTAAACTAGGGTTAGGGTTTAGGGTTAAATTAAACTAGGATTAGGG
Found at i:17320694 original size:121 final size:120
Alignment explanation
Indices: 17320398--17322408 Score: 1983
Period size: 121 Copynumber: 17.1 Consensus size: 120
17320388 TAATTAAAAT
** ***
17320398 GGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATT-A--AAA-TGGGTTAGGGTTAGGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGGG
** * *
17320459 TTTTTAATTAAATTAGGTTAGAGTTTAGGG-TTTTAATTAAATTAAACTAGGGTTA
66 TTTTTAATTAAATTAAATTAG-GGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
**** * ** *
17320514 GGGTTTAGGGTTAAATTAAACTAGGGTTAGGG-----------TTAAATTAGGTTAGGGTTTAAG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGG-TTAGG
* * *
17320568 G-TTTTAATTAAATTATATTAGGGTTAGGGTTTTTAATTAAATTAAACTAGAGTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
* * *** *
17320623 GGATTTTTAATTAAAATGGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAAATTAGGGTTAAG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATT-AATTAAATTAAATTAGGGTTAGG
* * * *
17320688 ATTTTTAATTAAATTAAATGAAGGTTAGGGTTTTTAATTAAATTAAACTAGGGTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
* *** *
17320744 GGGTTTTTAATTAAAATGGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAAATTAGGGTTAAG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATT-AATTAAATTAAATTAGGGTTAGG
* * * *
17320809 ATTTTTAATTAAATTAAATGAAGGTTAGGGTTTTTAATTAAATTAAACTAGGGTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
17320865 GGGTTTTTAATTAAAATGGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAAATTAGGGTTAGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATT-AATTAAATTAAATTAGGGTTAGG
* * * *
17320930 ATTTTTAATTAAATTAAATTAGGGTTAAGGTTTTTAATTAAATTAAACTAGAGTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
* ** *
17320986 GGG-TTTTATTTAAATTAGGTTAGGGTTTAGGG---TT--TTAATTAAATGAAATTAGGGTTAGG
1 GGGTTTTTAATTAAATTAAATTAGGG-TTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGG
* * * * ***
17321045 GTTTTTAATTAAATTAAACTAGGGTTAGGATTTTTTATTAAAATGGTTTAGGGTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321101 GGGTTTTTAATTAAATTAAATTAAATTAGGGTTAGGG--TTT--TTAATTAAATTAAACTAGGGT
1 GGG--TTT--TT-AATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGT
* * ***
17321162 TAGGATTTTTAATTAAAATGGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAAATTAGGGTTA
61 TAGGGTTTTTAATTAAATTAAATTAGGGTTAGGG--TTT--TT-AATTAAATTAAATTAGGGTTA
* ***
17321227 GGGTTTTTAATTAAATTAAACTAGGGTTAGGGTTTTTAATT-A--AAA-TGGGTTAGGGTTAGGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGGG
17321288 TTTTTAGTTAAATTAAATTAAATTAGGGTTA-GGTTTTTAATTAAATTAAATTAGGGTTA
66 --TTT--TT-AATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321347 GGGTTTTTAATTAAATTAAACTAGGGTTAGGG--TTT--TTAATTAAATT--A--A--GTTAGGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGGG
* * ** *
17321402 -TTTTAATTAAATTAAACTAGGGTTAGGGTTTTTATTTAAATTAGGTTAGAGTTTA
66 TTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAG-GGTTA
* * **
17321457 GGG-TTTTAATTAAA-TAAACTAGGGTTAGGGGTTTT-A-T--TTAAATTAGGTTAGGGTTTAGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGG-TTAGG
* * ***
17321516 GTTTTTAATTAAATTAAACTAGGGTTAGGGTTTTTAATTAAAATGGGTTAGGGTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
*
17321572 GGGTTTTTAATTAAATTAAATTAGGGTTAGGG--TTT--TTAATTAAATTAAACTAGGGTTAGGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGGG
** *
17321633 TTTTTAATTAAATTAGGTTAGGGTTTAGGG-TTTTAATTAAATTAAAGTAGGGTTA
66 TTTTTAATTAAATTAAATTAGGG-TTAGGGTTTTTAATTAAATTAAATTAGGGTTA
* ** * *
17321688 AGGTTTTTAATTAAATTAGGTTAGGGTTTA-GG--ATT--TTAATTAAATTAATTTAGGGTTAGG
1 GGGTTTTTAATTAAATTAAATTAGGG-TTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGG
* *
17321748 GTTTTTAATTAAATTAAACTAGGGTTAGGGTTTTTAATTAAATTAAACTAGGGTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
* *** * *
17321804 GGGTTTTTAATTAAAATGGGTCAGGGTTAGGGTTTTTAACTAAATTAAATTAAATTAGGGTTAGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAA-TTAATTAAATTAAATTAGGGTTAGG
* * *
17321869 G-TTTTAATTAAATTAAACTAGGGTTAGGGTTTTTAATTAAATTAAACTAGGCTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
** * *
17321924 GGGTTTTTAATTAAATTAGGTTAGAGTTTAGGG---TT--TTAATTAAATTAAACTAGGGTTAGG
1 GGGTTTTTAATTAAATTAAATTAG-GGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGG
* * **
17321984 GTTTTTAATTAAATTAAACTAGGGTTAGGGTTTTTATTTAAATTAGGTTAGGGTTTA
65 GTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGG-TTA
*
17322041 GAGTTTTTAATTTAATTAAATTAAATTAGGGTTAGGG--TTT--TTAATTAAATTAAATTAGGGT
1 G-G--GTT--TTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGT
* * * * *
17322102 TAGGGTTTTTCATTAAATTAAACTAGGGTTTGAG-TTTT--TT-AATTAAAAT-GGGTTA
61 TAGGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
17322157 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAA-T--TT-AATTAAATTAGGGTTAGGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGGG
* *
17322218 TTTTTAATTAAATTAAATTAAATTAGGGTTAGAGTTTTTAATTAAATTAAATTAAGGTTA
66 --TTT--TT-AATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
17322278 GGGTTTTTAATTAAATTAAACTAGGGTTAGGGTTTTTAATT-A--AAA-TGGGTTAGGGTTAGGG
1 GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGGG
17322339 TTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTA-GGTTA
66 TTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
*
17322393 GGGTTTTTAATCAAAT
1 GGGTTTTTAATTAAAT
17322409 AATATCAAAA
Statistics
Matches: 1645, Mismatches: 153, Indels: 195
0.83 0.08 0.10
Matches are distributed among these distances:
108 53 0.03
109 106 0.06
110 16 0.01
111 48 0.03
112 3 0.00
113 8 0.00
114 9 0.01
115 143 0.09
116 366 0.22
117 51 0.03
118 18 0.01
119 10 0.01
120 170 0.10
121 506 0.31
122 78 0.05
123 12 0.01
124 4 0.00
125 8 0.00
126 36 0.02
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (120 bp):
GGGTTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAATTAAATTAAATTAGGGTTAGGG
TTTTTAATTAAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGGTTA
Found at i:17327930 original size:24 final size:24
Alignment explanation
Indices: 17327898--17327956 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
17327888 AAATTAAAAA
17327898 TATATATTATAATATTTACTTAAG
1 TATATATTATAATATTTACTTAAG
17327922 TATATATTATAATATTTACTTAAG
1 TATATATTATAATATTTACTTAAG
17327946 TATATATTATA
1 TATATATTATA
17327957 TTATATTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (24 bp):
TATATATTATAATATTTACTTAAG
Found at i:17327958 original size:5 final size:5
Alignment explanation
Indices: 17327948--17328016 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
17327938 TACTTAAGTA
17327948 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
17327998 TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATA
17328017 ATAATAAAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:17330174 original size:31 final size:31
Alignment explanation
Indices: 17330139--17330200 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
17330129 TTCATACTTA
17330139 GCCATTTTAAAAACCATTCATCATCAGATAC
1 GCCATTTTAAAAACCATTCATCATCAGATAC
*
17330170 GCCATTTTAACAACCATTCATCATCAGATAC
1 GCCATTTTAAAAACCATTCATCATCAGATAC
17330201 TTACATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (31 bp):
GCCATTTTAAAAACCATTCATCATCAGATAC
Found at i:17330895 original size:50 final size:50
Alignment explanation
Indices: 17330723--17330906 Score: 224
Period size: 50 Copynumber: 3.7 Consensus size: 50
17330713 TAATAACATT
** * ** * *
17330723 CATGTCCCAGACACAGTCTTACATGGGATATTCTCATATCGGTGCCCATGC
1 CATGTCCCAGACATGGTCTTACGTGGGA-CCTCTCATCTCGGTGCCAATGC
* * * * *
17330774 CATGTCCCAGACATGGTCTTATGGGGGACTTCTCATCTCGGTGCCAACGT
1 CATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGGTGCCAATGC
* *
17330824 CATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCGGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGGTGCCAATGC
*
17330874 CATGTCCTAGACATGGTCTTACGTGGGACCTCT
1 CATGTCCCAGACATGGTCTTACGTGGGACCTCT
17330907 TTACCCAAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 90 0.80
51 23 0.20
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGGTGCCAATGC
Found at i:17330902 original size:100 final size:101
Alignment explanation
Indices: 17330722--17330902 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 101
17330712 ATAATAACAT
* *
17330722 TCATGTCCCAGACACAGTCTTACATGGGATATTCTCATATCGGTGCCCATGCCATGTCCCAGACA
1 TCATGTCCCAGACACAGTCTTACATGGGATACTCTCATATCGGTGCCAATGCCATGTCCCAGACA
*
17330787 TGGTCTTATGGGGGACTTCTCATCTCGGTGCCAACG
66 TGGTCTTACGGGGGACTTCTCATCTCGGTGCCAACG
** * * * *
17330823 TCATGTCCCAGACATGGTCTTACATGTGA-CCTCTCATCTCGGTGCCAATGCCATGTCCTAGACA
1 TCATGTCCCAGACACAGTCTTACATGGGATACTCTCATATCGGTGCCAATGCCATGTCCCAGACA
*
17330887 TGGTCTTACGTGGGAC
66 TGGTCTTACGGGGGAC
17330903 CTCTTTACCC
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
100 44 0.63
101 26 0.37
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28
Consensus pattern (101 bp):
TCATGTCCCAGACACAGTCTTACATGGGATACTCTCATATCGGTGCCAATGCCATGTCCCAGACA
TGGTCTTACGGGGGACTTCTCATCTCGGTGCCAACG
Found at i:17331278 original size:30 final size:30
Alignment explanation
Indices: 17331244--17331300 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
17331234 CCTTGACTCT
*
17331244 AACTTTGGCAAAATTACGATTTTGCCCTTA
1 AACTTTGACAAAATTACGATTTTGCCCTTA
* * *
17331274 AACTTTTACATAATTACGCTTTTGCCC
1 AACTTTGACAAAATTACGATTTTGCCC
17331301 CAAAGTTCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (30 bp):
AACTTTGACAAAATTACGATTTTGCCCTTA
Found at i:17334456 original size:14 final size:14
Alignment explanation
Indices: 17334435--17334472 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
17334425 TTAGAATGTA
17334435 TATGAATTTTATATG
1 TATGAATTTTAT-TG
*
17334450 T-TGAATTTAATTG
1 TATGAATTTTATTG
17334463 TATGAATTTT
1 TATGAATTTT
17334473 TCCTACTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (14 bp):
TATGAATTTTATTG
Found at i:17334751 original size:41 final size:41
Alignment explanation
Indices: 17334631--17334751 Score: 109
Period size: 41 Copynumber: 3.0 Consensus size: 41
17334621 TTAGTGATAT
* * * * ***
17334631 TCAGGCTTTGTACCTAGCAGGCTTTATGCCGGTG-AGTTTTA
1 TCAGGCTTTATGCCTAGCAGACTTCATGCCGGTGTA-TCAGA
* * *
17334672 TCAGGCTTTATGCCTAGCAGACTTTATGCTGGTTTATCAGA
1 TCAGGCTTTATGCCTAGCAGACTTCATGCCGGTGTATCAGA
* * *
17334713 TCAGGCTTTATGTCTAGCAGGCTTCGTGCCGGTGTATCA
1 TCAGGCTTTATGCCTAGCAGACTTCATGCCGGTGTATCA
17334752 TATCTAGATT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
41 64 0.98
42 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGACTTCATGCCGGTGTATCAGA
Found at i:17338259 original size:50 final size:50
Alignment explanation
Indices: 17338200--17338721 Score: 598
Period size: 50 Copynumber: 10.6 Consensus size: 50
17338190 TGAATGTTCC
* * *
17338200 AGTGTAAGACCATGTCAGGGACATGGCATCGGCATAGACCGAGTAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
* * *
17338250 AGTGTAAGACCATGTCTGGAACATGGCATCGGCACAGACAGAGGAGAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
* * *
17338299 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACCGATGAGTGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
*
17338350 AGTGTAAGACCATGTCTGGGATATGGCATCGGCACAGACCGAGGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
* * * * ** * *
17338400 AGTGTAAGACCATGTCTGGAACATGACATCGACACGGATAGAGGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
* * * *
17338450 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTC-GA--GATGAGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
* * *
17338497 AGTGTAAGACCATGTCTGGAACATGGCATCGGCACAGACCGAGGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
* * * * *
17338547 AGTGTAAGACCATGTCTAGGACATGGCATCAGCTC-GA--GATGAGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
* *
17338594 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
* * * * * *
17338643 CAGTGTAAGACCATGTATGGGACATGGCATCAGCTC-GA--GATGAGTACC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
*
17338691 AATGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
17338722 ACACCGATAT
Statistics
Matches: 397, Mismatches: 65, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
47 109 0.27
48 4 0.01
49 7 0.02
50 277 0.70
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCT
Found at i:17338348 original size:100 final size:97
Alignment explanation
Indices: 17338198--17338721 Score: 672
Period size: 97 Copynumber: 5.3 Consensus size: 97
17338188 AGTGAATGTT
* * * *
17338198 CCAGTGTAAGACCATGTCAGGGACATGGCATCGGCATAGACCGAGTAGTGCTAGTGTAAGACCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGCTAGTGTAAGACCAT
* * * *
17338263 GTCTGGAACATGGCATCGGCACAGACAGAGGAGAG
66 GTCTGGGACATGGCATCGGCTC-G--AGATGAGTG
* * * * *
17338298 TCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACCGATGAGTGCCAGTGTAAGACCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGCTAGTGTAAGACCAT
* * *
17338363 GTCTGGGATATGGCATCGGCACAGACCGAGGAGTG
66 GTCTGGGACATGGCATCGGCTC-GA--GATGAGTG
* * * * * ** *
17338398 CTAGTGTAAGACCATGTCTGGAACATGACATCGACACGGATAGAGGAGAGTTAGTGTAAGACCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGCTAGTGTAAGACCAT
*
17338463 GTTTGGGACATGGCATCGGCTCGAGATGAGTG
66 GTCTGGGACATGGCATCGGCTCGAGATGAGTG
* *
17338495 CCAGTGTAAGACCATGTCTGGAACATGGCATCGGCACAGACCGAGGAGAGTTAGTGTAAGACCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGCTAGTGTAAGACCAT
* *
17338560 GTCTAGGACATGGCATCAGCTCGAGATGAGTG
66 GTCTGGGACATGGCATCGGCTCGAGATGAGTG
*
17338592 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAG-TCAGTGTAAGACCA
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGCT-AGTGTAAGACCA
* * *
17338656 TGTATGGGACATGGCATCAGCTCGAGATGAGTA
65 TGTCTGGGACATGGCATCGGCTCGAGATGAGTG
*
17338689 CCAATGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
17338722 ACACCGATAT
Statistics
Matches: 379, Mismatches: 42, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
96 1 0.00
97 217 0.57
98 1 0.00
99 2 0.01
100 158 0.42
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (97 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGCTAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCTCGAGATGAGTG
Found at i:17345802 original size:11 final size:11
Alignment explanation
Indices: 17345784--17345815 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17345774 ATATTTTGAA
17345784 GCTGTTGATTT
1 GCTGTTGATTT
*
17345795 GTTGTTGATTT
1 GCTGTTGATTT
17345806 GCTGTTGATT
1 GCTGTTGATT
17345816 AAGAGTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.09, C:0.06, G:0.28, T:0.56
Consensus pattern (11 bp):
GCTGTTGATTT
Found at i:17357215 original size:43 final size:42
Alignment explanation
Indices: 17357136--17357217 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
17357126 TTGTGATTTG
* *
17357136 GGTTAGTTTGGGTTTGAAACTGATTCGAGAACCGATTAAGAA
1 GGTTAGTTTGGGTTAGAAACTGATTCAAGAACCGATTAAGAA
* * * *
17357178 GGTTGGTTTAGGGTTAGAAATTGATTCAATAATCGATTAA
1 GGTTAGTTT-GGGTTAGAAACTGATTCAAGAACCGATTAA
17357218 TAGGGTATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 8 0.24
43 25 0.76
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (42 bp):
GGTTAGTTTGGGTTAGAAACTGATTCAAGAACCGATTAAGAA
Found at i:17357452 original size:6 final size:6
Alignment explanation
Indices: 17357443--17357502 Score: 93
Period size: 6 Copynumber: 10.0 Consensus size: 6
17357433 TTCGATTTCA
* *
17357443 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTCG ATTTCG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
*
17357491 ATTTTA ATTTTG
1 ATTTTG ATTTTG
17357503 GTTTAGGGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.63
Consensus pattern (6 bp):
ATTTTG
Found at i:17357457 original size:18 final size:18
Alignment explanation
Indices: 17357431--17357502 Score: 90
Period size: 18 Copynumber: 4.0 Consensus size: 18
17357421 ATTTAGGGTT
*
17357431 ATTTCGATTTCAATTTTG
1 ATTTCGATTTTAATTTTG
* *
17357449 ATTTTGATTTTGATTTTG
1 ATTTCGATTTTAATTTTG
* * *
17357467 ATTTTGATTTTGATTTCG
1 ATTTCGATTTTAATTTTG
17357485 ATTTCGATTTTAATTTTG
1 ATTTCGATTTTAATTTTG
17357503 GTTTAGGGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.19, C:0.06, G:0.14, T:0.61
Consensus pattern (18 bp):
ATTTCGATTTTAATTTTG
Found at i:17357969 original size:15 final size:15
Alignment explanation
Indices: 17357948--17357991 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
17357938 TGAAGAAGAA
17357948 ATGTCTGGTAGTGAC
1 ATGTCTGGTAGTGAC
* *
17357963 GTGTCTGGTAGTGAT
1 ATGTCTGGTAGTGAC
*
17357978 ATATCTGGTAGTGA
1 ATGTCTGGTAGTGA
17357992 TGCAGTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.34, T:0.36
Consensus pattern (15 bp):
ATGTCTGGTAGTGAC
Found at i:17359725 original size:24 final size:25
Alignment explanation
Indices: 17359678--17359727 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
17359668 ATGTTGTTTT
* *
17359678 AGTGAGTGTTTTTTAATATGTATGC
1 AGTGAGTATTTTTTAATATATATGC
17359703 AGTGAGTATTTTTTAATA-ATATGC
1 AGTGAGTATTTTTTAATATATATGC
17359727 A
1 A
17359728 TGTAGTGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (25 bp):
AGTGAGTATTTTTTAATATATATGC
Found at i:17359808 original size:25 final size:26
Alignment explanation
Indices: 17359749--17359841 Score: 100
Period size: 26 Copynumber: 3.5 Consensus size: 26
17359739 TTGGTGTGTA
*
17359749 TGACTATTTTTTTAATATACATGCTGT
1 TGACTA-TTTTTTAATATACATGCTGG
*
17359776 TGACTATTTTTTAATATGCATGC-GG
1 TGACTATTTTTTAATATACATGCTGG
* *
17359801 TGAGTATTTTTTAATAATATGCATG-TAG
1 TGACTATTTTTTAAT-ATA--CATGCTGG
17359829 TGACTATTTTTTA
1 TGACTATTTTTTA
17359842 GGTGTGTGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
25 15 0.27
26 18 0.32
27 6 0.11
28 17 0.30
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (26 bp):
TGACTATTTTTTAATATACATGCTGG
Found at i:17359831 original size:28 final size:28
Alignment explanation
Indices: 17359749--17359841 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
17359739 TTGGTGTGTA
* *
17359749 TGACTATTTTTT--TAATATACATGCTG
1 TGACTATTTTTTAATAATATGCATGCAG
*
17359775 TTGACTA-TTTTT--TAATATGCATGCGG
1 -TGACTATTTTTTAATAATATGCATGCAG
* *
17359801 TGAGTATTTTTTAATAATATGCATGTAG
1 TGACTATTTTTTAATAATATGCATGCAG
17359829 TGACTATTTTTTA
1 TGACTATTTTTTA
17359842 GGTGTGTGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
25 5 0.09
26 22 0.39
27 6 0.11
28 24 0.42
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (28 bp):
TGACTATTTTTTAATAATATGCATGCAG
Found at i:17360540 original size:21 final size:21
Alignment explanation
Indices: 17360514--17360583 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
17360504 CAAATGGTTG
17360514 CCCCAACTTAGCAACAGGCTA
1 CCCCAACTTAGCAACAGGCTA
* * * *
17360535 CCCCAAATCAGCAA-GGGAGTA
1 CCCCAACTTAGCAACAGG-CTA
*
17360556 CCCCAAC-T--CAACAGGCTG
1 CCCCAACTTAGCAACAGGCTA
17360574 CCCCAACTTA
1 CCCCAACTTA
17360584 CCAAAAAGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 9
0.67 0.17 0.17
Matches are distributed among these distances:
18 11 0.31
19 3 0.08
20 2 0.06
21 20 0.56
ACGTcount: A:0.33, C:0.39, G:0.16, T:0.13
Consensus pattern (21 bp):
CCCCAACTTAGCAACAGGCTA
Found at i:17361024 original size:22 final size:24
Alignment explanation
Indices: 17360994--17361038 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
17360984 TTCTAACATA
*
17360994 TGAGTATTGAGAAA-A-AAATGTG
1 TGAGAATTGAGAAATACAAATGTG
17361016 TGAGAATTGAGAAATACAAATGT
1 TGAGAATTGAGAAATACAAATGT
17361039 TTTTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (24 bp):
TGAGAATTGAGAAATACAAATGTG
Found at i:17362714 original size:24 final size:24
Alignment explanation
Indices: 17362661--17362720 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
17362651 CTAAATAATA
*
17362661 ATATGATAAGTTTAAAATTACAGT
1 ATATGATAAATTTAAAATTACAGT
* * *
17362685 ACATGATAAATTTTAAATTA-GGAT
1 ATATGATAAATTTAAAATTACAG-T
17362709 ATATGATAAATT
1 ATATGATAAATT
17362721 GAAATAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (24 bp):
ATATGATAAATTTAAAATTACAGT
Found at i:17364027 original size:14 final size:15
Alignment explanation
Indices: 17363999--17364036 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17363989 CTGTTATACA
*
17363999 TTTTTATATGTGTTT
1 TTTTTATTTGTGTTT
17364014 TTTTTATTTG-GTTT
1 TTTTTATTTGTGTTT
*
17364028 TATTTATTT
1 TTTTTATTT
17364037 ATTTGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (15 bp):
TTTTTATTTGTGTTT
Found at i:17364606 original size:44 final size:44
Alignment explanation
Indices: 17364533--17365730 Score: 339
Period size: 44 Copynumber: 27.3 Consensus size: 44
17364523 TAGTGGCTTA
* *
17364533 AATCTACTTCC-CTACTACATT-GGGAAGATAAGATTCGCCATCTTC
1 AATCTAC-TCCACTACTGC-TTAGGG-AGATAAGATTCGCAATCTTC
* * *
17364578 GATCTACTCCACTACTGCTTAGGGAGATAAGA-TCTGTAATTTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* * * *
17364622 AACCTACTCCACTGCTGCTTAGGGAGATAAG-GTCTACAATCTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* * * ** * *** *
17364666 AACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAG-TGGCTTA
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTCGCAATCTTC
* * * * **
17364709 AATCTGCTTCC-CTACTACATTAGGAAGATAAGATTCACCGTCTTC
1 AATCTAC-TCCACTACTGC-TTAGGGAGATAAGATTCGCAATCTTC
* ** *
17364754 GATCTACTCCACTACTGCTTAGGGAGATAAGATAT-ATAATTTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGAT-TCGCAATCTTC
* * ** *
17364798 AACCTACTCCACTACTGCTCAGGGAGATAAG-GCCTACAATCTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* * * * * * *** *
17364842 AACCTACTCCGCTGCTGCTCAGGGAGATAAGACTAG-TGGCTTA
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTCGCAATCTTC
* * * **
17364885 AATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTCACCGTCTTC
1 AATCTAC-TCCACTACT-GCTTAGGG-AGATAAGATTCGCAATCTTC
* * *
17364930 GATCTACTCCACTACTGCTTAGGGAGATAAGA-TCTGTAATTTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* * * ** * *
17364974 AA-CTTACTCCACTGCTGCTCAGAGAGATAAG-GCCTACAATTTTC
1 AATC-TACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* * * * ** * *** *
17365018 AACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAG-TGGCTTA
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTCGCAATCTTC
* * * *
17365061 AATCTGCTTCC-CTA-T--TTAGGAAGATAAGATTCACCATCTTC
1 AATCTAC-TCCACTACTGCTTAGGGAGATAAGATTCGCAATCTTC
* * * *
17365102 GATCTGCTCCACTACTGCTTA-GGACGATAAGA-TCTGTAATTTTC
1 AATCTACTCCACTACTGCTTAGGGA-GATAAGATTC-GCAATCTTC
* * * ** *
17365146 AACCTACTCCACTGCTGCTCAGGGAGATAAG-GCCTACAATCTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* * * * ** * *** *
17365190 AACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAG-TGGCTTA
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTCGCAATCTTC
* * *
17365233 AATCTACTTCC-CTACTACCTT-GGGAAGATAAGATTCACCATCTTC
1 AATCTAC-TCCACTACT-GCTTAGGG-AGATAAGATTCGCAATCTTC
* * * * *
17365278 GATCTGCTCCACTACTGCTCAGGGAGATAAGA-TCTGTAATTTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* * * * * * * *
17365322 AACCTACCCCATTGCTGCTCAAGGAGATAAG-GTCTACAATCTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* ** * * * *** *
17365366 AACCTACTCCACTGTTGCTCAGGGAGATAAGGTTAG-TGGCTTA
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTCGCAATCTTC
* * * *
17365409 AATCTGCTTCC-CTACTACATTAGGAAGATAAGATTCGCCATCTTC
1 AATCTAC-TCCACTACTGC-TTAGGGAGATAAGATTCGCAATCTTC
* * * *
17365454 GATCTACTCTACTACTGCTTAGGGAGATAAGA-TCTGTAATTTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAAGATTC-GCAATCTTC
* * * * * ** *
17365498 AACCTACTCCATTGCTACTCAGGGAGATAATGCCT-ACAATCTTC
1 AATCTACTCCACTACTGCTTAGGGAGATAA-GATTCGCAATCTTC
* * * * * *
17365542 AACCTATTCCACTGCTG-TCCAGGGAGATAAGGGTT-ACAATCTTC
1 AATCTACTCCACTACTGCT-TAGGGAGATAA-GATTCGCAATCTTC
* * * * * * *
17365586 AACCTATTCCATTATTGAC-CAGGGAGATAGGACTT-ACAATCTTC
1 AATCTACTCCACTACTG-CTTAGGGAGATAAGA-TTCGCAATCTTC
* * * * **
17365630 AACCTATTCCACTGC--CATCTAGGGAGATAGGATTTACAATCTTC
1 AATCTACTCCACTACTGC-T-TAGGGAGATAAGATTCGCAATCTTC
* * * * * *
17365674 AACCTATTCCACTAATG-TCCAGGGAGATAGGATTCACAATCTTC
1 AATCTACTCCACTACTGCT-TAGGGAGATAAGATTCGCAATCTTC
* *
17365718 AACCTATTCCACT
1 AATCTACTCCACT
17365731 GCTGACCAGG
Statistics
Matches: 869, Mismatches: 223, Indels: 123
0.72 0.18 0.10
Matches are distributed among these distances:
40 15 0.02
41 13 0.01
42 2 0.00
43 82 0.09
44 671 0.77
45 85 0.10
46 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
AATCTACTCCACTACTGCTTAGGGAGATAAGATTCGCAATCTTC
Found at i:17364693 original size:176 final size:176
Alignment explanation
Indices: 17364479--17365573 Score: 1779
Period size: 176 Copynumber: 6.2 Consensus size: 176
17364469 AAGAGAAGAT
* * *
17364479 CTACAATCTTCGACCTACTCCACTGTTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
* *
17364544 CTACTACATTGGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
66 CTACTACATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
* *
17364609 ATCTGTAATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGT
131 ATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGC
17364655 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
*
17364720 CTACTACATTAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
66 CTACTACATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
* * *
17364785 ATATATAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGC
131 ATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGC
* *
17364831 CTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
* * *
17364896 CTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
66 CTACTACATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
* *
17364961 ATCTGTAATTTTCAACTTACTCCACTGCTGCTCAGAGAGATAAGGC
131 ATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGC
* *
17365007 CTACAATTTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
*
17365072 CTA-T---TTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTA-GGACGATAA
66 CTACTACATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGA-GATAA
17365132 GATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGC
130 GATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGC
* *
17365179 CTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
* * * *
17365244 CTACTACCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAG
66 CTACTACATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
* * * *
17365309 ATCTGTAATTTTCAACCTACCCCATTGCTGCTCAAGGAGATAAGGT
131 ATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGC
* *
17365355 CTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGGTTAGTGGCTTAAATCTGCTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
* *
17365420 CTACTACATTAGGAAGATAAGATTCGCCATCTTCGATCTACTCTACTACTGCTTAGGGAGATAAG
66 CTACTACATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
* * *
17365485 ATCTGTAATTTTCAACCTACTCCATTGCTACTCAGGGAGATAATGC
131 ATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGC
*
17365531 CTACAATCTTCAACCTATTCCACTGCTG-TCCAGGGAGATAAGG
1 CTACAATCTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAGG
17365574 GTTACAATCT
Statistics
Matches: 860, Mismatches: 52, Indels: 14
0.93 0.06 0.02
Matches are distributed among these distances:
171 3 0.00
172 160 0.19
173 1 0.00
175 2 0.00
176 691 0.80
177 3 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (176 bp):
CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
CTACTACATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
ATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGC
Found at i:17365324 original size:524 final size:526
Alignment explanation
Indices: 17364479--17365573 Score: 1775
Period size: 524 Copynumber: 2.1 Consensus size: 526
17364469 AAGAGAAGAT
* *
17364479 CTACAATCTTCGACCTACTCCACTGTTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCC
* *
17364544 CTACTACATTGGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
66 CTACT--ATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
* *
17364609 ATCTGTAATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTACT
129 ATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCCTACAATCTTCAACCTACT
*
17364674 CCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACATTAGGAAGATA
194 CCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACATTAGGAAGATA
* *
17364739 AGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATATAATTTTCAACCTA
259 AGATTCACCATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATATATAATTTTCAACCTA
* * *
17364804 CTCCACTACTGCTCAGGGAGATAAGGCCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGA
324 CCCCACTACTGCTCAAGGAGATAAGGCCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
* * *
17364869 TAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATC
389 TAAGACTAGTGGCTTAAATCTGCTTCCCTACTACATTAGGAAGATAAGATTCACCATCTTCGATC
* *
17364934 TACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACTTACTCCACTGCTGCTCAGAGA
454 TACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTACTCAGAGA
17364999 GATAAGGC
519 GATAAGGC
* * *
17365007 CTACAATTTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCC
*
17365072 CTA-T-TTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTA-GGACGATAAGA
66 CTACTATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGA-GATAAGA
17365134 TCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCCTACAATCTTCAACCTACTC
130 TCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCCTACAATCTTCAACCTACTC
* * *
17365199 CGCTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGATAA
195 CACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACATTAGGAAGATAA
* * *
17365264 GATTCACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTAC
260 GATTCACCATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATATATAATTTTCAACCTAC
* * * *
17365329 CCCATTGCTGCTCAAGGAGATAAGGTCTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGAT
325 CCCACTACTGCTCAAGGAGATAAGGCCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGAT
** *
17365394 AAGGTTAGTGGCTTAAATCTGCTTCCCTACTACATTAGGAAGATAAGATTCGCCATCTTCGATCT
390 AAGACTAGTGGCTTAAATCTGCTTCCCTACTACATTAGGAAGATAAGATTCACCATCTTCGATCT
* * *
17365459 ACTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCATTGCTACTCAGGGAG
455 ACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTACTCAGAGAG
*
17365524 ATAATGC
520 ATAAGGC
*
17365531 CTACAATCTTCAACCTATTCCACTGCTG-TCCAGGGAGATAAGG
1 CTACAATCTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAGG
17365574 GTTACAATCT
Statistics
Matches: 524, Mismatches: 41, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
523 4 0.01
524 456 0.87
527 1 0.00
528 63 0.12
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (526 bp):
CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCC
CTACTATTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGAT
CTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCCTACAATCTTCAACCTACTCC
ACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACATTAGGAAGATAAG
ATTCACCATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATATATAATTTTCAACCTACC
CCACTACTGCTCAAGGAGATAAGGCCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATA
AGACTAGTGGCTTAAATCTGCTTCCCTACTACATTAGGAAGATAAGATTCACCATCTTCGATCTA
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTACTCAGAGAGA
TAAGGC
Found at i:17365566 original size:88 final size:88
Alignment explanation
Indices: 17364572--17366038 Score: 755
Period size: 88 Copynumber: 16.7 Consensus size: 88
17364562 AAGATTCGCC
* * * * *
17364572 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGC
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGC
* *
17364637 TGCTTAGGGAGATAAGG-TCTACA
66 TACTCAGGGAGATAAGGCT-TACA
* ** * * *
17364660 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAG-GCTAGT-GGCTTAAATCTGCTTCC-CT
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCT-GTAATCTTCAACCTAC-TCCACT
* * * * *
17364722 ACTACATTAGGAAGATAA-GATTCACC
64 GCTAC-TCAGGGAGATAAGGCTT-ACA
* * * * * * * * *
17364748 GTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATATAATTTTCAACCTACTCCACTAC
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGC
* *
17364813 TGCTCAGGGAGATAAGGCCTACA
66 TACTCAGGGAGATAAGGCTTACA
* ** * * *
17364836 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGA-CTAGT-GGCTTAAATCTGCTTCC-CT
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCT-GTAATCTTCAACCTAC-TCCACT
* * * *
17364898 ACTAC-CTTGGGAAGATAA-GATTCACC
64 GCTACTC-AGGG-AGATAAGGCTT-ACA
* * * * * * *
17364924 GTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACTTACTCCACTGC
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGC
* * *
17364989 TGCTCAGAGAGATAAGGCCTACA
66 TACTCAGGGAGATAAGGCTTACA
* * * ** * * * *
17365012 ATTTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAG-GCTAGT-GGCTTAAATCTGCTTC-C--
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCT-GTAATCTTCAACCTACTCCACTG
* * * * *
17365072 CTATTTAGGAAGATAA-GATTCACC
65 CTACTCAGGGAGATAAGGCTT-ACA
* * * * * *
17365096 ATCTTCGATCTGCTCCACTACTGCTTA-GGACGATAAGATCTGTAATTTTCAACCTACTCCACTG
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGA-GATAAGATCTGTAATCTTCAACCTACTCCACTG
* *
17365160 CTGCTCAGGGAGATAAGGCCTACA
65 CTACTCAGGGAGATAAGGCTTACA
* * ** * *
17365184 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAG-GCTAGT-GGCTTAAATCTACTTCC-CT
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCT-GTAATCTTCAACCTAC-TCCACT
* * * *
17365246 ACTAC-CTTGGGAAGATAA-GATTCACC
64 GCTACTC-AGGG-AGATAAGGCTT-ACA
* * * * * * *
17365272 ATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACCCCATTGC
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGC
* *
17365337 TGCTCAAGGAGATAAGG-TCTACA
66 TACTCAGGGAGATAAGGCT-TACA
* * ** * * *
17365360 ATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGGT-TAGT-GGCTTAAATCTGCTTCC-CT
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCT-GTAATCTTCAACCTAC-TCCACT
* * * * * *
17365422 ACTACATTAGGAAGATAA-GATTCGCC
64 GCTAC-TCAGGGAGATAAGGCTT-ACA
* * * * * * *
17365448 ATCTTCGATCTACTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCATTGC
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGC
* *
17365513 TACTCAGGGAGATAATGCCTACA
66 TACTCAGGGAGATAAGGCTTACA
* * ** * *
17365536 ATCTTCAACCTATTCCACTGCTG-TCCAGGGAGATAAGGGT-TACAATCTTCAACCTATTCCATT
1 ATCTTCAACCTACTCCACTGCTGCT-CAGGGAGATAA-GATCTGTAATCTTCAACCTACTCCACT
**
17365599 ATTGAC-CAGGGAGAT-AGGACTTACA
64 GCT-ACTCAGGGAGATAAGG-CTTACA
* * * ** *
17365624 ATCTTCAACCTATTCCACTGC--CATCTAGGGAGATAGGATTTACAATCTTCAACCTATTCCACT
1 ATCTTCAACCTACTCCACTGCTGC-TC-AGGGAGATAAGATCTGTAATCTTCAACCTACTCCACT
** * *
17365687 AAT-GTCCAGGGAGAT-AGGATTCACA
64 GCTACT-CAGGGAGATAAGGCTT-ACA
* * * *
17365712 ATCTTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGA-CT-TACAATCTTCAACCTATTCCAT
1 ATCTTCAACCTACTCCACTGCTG-CTCAGGGAGATAAGATCTGT--AATCTTCAACCTACTCCAC
*
17365774 TGCTGAC-CAGGGAGAT-AGAACTTACA
63 TGCT-ACTCAGGGAGATAAG-GCTTACA
* * *
17365800 ATCTTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGA-CT-TACAATCTTCAACCTATTCCAC
1 ATCTTCAACCTACTCCACTGCTG-CTCAGGGAGATAAGATCTGT--AATCTTCAACCTACTCCAC
* * *
17365862 TGCT-GTCCAAGGAGAT-AGGATTTACA
63 TGCTACT-CAGGGAGATAAGG-CTTACA
* * * * * ** *
17365888 ATCTTCAACCTATTCCATTGCTG-TCCCGGAAGATAGGAT-TCACAATCTTCAACCTATTCCACT
1 ATCTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAGATCT-GTAATCTTCAACCTACTCCACT
* * *
17365951 ACTGAC-CAAGGAGATAGGGCTTACA
64 GCT-ACTCAGGGAGATAAGGCTTACA
* * * * ** *
17365976 ATCTTCAACCTATTCCACTGCT-ATCCAGGGAGATAGGATTTACAATCTTCAACCTATTCCACT
1 ATCTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACT
17366039 ACTGTCCAGG
Statistics
Matches: 1055, Mismatches: 243, Indels: 162
0.72 0.17 0.11
Matches are distributed among these distances:
83 5 0.00
84 41 0.04
85 11 0.01
86 4 0.00
87 88 0.08
88 822 0.78
89 81 0.08
90 2 0.00
91 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (88 bp):
ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGC
TACTCAGGGAGATAAGGCTTACA
Found at i:17365570 original size:132 final size:131
Alignment explanation
Indices: 17365434--17366036 Score: 627
Period size: 132 Copynumber: 4.6 Consensus size: 131
17365424 TACATTAGGA
* * * * * * * * *
17365434 AGATAAGATTCGCCATCTTCGATCTACTCTACTACTG-CTTAGGGAGATAAGATCTGT-AATTTT
1 AGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC-CAGGGAGATAGGA-CT-TAAATCTT
* *
17365497 CAACCTACTCCATTGCTACTCAGGGAGATA-ATGCCTACAATCTTCAACCTATTCCACTGCTGTC
63 CAACCTATTCCATTGCTACTCAGGGAGATAGAT-CTTACAATCTTCAACCTATTCCACTGCTGTC
17365561 CAGGG
127 CAGGG
* * *
17365566 AGATAAGGGTT-ACAATCTTCAACCTATTCCATTATTGACCAGGGAGATAGGACTTACAATCTTC
1 AGATAA-GATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTA-AATCTTC
* * **
17365630 AACCTATTCCACTGCCA-TCTAGGGAGATAGGAT-TTACAATCTTCAACCTATTCCACTAATGTC
64 AACCTATTCCATTGCTACTC-AGGGAGATA-GATCTTACAATCTTCAACCTATTCCACTGCTGTC
17365693 CAGGG
127 CAGGG
* *
17365698 AGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
1 AGATAAGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTA-AATCTTCA
* *
17365763 ACCTATTCCATTGCTGAC-CAGGGAGATAGAACTTACAATCTTCAACCTATTCCACTGCTGACCA
65 ACCTATTCCATTGCT-ACTCAGGGAGATAGATCTTACAATCTTCAACCTATTCCACTGCTGTCCA
17365827 GGG
129 GGG
* * * * *
17365830 AGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTTACAATCTTC
1 AGATAAGA-TTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTA-AATCTTC
* * * * * *
17365894 AACCTATTCCATTGCT-GTCCCGGAAGATAGGAT-TCACAATCTTCAACCTATTCCACTACTGAC
64 AACCTATTCCATTGCTACT-CAGGGAGATA-GATCTTACAATCTTCAACCTATTCCACTGCTGTC
*
17365957 CAAGG
127 CAGGG
* * * *
17365962 AGATAGGGCTT-ACAATCTTCAACCTATTCCACTGCT-ATCCAGGGAGATAGGATTTACAATCTT
1 AGATA-AGATTCACAATCTTCAACCTATTCCACTACTGA-CCAGGGAGATAGGACTTA-AATCTT
17366025 CAACCTATTCCA
63 CAACCTATTCCA
17366037 CTACTGTCCA
Statistics
Matches: 412, Mismatches: 42, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
130 1 0.00
131 9 0.02
132 388 0.94
133 12 0.03
134 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (131 bp):
AGATAAGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTAAATCTTCAA
CCTATTCCATTGCTACTCAGGGAGATAGATCTTACAATCTTCAACCTATTCCACTGCTGTCCAGG
G
Found at i:17366060 original size:44 final size:44
Alignment explanation
Indices: 17365532--17366061 Score: 756
Period size: 44 Copynumber: 12.0 Consensus size: 44
17365522 AGATAATGCC
*
17365532 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAAGG-GT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGAT-AGGATT
* ** * *
17365576 TACAATCTTCAACCTATTCCATTATTGACCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
** *
17365620 TACAATCTTCAACCTATTCCACTGCCATCTAGGGAGATAGGATT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
**
17365664 TACAATCTTCAACCTATTCCACTAATGTCCAGGGAGATAGGATT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
* * *
17365708 CACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
* * * *
17365752 TACAATCTTCAACCTATTCCATTGCTGACCAGGGAGATAGAACT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
* *
17365796 TACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
*
17365840 TACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
* * *
17365884 TACAATCTTCAACCTATTCCATTGCTGTCCCGGAAGATAGGATT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
* * * * **
17365928 CACAATCTTCAACCTATTCCACTACTGACCAAGGAGATAGGGCT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
*
17365972 TACAATCTTCAACCTATTCCACTGCTATCCAGGGAGATAGGATT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
*
17366016 TACAATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGATT
1 TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
17366060 TA
1 TA
17366062 TAACGTCACT
Statistics
Matches: 432, Mismatches: 53, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
43 3 0.01
44 429 0.99
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
TACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATT
Found at i:17368314 original size:29 final size:30
Alignment explanation
Indices: 17368297--17368378 Score: 50
Period size: 26 Copynumber: 2.8 Consensus size: 30
17368287 ATTTTTATCA
* * * *
17368297 TTTTCATATTTTTA-TTTTGATTTTAATTGA
1 TTTTC-TATTTTGATTTTTTATTTTTATTCA
*
17368327 TTTTCTCTTTTGATTTTTTA--TTT-TTC-
1 TTTTCTATTTTGATTTTTTATTTTTATTCA
17368353 TTTT-TGATTTTGATTTTTTTATTTTT
1 TTTTCT-ATTTTGA-TTTTTTATTTTT
17368379 CTTATTGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
25 1 0.02
26 10 0.24
27 9 0.22
28 2 0.05
29 9 0.22
30 10 0.24
ACGTcount: A:0.15, C:0.05, G:0.06, T:0.74
Consensus pattern (30 bp):
TTTTCTATTTTGATTTTTTATTTTTATTCA
Found at i:17368350 original size:30 final size:30
Alignment explanation
Indices: 17368281--17368377 Score: 73
Period size: 29 Copynumber: 3.4 Consensus size: 30
17368271 TTCTTTTATT
* *
17368281 TTTTTTATTTTTATCATTTTCATATTTTTA
1 TTTTTTATTTTAATCATTTTCATATTTTGA
* * *
17368311 -TTTTGATTTTAATTGATTTTC-TCTTTTGA
1 TTTTTTATTTTAA-TCATTTTCATATTTTGA
17368340 TTTTTTATTTT--TC-TTTT--TGATTTTGA
1 TTTTTTATTTTAATCATTTTCAT-ATTTTGA
17368366 TTTTTTTATTTT
1 -TTTTTTATTTT
17368378 TCTTATTGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
25 1 0.02
26 10 0.18
27 12 0.22
29 16 0.29
30 16 0.29
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (30 bp):
TTTTTTATTTTAATCATTTTCATATTTTGA
Found at i:17368363 original size:26 final size:27
Alignment explanation
Indices: 17368334--17368386 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
17368324 TGATTTTCTC
*
17368334 TTTTGA-TTTTTTATTTTTCTTTTTGA
1 TTTTGATTTTTTTATTTTTCTTATTGA
17368360 TTTTGATTTTTTTATTTTTCTTATTGA
1 TTTTGATTTTTTTATTTTTCTTATTGA
17368387 ATCTGAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.13, C:0.04, G:0.08, T:0.75
Consensus pattern (27 bp):
TTTTGATTTTTTTATTTTTCTTATTGA
Found at i:17374047 original size:24 final size:24
Alignment explanation
Indices: 17373994--17374053 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
17373984 CTAAATAATA
*
17373994 ATATGATAAGTTTAAAATTACAGT
1 ATATGATAAATTTAAAATTACAGT
* * *
17374018 ACATGATAAATTTTAAATTA-GGAT
1 ATATGATAAATTTAAAATTACAG-T
17374042 ATATGATAAATT
1 ATATGATAAATT
17374054 GAAATAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (24 bp):
ATATGATAAATTTAAAATTACAGT
Found at i:17375639 original size:36 final size:36
Alignment explanation
Indices: 17375592--17375661 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
17375582 TGAGCTGGTT
17375592 AGCCATGTATAACAACATAAGCAACAATATACCAAC
1 AGCCATGTATAACAACATAAGCAACAATATACCAAC
* *
17375628 AGCCATGTATAACAACATACGTAACAATATACCA
1 AGCCATGTATAACAACATAAGCAACAATATACCA
17375662 GCAACAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.24, G:0.09, T:0.19
Consensus pattern (36 bp):
AGCCATGTATAACAACATAAGCAACAATATACCAAC
Found at i:17376027 original size:3 final size:3
Alignment explanation
Indices: 17376019--17376091 Score: 110
Period size: 3 Copynumber: 24.3 Consensus size: 3
17376009 GACATCTTTA
* *
17376019 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
17376067 TTC TTC TTC TTC TCC TTC TTT TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
17376092 CTAACATTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:17376086 original size:21 final size:21
Alignment explanation
Indices: 17376013--17376079 Score: 125
Period size: 21 Copynumber: 3.1 Consensus size: 21
17376003 ACTTCAGACA
17376013 TCTTTATTCTTCTTCTTCTTCT
1 TCTTT-TTCTTCTTCTTCTTCT
17376035 TCTTTTTCTTCTTCTTCTTCT
1 TCTTTTTCTTCTTCTTCTTCT
17376056 TCTTTTTCTTCTTCTTCTTCT
1 TCTTTTTCTTCTTCTTCTTCT
17376077 TCT
1 TCT
17376080 CCTTCTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 40 0.89
22 5 0.11
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.70
Consensus pattern (21 bp):
TCTTTTTCTTCTTCTTCTTCT
Found at i:17376437 original size:7 final size:7
Alignment explanation
Indices: 17376425--17376453 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
17376415 TAATATATGG
17376425 ATTTGAA
1 ATTTGAA
17376432 ATTTGAA
1 ATTTGAA
17376439 ATTTGAA
1 ATTTGAA
17376446 ATTTGAA
1 ATTTGAA
17376453 A
1 A
17376454 AAAGAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (7 bp):
ATTTGAA
Found at i:17377092 original size:55 final size:49
Alignment explanation
Indices: 17377032--17377169 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 49
17377022 AGTAGTTACG
*
17377032 TAGGAATCAAATTGCTAAAAGATAATATCTCATATAATATAGTATAATGTCCCAT
1 TAGGAATCAAATTGATAAAAGATAATATCTC-TATAATATA--A-AA--TCCCAT
* * *
17377087 TAGGAATCAAATTGATAAGAGATAATAT-TCTAT-A-ATAACATCCTAT
1 TAGGAATCAAATTGATAAAAGATAATATCTCTATAATATAAAATCCCAT
*
17377133 TAGGAATCAAATTGTTAAAAGATAATATC-CTATAATA
1 TAGGAATCAAATTGATAAAAGATAATATCTCTATAATA
17377170 ATATCCTAAC
Statistics
Matches: 74, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
46 35 0.47
47 1 0.01
48 2 0.03
49 1 0.01
51 3 0.04
52 1 0.01
53 3 0.04
54 2 0.03
55 26 0.35
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (49 bp):
TAGGAATCAAATTGATAAAAGATAATATCTCTATAATATAAAATCCCAT
Found at i:17377143 original size:46 final size:46
Alignment explanation
Indices: 17377085--17377177 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
17377075 ATAATGTCCC
* *
17377085 ATTAGGAATCAAATTGATAAGAGATAATATTCTATAATAACATCCT
1 ATTAGGAATCAAATTGATAAAAGATAATATCCTATAATAACATCCT
* *
17377131 ATTAGGAATCAAATTGTTAAAAGATAATATCCTATAATAATATCCT
1 ATTAGGAATCAAATTGATAAAAGATAATATCCTATAATAACATCCT
17377177 A
1 A
17377178 ACACCCCCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (46 bp):
ATTAGGAATCAAATTGATAAAAGATAATATCCTATAATAACATCCT
Found at i:17381353 original size:63 final size:62
Alignment explanation
Indices: 17381241--17381446 Score: 229
Period size: 63 Copynumber: 3.3 Consensus size: 62
17381231 CATCGTCAAT
* * * * *
17381241 AGAAGCTCATAAA-AGCTAAACGAAAGCTCAAAAGAGCTGAACGGAAGCTCATAAGAGCTAAAC
1 AGAAACTCA-AAAGAGCTAAA-GAAAGCTCAAAAGAGTTGAACAGAAGCTCGTAAGAGCTGAAC
* *
17381304 AGAAACTCAAAAGAGCTAAATGAAAGCTCAAAAGAGTTGAACAAAAGCTCGTAAGAGCTGAGC
1 AGAAACTCAAAAGAGCTAAA-GAAAGCTCAAAAGAGTTGAACAGAAGCTCGTAAGAGCTGAAC
* * *
17381367 A-AAAGCTCAAAAGAGCTAAACATAAGCTCAAAATA-TCTGAACAGAAGCTCGTAAGACCTGAAC
1 AGAAA-CTCAAAAGAGCTAAAGA-AAGCTCAAAAGAGT-TGAACAGAAGCTCGTAAGAGCTGAAC
* *
17381430 AGAAGCTCAAAAAAGCT
1 AGAAACTCAAAAGAGCT
17381447 GATCCACCCG
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
62 8 0.07
63 113 0.92
64 2 0.02
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.14
Consensus pattern (62 bp):
AGAAACTCAAAAGAGCTAAAGAAAGCTCAAAAGAGTTGAACAGAAGCTCGTAAGAGCTGAAC
Found at i:17381448 original size:21 final size:21
Alignment explanation
Indices: 17381241--17381448 Score: 181
Period size: 21 Copynumber: 9.9 Consensus size: 21
17381231 CATCGTCAAT
*
17381241 AGAAGCTCATAAA-AGCTAAAC
1 AGAAGCTCA-AAAGAGCTGAAC
17381262 -GAAAGCTCAAAAGAGCTGAAC
1 AG-AAGCTCAAAAGAGCTGAAC
* * *
17381283 GGAAGCTCATAAGAGCTAAAC
1 AGAAGCTCAAAAGAGCTGAAC
*
17381304 AGAAACTCAAAAGAGCT-AA-
1 AGAAGCTCAAAAGAGCTGAAC
*
17381323 ATGAAAGCTCAAAAGAGTTGAAC
1 A-G-AAGCTCAAAAGAGCTGAAC
* ** *
17381346 AAAAGCTCGTAAGAGCTGAGC
1 AGAAGCTCAAAAGAGCTGAAC
* *
17381367 AAAAGCTCAAAAGAGCTAAAC
1 AGAAGCTCAAAAGAGCTGAAC
* * *
17381388 ATAAGCTCAAAATATCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
** *
17381409 AGAAGCTCGTAAGACCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
*
17381430 AGAAGCTCAAAAAAGCTGA
1 AGAAGCTCAAAAGAGCTGA
17381449 TCCACCCGAA
Statistics
Matches: 150, Mismatches: 30, Indels: 14
0.77 0.15 0.07
Matches are distributed among these distances:
19 1 0.01
20 7 0.05
21 138 0.92
22 3 0.02
23 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGCTGAAC
Found at i:17388482 original size:42 final size:41
Alignment explanation
Indices: 17388365--17388513 Score: 165
Period size: 42 Copynumber: 3.6 Consensus size: 41
17388355 TTACTTTTTG
* * *
17388365 TTTAGCTCTTAGGAGCTTCTGCTTAACTAATATGAGTTTCCA
1 TTTAGCTCTTATGAGCTTCTG-TTAACTATTATGAGTTTCTA
* *
17388407 TTCAGCTCTT-TCGAGCTTCTATTAAACTATTATGAGTTTCTA
1 TTTAGCTCTTAT-GAGCTTCTGTT-AACTATTATGAGTTTCTA
** *
17388449 TTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTCTA
1 TTTAGCTCTTATGAGCTTCTGTT-AACTATTATGAGTTTCTA
* *
17388491 TTTAGCTCTTATGGGTTTCTGTT
1 TTTAGCTCTTATGAGCTTCTGTT
17388514 TAGCTCTCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.02
42 88 0.97
43 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (41 bp):
TTTAGCTCTTATGAGCTTCTGTTAACTATTATGAGTTTCTA
Found at i:17388532 original size:21 final size:21
Alignment explanation
Indices: 17388363--17388534 Score: 112
Period size: 21 Copynumber: 8.2 Consensus size: 21
17388353 TTTTACTTTT
* *
17388363 TGTTTAGCTCTTAGGAGCTTC
1 TGTTTAGCTCTTATGAGTTTC
* * **
17388384 TGCTTAACTAATATGAGTTTC
1 TGTTTAGCTCTTATGAGTTTC
** * *
17388405 CATTCAGCTCTT-TCGAGCTTC
1 TGTTTAGCTCTTAT-GAGTTTC
* * * *
17388426 TATTAAACTATTATGAGTTTC
1 TGTTTAGCTCTTATGAGTTTC
* *
17388447 TATTTAGCTCTTATGAGCTTC
1 TGTTTAGCTCTTATGAGTTTC
* * * *
17388468 TGTTCAACCCTTATGGGTTTC
1 TGTTTAGCTCTTATGAGTTTC
* *
17388489 TATTTAGCTCTTATGGGTTTC
1 TGTTTAGCTCTTATGAGTTTC
* *
17388510 TGTTTAGCTCTCATGAGCTTC
1 TGTTTAGCTCTTATGAGTTTC
17388531 TGTT
1 TGTT
17388535 CAACTTTCGG
Statistics
Matches: 112, Mismatches: 37, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
20 1 0.01
21 110 0.98
22 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTTTAGCTCTTATGAGTTTC
Found at i:17395377 original size:21 final size:21
Alignment explanation
Indices: 17395269--17395457 Score: 123
Period size: 21 Copynumber: 9.1 Consensus size: 21
17395259 GTGTTTTACT
* *
17395269 TTCTGTTTAGCTTTTACGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * *
17395290 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAGCTCTTATGAGC
** * * * * *
17395311 TTCCATTCAACTTTTTTGAAC
1 TTCTGTTTAGCTCTTATGAGC
* * * *
17395332 TTTTGTTCAACTCTTATGAGT
1 TTCTGTTTAGCTCTTATGAGC
*
17395353 TTCTATTTAGCTCTT-TCGAGC
1 TTCTGTTTAGCTCTTAT-GAGC
* * * * *
17395374 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
17395395 TTCTGTTTAGCTCTTATGAGC
1 TTCTGTTTAGCTCTTATGAGC
* *
17395416 TTCTGTTTAGCTCTCATTAGC
1 TTCTGTTTAGCTCTTATGAGC
*
17395437 TTCTGTTCAGCT-TT-TGAGC
1 TTCTGTTTAGCTCTTATGAGC
17395456 TT
1 TT
17395458 TTGAAAATGA
Statistics
Matches: 125, Mismatches: 41, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
19 6 0.05
20 2 0.02
21 116 0.93
22 1 0.01
ACGTcount: A:0.16, C:0.20, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:17395381 original size:42 final size:42
Alignment explanation
Indices: 17395268--17395422 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 42
17395258 CGTGTTTTAC
* * *
17395268 TTTCTGTTTAGCT-TTTACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTATTTAGCTCTTT-CGAGCTTCTGTTCAACTCTTATGAG
* * * * * * *
17395310 TTTCCATTCAACTTTTTTGAACTTTTGTTCAACTCTTATGAG
1 TTTCTATTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* *
17395352 TTTCTATTTAGCTCTTTCGAGCTTCTGTTCAACCCTTATGGG
1 TTTCTATTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
*
17395394 TTTCTGTTTAGCTCTTAT-GAGCTTCTGTT
1 TTTCTATTTAGCTCTT-TCGAGCTTCTGTT
17395423 TAGCTCTCAT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 88 0.96
43 4 0.04
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (42 bp):
TTTCTATTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
Found at i:17396997 original size:24 final size:24
Alignment explanation
Indices: 17396946--17396997 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
17396936 TGCAACCAGA
* * *
17396946 GGTACAATCGGAAGTACAGCAGGT
1 GGTACAATAGGAAGTACAACAGGG
* *
17396970 GGTACAATAGGGAGTACAATAGGG
1 GGTACAATAGGAAGTACAACAGGG
17396994 GGTA
1 GGTA
17396998 GAGGTTATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.37, T:0.17
Consensus pattern (24 bp):
GGTACAATAGGAAGTACAACAGGG
Found at i:17398655 original size:21 final size:22
Alignment explanation
Indices: 17398596--17398657 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
17398586 TGAACACGAC
*
17398596 AACATAAGCTCATAAGAGCTTT
1 AACAGAAGCTCATAAGAGCTTT
* * *
17398618 AACGGAAGCTAAAAAGAGC-TT
1 AACAGAAGCTCATAAGAGCTTT
*
17398639 AACAGAAGTTCATAAGAGC
1 AACAGAAGCTCATAAGAGC
17398658 AGAACATAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (22 bp):
AACAGAAGCTCATAAGAGCTTT
Found at i:17400797 original size:56 final size:50
Alignment explanation
Indices: 17400726--17400872 Score: 160
Period size: 56 Copynumber: 2.9 Consensus size: 50
17400716 AGTAGTTGCG
* *
17400726 TAGGAATCAATTTGCTAAAAAATAATATCTCATAATAATATCCTATAATGTCCCA
1 TAGGAATCAAATTGCTAAAAAATAATATCCCATAATAATATCCTAT-AT-T---A
* *
17400781 TTAGGAATCAAATTGCTAAGAGATAATATCCCATAATAATAT-CT-TATTA
1 -TAGGAATCAAATTGCTAAAAAATAATATCCCATAATAATATCCTATATTA
17400830 -A-GAATCAAATTGCTAAAATAA-AATATCCCATAATAATATCCTA
1 TAGGAATCAAATTGCTAAAA-AATAATATCCCATAATAATATCCTA
17400873 ATAGATAACC
Statistics
Matches: 82, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
46 34 0.41
47 4 0.05
49 1 0.01
52 1 0.01
53 2 0.02
54 1 0.01
55 2 0.02
56 37 0.45
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (50 bp):
TAGGAATCAAATTGCTAAAAAATAATATCCCATAATAATATCCTATATTA
Found at i:17400835 original size:46 final size:46
Alignment explanation
Indices: 17400780--17400869 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
17400770 ATAATGTCCC
* * *
17400780 ATTAGGAATCAAATTGCTAAGAGATAATATCCCATAATAATATCTT
1 ATTAAGAATCAAATTGCTAAAAGAAAATATCCCATAATAATATCTT
*
17400826 ATTAAGAATCAAATTGCTAAAATAAAATATCCCATAATAATATC
1 ATTAAGAATCAAATTGCTAAAAGAAAATATCCCATAATAATATC
17400870 CTAATAGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (46 bp):
ATTAAGAATCAAATTGCTAAAAGAAAATATCCCATAATAATATCTT
Found at i:17404379 original size:30 final size:31
Alignment explanation
Indices: 17404324--17404382 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
17404314 TTCTATTTGT
*
17404324 TCAATTTCAGTCCTTATATTTTTCAAATTGG
1 TCAATTTCAGTCCTTATACTTTTCAAATTGG
*
17404355 TCAATTTTAGTCCTT-TACTTTTCAAATT
1 TCAATTTCAGTCCTTATACTTTTCAAATT
17404383 TTTAGCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.51
Consensus pattern (31 bp):
TCAATTTCAGTCCTTATACTTTTCAAATTGG
Found at i:17408332 original size:6 final size:6
Alignment explanation
Indices: 17408321--17408365 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
17408311 TTTAAATTCC
* *
17408321 CACATT CACATT CACATT CACATT CACATT CACAAT CACAAT CAC
1 CACATT CACATT CACATT CACATT CACATT CACATT CACATT CAC
17408366 TTTCTTTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.27
Consensus pattern (6 bp):
CACATT
Found at i:17408658 original size:30 final size:29
Alignment explanation
Indices: 17408624--17408696 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
17408614 TGAAAAAATC
** * *
17408624 ATTAAACCTTAAAATTTTTGAAAACTTTTA
1 ATTAAACCCCAAAAATTTTG-AAACGTTTA
*
17408654 ATTAAACCCCAAAAATTTTGAAAGGTTTA
1 ATTAAACCCCAAAAATTTTGAAACGTTTA
17408683 ATTAAACCCCAAAA
1 ATTAAACCCCAAAA
17408697 CTTCCAGGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (29 bp):
ATTAAACCCCAAAAATTTTGAAACGTTTA
Found at i:17409856 original size:60 final size:61
Alignment explanation
Indices: 17409746--17409905 Score: 214
Period size: 60 Copynumber: 2.6 Consensus size: 61
17409736 GCAACTTTTT
* * * * * * *
17409746 CCACATTGGGGCCTGAACTTTTTTTTTTGTTCAAGTTATGCCTTGAACTTGGCAATTGTTC
1 CCACATTGGGGCTTAAACTTTCTTTTTTGTCCAAGTTAGGCCCTGAACTTGGCAATTATTC
* *
17409807 CCACATTGGGGTTTAAAC-TTCTTTTTTGGCCAAGTTAGGCCCTGAACTTGGCAATTATTC
1 CCACATTGGGGCTTAAACTTTCTTTTTTGTCCAAGTTAGGCCCTGAACTTGGCAATTATTC
* *
17409867 CCACATTGGGGCTTGAACTTTTTTTTTTGTCCAAGTTAG
1 CCACATTGGGGCTTAAACTTTCTTTTTTGTCCAAGTTAG
17409906 TAAAATCCTA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 52 0.61
61 33 0.39
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (61 bp):
CCACATTGGGGCTTAAACTTTCTTTTTTGTCCAAGTTAGGCCCTGAACTTGGCAATTATTC
Found at i:17418283 original size:19 final size:18
Alignment explanation
Indices: 17418256--17418330 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 18
17418246 CTTTAAAACA
* *
17418256 TTTTGTATTGATTTTTATT
1 TTTTATATTGA-TGTTATT
*
17418275 TTTTATATTTATGTTATT
1 TTTTATATTGATGTTATT
*
17418293 TTTTCA-ATT--TATTATT
1 TTTT-ATATTGATGTTATT
* *
17418309 TATTATATTTATGTTATT
1 TTTTATATTGATGTTATT
17418327 TTTT
1 TTTT
17418331 CAATTTATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
15 1 0.02
16 12 0.27
18 22 0.49
19 10 0.22
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTATATTGATGTTATT
Found at i:17418292 original size:9 final size:8
Alignment explanation
Indices: 17418269--17418354 Score: 54
Period size: 9 Copynumber: 10.1 Consensus size: 8
17418259 TGTATTGATT
*
17418269 TTTATTTT
1 TTTATTTA
17418277 TTATATTTA
1 TT-TATTTA
17418286 TGTTATTT-
1 T-TTATTTA
17418294 TTTCAATTTA
1 TTT--ATTTA
17418304 -TTATTTA
1 TTTATTTA
17418311 TTATATTTA
1 TT-TATTTA
17418320 TGTTATTT-
1 T-TTATTTA
17418328 TTTCAATTTA
1 TTT--ATTTA
17418338 -TTATTTA
1 TTTATTTA
17418345 TTATATTTA
1 TT-TATTTA
17418354 T
1 T
17418355 CCTTTTTTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 25
0.71 0.01 0.28
Matches are distributed among these distances:
7 14 0.22
8 6 0.09
9 42 0.66
10 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (8 bp):
TTTATTTA
Found at i:17418309 original size:34 final size:34
Alignment explanation
Indices: 17418266--17418374 Score: 168
Period size: 34 Copynumber: 3.3 Consensus size: 34
17418256 TTTTGTATTG
*
17418266 ATTT-TTATTTTTTATATTTATGTTATTTTTTCA
1 ATTTATTATTTATTATATTTATGTTATTTTTTCA
17418299 ATTTATTATTTATTATATTTATGTTATTTTTTCA
1 ATTTATTATTTATTATATTTATGTTATTTTTTCA
**
17418333 ATTTATTATTTATTATATTTATCCT-TTTTTTCA
1 ATTTATTATTTATTATATTTATGTTATTTTTTCA
*
17418366 ATTTTTTAT
1 ATTTATTAT
17418375 AATTACTCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 20 0.28
34 51 0.72
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.70
Consensus pattern (34 bp):
ATTTATTATTTATTATATTTATGTTATTTTTTCA
Found at i:17418813 original size:3 final size:3
Alignment explanation
Indices: 17418805--17418840 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
17418795 TGTTTCTTTT
17418805 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17418841 CTTGAATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17428289 original size:12 final size:12
Alignment explanation
Indices: 17428272--17428301 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17428262 AAACATAATG
17428272 AAATCTGGTCCA
1 AAATCTGGTCCA
*
17428284 AAATCTGGTCTA
1 AAATCTGGTCCA
17428296 AAATCT
1 AAATCT
17428302 TTGACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (12 bp):
AAATCTGGTCCA
Found at i:17429142 original size:41 final size:41
Alignment explanation
Indices: 17429085--17429168 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
17429075 CCACCTAATG
17429085 TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
1 TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
*
17429126 TAGGAGTATTATGCATGTTACATAAATCACTATGTATCAAA
1 TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
17429167 TA
1 TA
17429169 AAGCAATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (41 bp):
TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
Done.