Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 46 of 352
Found at i:14566628 original size:18 final size:18
Alignment explanation
Indices: 14566591--14566630 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14566581 TGTGATGAAA
* **
14566591 ATTGTTACTGTTACTGTT
1 ATTGTTACTGCTACCATT
14566609 ATTGTTACTGCTACCATT
1 ATTGTTACTGCTACCATT
14566627 ATTG
1 ATTG
14566631 ACTACTGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (18 bp):
ATTGTTACTGCTACCATT
Found at i:14569387 original size:11 final size:11
Alignment explanation
Indices: 14569373--14569417 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
14569363 AGATAAATAT
14569373 TATTTTATTAA
1 TATTTTATTAA
*
14569384 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
14569397 TATTTTATTAT
1 TATTTTATTAA
14569408 TATTTTATTA
1 TATTTTATTA
14569418 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:14571218 original size:46 final size:46
Alignment explanation
Indices: 14571166--14571256 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
14571156 GCTTTCTGAA
14571166 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
14571212 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
14571257 CGGGAAATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:14574102 original size:45 final size:46
Alignment explanation
Indices: 14574028--14574188 Score: 204
Period size: 46 Copynumber: 3.5 Consensus size: 46
14574018 CGTTACAAAA
* *
14574028 ACCATGGTTG-AAGATACTATAG-AAGCGTGACATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAA-CGTGACATGAAATGAATAAG
*
14574073 ACCATGGTTGAAAGATACCA-GGCAACGTGACATGAAAAGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
* *
14574118 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGACATG-AAATGAATAAG
* * *
14574164 ACCATAGTTGAAAGACACTATGGCA
1 ACCATGGTTGAAAGATACCATGGCA
14574189 TCATGTCTAA
Statistics
Matches: 103, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
45 51 0.50
46 52 0.50
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
Found at i:14574495 original size:16 final size:17
Alignment explanation
Indices: 14574474--14574506 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14574464 ATGATGGAGC
14574474 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
14574490 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
14574507 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:14577907 original size:31 final size:32
Alignment explanation
Indices: 14577869--14577928 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
14577859 ATTATTGGAT
14577869 TATTCGAAAG-CTTTCATTTAAGTCATTAAAC
1 TATTCGAAAGTCTTTCATTTAAGTCATTAAAC
* **
14577900 TATTCGAAAGTTTTTTGTTTAAGTCATTA
1 TATTCGAAAGTCTTTCATTTAAGTCATTA
14577929 GGTTGTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 10 0.40
32 15 0.60
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (32 bp):
TATTCGAAAGTCTTTCATTTAAGTCATTAAAC
Found at i:14583930 original size:25 final size:26
Alignment explanation
Indices: 14583902--14583951 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
14583892 ATTCTTTATA
14583902 TTATTT-TTAAAAATTTTATATATTT
1 TTATTTATTAAAAATTTTATATATTT
*
14583927 TTATTTATTAAAATTTTTATATATT
1 TTATTTATTAAAAATTTTATATATT
14583952 CACATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TTATTTATTAAAAATTTTATATATTT
Found at i:14584043 original size:16 final size:16
Alignment explanation
Indices: 14584022--14584065 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
14584012 TTTTATGTAT
14584022 TATAAATTATATAATA
1 TATAAATTATATAATA
*
14584038 TATAAATAATATAATA
1 TATAAATTATATAATA
*
14584054 TAAAATATTATA
1 TATAA-ATTATA
14584066 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAATTATATAATA
Found at i:14585824 original size:42 final size:45
Alignment explanation
Indices: 14585777--14585880 Score: 142
Period size: 48 Copynumber: 2.3 Consensus size: 45
14585767 ATAATAATGT
14585777 CAGCTATGGTCTTACAC-AT-AT-TCACATATCGATGCCATAGCC
1 CAGCTATGGTCTTACACGATCATATCACATATCGATGCCATAGCC
14585819 CAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCATAGCC
1 CAGCTATGGTCTTACAC-GAT--CATATCACATATCGATGCCATAGCC
**
14585867 CAAATATGGTCTTA
1 CAGCTATGGTCTTA
14585881 TACAGTAGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
42 17 0.31
44 2 0.04
47 2 0.04
48 33 0.61
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (45 bp):
CAGCTATGGTCTTACACGATCATATCACATATCGATGCCATAGCC
Found at i:14585984 original size:31 final size:31
Alignment explanation
Indices: 14585949--14586066 Score: 130
Period size: 31 Copynumber: 3.8 Consensus size: 31
14585939 CTTGTCACTT
*
14585949 GTAGCCGAAGTTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
* * * *
14585980 GTAGCAGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
* * *
14586011 GTAGTCGGAGCTACCA-AATTTCACTGATCAG
1 GTAGCCGAAGCTACCACTA-TTCACTGATCAG
* *
14586042 GTAGCCAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTATTCACT
14586067 TGCCATTTGT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAG
Found at i:14586139 original size:50 final size:50
Alignment explanation
Indices: 14586042--14586167 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
14586032 CACTGATCAG
* * * * *
14586042 GTAGCCAAAGCTACCACTTTTCACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
* *
14586093 GTAGCTGAAGCTATCATTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
14586143 GTAGCCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
14586168 GGTTGCCATA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 45 0.68
51 21 0.32
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:14591567 original size:14 final size:15
Alignment explanation
Indices: 14591543--14591571 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14591533 TAAAAATTGA
14591543 ATTTATATATTTTAT
1 ATTTATATATTTTAT
14591558 ATTT-TATATTTTAT
1 ATTTATATATTTTAT
14591572 TTTCTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTATATATTTTAT
Found at i:14608967 original size:23 final size:22
Alignment explanation
Indices: 14608941--14608989 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
14608931 TATTCAGATT
*
14608941 TTAAACATAATATTATT-GAAAAA
1 TTAAACATAA-ATT-TTAAAAAAA
*
14608964 TTAATCATAAATTTTAAAAAAA
1 TTAAACATAAATTTTAAAAAAA
14608986 TTAA
1 TTAA
14608990 TTTTAATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAACATAAATTTTAAAAAAA
Found at i:14613300 original size:63 final size:63
Alignment explanation
Indices: 14613201--14613328 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
14613191 ATGGTTGTTA
14613201 AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
1 AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
14613264 AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
1 AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
14613327 AA
1 AA
14613329 TTTTAAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (63 bp):
AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
Found at i:14614497 original size:22 final size:20
Alignment explanation
Indices: 14614472--14614515 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
14614462 ATTATCAACA
14614472 ATTTTATAATAATTAAATATAT
1 ATTTTATAAT-ATTAAAT-TAT
* *
14614494 ATTTTAAAATTTTAAATTAT
1 ATTTTATAATATTAAATTAT
14614514 AT
1 AT
14614516 AATTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTATAATATTAAATTAT
Found at i:14616725 original size:16 final size:16
Alignment explanation
Indices: 14616704--14616738 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
14616694 ATTTCAAGTC
14616704 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
14616720 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
14616736 TTA
1 TTA
14616739 GTCAAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (16 bp):
TTACAGCCTATTAATT
Found at i:14626198 original size:17 final size:17
Alignment explanation
Indices: 14626161--14626213 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
14626151 AATATTTTCT
14626161 TCTTCTTTTTTTCTCTCTTA
1 TCTTC-TTTTTT-TCT-TTA
14626181 TCTTCTTTTTTTCTTTA
1 TCTTCTTTTTTTCTTTA
* * *
14626198 TTTTCATTCTTTCTTT
1 TCTTCTTTTTTTCTTT
14626214 CCTTCTCTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 16 0.53
18 3 0.10
19 6 0.20
20 5 0.17
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TCTTCTTTTTTTCTTTA
Found at i:14638037 original size:40 final size:40
Alignment explanation
Indices: 14637980--14638059 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
14637970 TTTATAAACC
14637980 AAATTTAAGGTGCGGTTTTACTATAAGCATACAGGTCAGT
1 AAATTTAAGGTGCGGTTTTACTATAAGCATACAGGTCAGT
* *
14638020 AAATTTAAGGTGTGGTTTTACTGTAAGCATACAGGTCAGT
1 AAATTTAAGGTGCGGTTTTACTATAAGCATACAGGTCAGT
14638060 TATAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (40 bp):
AAATTTAAGGTGCGGTTTTACTATAAGCATACAGGTCAGT
Found at i:14639534 original size:34 final size:34
Alignment explanation
Indices: 14639496--14639564 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
14639486 ACTGGCCATT
14639496 TTCGATCATAAAATAGCACAAAATAGGCATAAAA
1 TTCGATCATAAAATAGCACAAAATAGGCATAAAA
14639530 TTCGATCATAAAATAGCACAAAATAGGCATAAAA
1 TTCGATCATAAAATAGCACAAAATAGGCATAAAA
14639564 T
1 T
14639565 GCATTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (34 bp):
TTCGATCATAAAATAGCACAAAATAGGCATAAAA
Found at i:14641023 original size:14 final size:16
Alignment explanation
Indices: 14640993--14641028 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
14640983 CCGACTAATA
14640993 TTTAAAATATGCTTTT
1 TTTAAAATATGCTTTT
14641009 TTTAAAA-AT-CTTTT
1 TTTAAAATATGCTTTT
14641023 TTTAAA
1 TTTAAA
14641029 TTTAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTAAAATATGCTTTT
Found at i:14660320 original size:15 final size:15
Alignment explanation
Indices: 14660300--14660407 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
14660290 TTTATGGAAA
14660300 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
14660315 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
14660329 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
14660345 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
14660359 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
14660375 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
14660389 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
14660405 ATC
1 ATC
14660408 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:14660329 original size:30 final size:30
Alignment explanation
Indices: 14660293--14660407 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
14660283 ATCCATATTT
*
14660293 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
14660323 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
14660353 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
14660383 TTAGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
14660408 GAGATATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:14664999 original size:15 final size:15
Alignment explanation
Indices: 14664979--14665086 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
14664969 TTTATGGAAA
14664979 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
14664994 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
14665008 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
14665024 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
14665038 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
14665054 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
14665068 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
14665084 ATC
1 ATC
14665087 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:14665008 original size:30 final size:30
Alignment explanation
Indices: 14664972--14665086 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
14664962 ATCCATATTT
*
14664972 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
14665002 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
14665032 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
14665062 TTAGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
14665087 GAGATATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:14665928 original size:37 final size:37
Alignment explanation
Indices: 14665872--14665946 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
14665862 TTTCATACTT
**
14665872 TGTAAAGAAAAAATGAAGATGAACAATAAAGATTCTC
1 TGTAAAGAAAAAACAAAGATGAACAATAAAGATTCTC
* *
14665909 TGTAAAGAAAAGACAAAGATGAACAATAACGATTCTC
1 TGTAAAGAAAAAACAAAGATGAACAATAAAGATTCTC
14665946 T
1 T
14665947 ACAAAAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.21
Consensus pattern (37 bp):
TGTAAAGAAAAAACAAAGATGAACAATAAAGATTCTC
Found at i:14667755 original size:25 final size:24
Alignment explanation
Indices: 14667710--14667757 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
14667700 TTACGAGCAT
*
14667710 CTCGATATTGGCTCACTTGAGCTA
1 CTCGATATTGGCTCACATGAGCTA
* *
14667734 CTCGGTATATGGCTCTCATGAGCT
1 CTCGATAT-TGGCTCACATGAGCT
14667758 TCCCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (24 bp):
CTCGATATTGGCTCACATGAGCTA
Found at i:14667987 original size:25 final size:25
Alignment explanation
Indices: 14667934--14668001 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
14667924 TGGCTCACAT
* ** *
14667934 GAGCTTCCCGTTACATGTCTCTCAT
1 GAGCTTCCCGTTACATGGCTCGAAA
*
14667959 GAGCTTCCCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTACATGGCTCGAAA
*
14667984 GAGCTTCTCGATTACATG
1 GAGCTTCCCG-TTACATG
14668002 CTCCCATGGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
25 29 0.83
26 6 0.17
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCGAAA
Found at i:14669987 original size:3 final size:3
Alignment explanation
Indices: 14669981--14670406 Score: 94
Period size: 3 Copynumber: 140.3 Consensus size: 3
14669971 AGTGTTGTTG
* * * *
14669981 TTA TTA TTA TTA TTA TTA TTA TTA -TA TATA TATA CTA TTA CTG TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA
* * * * * * * *
14670027 TTA TTA TTA TTA TTA GTA GTAA CGTA ATA GTG TTT TTA TTA TT- TCA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * *
14670073 TTA TTA TT- TT- TTA CCTTT TTA TTA CTA TTA TTA TTAA TCTA CTA TTA
1 TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA
* * * * *
14670120 TTA TTT TTA TTA ATA -TA GTA TTA TT- TTT TTA -TA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * *
14670165 TTA GCA CGTA -TA TTA TTA TTA TTAA TGTA TCA TTG TTA TTT TCTA TT-
1 TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA T-TA TTA
* *
14670212 TTA TTA TTA CTT- TTA TTA CTA TTG TT- TCTA TTA TTA TTA TT- TTCA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A
* * ** ** * * * *
14670257 TTA CTC CCA TTA TTA TTA TCG TTA TTT TCTA TTA TCA TTA ATA TGTCG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A
* ** * * *
14670305 TT- TGT- TTA TTA TTA TTA TTT TTA ACA CTA TTA TCA TCA TTA -TA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
14670348 TTTA TT- TTT TTAA ATA TTA TTA TCA TTA -TA TTTA TTA TTA TTA CTA
1 -TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
14670394 TTA TTT TTA TTA T
1 TTA TTA TTA TTA T
14670407 CCGTCCTATT
Statistics
Matches: 307, Mismatches: 81, Indels: 70
0.67 0.18 0.15
Matches are distributed among these distances:
2 30 0.10
3 239 0.78
4 33 0.11
5 5 0.02
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:14670031 original size:34 final size:35
Alignment explanation
Indices: 14669993--14670078 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 35
14669983 ATTATTATTA
*
14669993 TTATTATTATTATATA-TA-TATAC-TATTACTGTTT
1 TTATTATTATTAT-TAGTAGTA-ACGTAATACTGTTT
*
14670027 TTATTATTATTATTAGTAGTAACGTAATAGTGTTT
1 TTATTATTATTATTAGTAGTAACGTAATACTGTTT
14670062 TTATTATTTCATTATTA
1 TTATTA-TT-ATTATTA
14670079 TTTTTTACCT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.04
34 17 0.38
35 17 0.38
36 2 0.04
37 7 0.16
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (35 bp):
TTATTATTATTATTAGTAGTAACGTAATACTGTTT
Found at i:14670149 original size:23 final size:23
Alignment explanation
Indices: 14670092--14670151 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
14670082 TTTACCTTTT
* * *
14670092 TATTACTATTATTATTAATCTAC
1 TATTATTATTTTTATTAATATAC
*
14670115 TATTATTATTTTTATTAATATAG
1 TATTATTATTTTTATTAATATAC
14670138 TATTATT-TTTTTAT
1 TATTATTATTTTTAT
14670152 ATTGTTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 7 0.21
23 26 0.79
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTATTATTTTTATTAATATAC
Found at i:14670204 original size:124 final size:124
Alignment explanation
Indices: 14669991--14670252 Score: 273
Period size: 124 Copynumber: 2.1 Consensus size: 124
14669981 TTATTATTAT
14669991 TATTATTATTATTATATATATATACTATTACTGTTTTTATTATTATTATTAGTAGTAACGTAATA
1 TATTATTATTATTATATATATATACTATTACTGTTTTTATTATTATTATTAGTAGTAACGTAATA
* * *
14670056 GTGTTTTTATTATTTCATTATTATTTTTTACCTTT-TTATTACTATTATTATTAATCTAC
66 GTATTATTATTATTTCATTATTATTTTCTA-CTTTATTATTACTATTATTATTAATCTAC
* * * * * * *
14670115 TATTATTATTTTTAT-TA-ATATAGTATTATTTTTTTATATTGTTATTATTATTAG-CACGT-AT
1 TATTATTATTATTATATATATATACTATTACTGTTTT-TATTATTATTATTAGTAGTAACGTAAT
* * * * * * * *
14670176 ATTATTATTATTAATGTATCATTGTTATTTTCTATTTTATTATTACTTTTATTACTATTGTTTC
65 AGTATTATTATT-AT-T-TCATTATTATTTTCTACTTTATTATTACTATTATTATTAAT-CTAC
14670240 TATTATTATTATT
1 TATTATTATTATT
14670253 TTCATTACTC
Statistics
Matches: 113, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
121 11 0.10
122 21 0.19
123 22 0.19
124 45 0.40
125 14 0.12
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (124 bp):
TATTATTATTATTATATATATATACTATTACTGTTTTTATTATTATTATTAGTAGTAACGTAATA
GTATTATTATTATTTCATTATTATTTTCTACTTTATTATTACTATTATTATTAATCTAC
Found at i:14670235 original size:80 final size:79
Alignment explanation
Indices: 14670098--14670247 Score: 182
Period size: 80 Copynumber: 1.9 Consensus size: 79
14670088 TTTTTATTAC
*
14670098 TATTATTATTAATCTACTATTATTATTTTTATTAATATAGTATTATTTTTTTATATTGTTAT-TA
1 TATTATTATTAATCTACTATTATTATTTTTATT-ATATAGTATTATTTTATTATATTGTT-TCTA
14670162 TTATTAGCACGTATAT
64 TTATTAGCACGTATAT
* * *
14670178 TATTATTATTAATGTA-TCATTGTTATTTTCTATT-T-TATTATTACTTTTATTACTATTGTTTC
1 TATTATTATTAATCTACT-ATTATTATTTT-TATTATATAGTATTA-TTTTATTA-TATTGTTTC
14670240 TATTATTA
62 TATTATTA
14670248 TTATTTTCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
78 7 0.11
79 10 0.16
80 40 0.66
81 4 0.07
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.61
Consensus pattern (79 bp):
TATTATTATTAATCTACTATTATTATTTTTATTATATAGTATTATTTTATTATATTGTTTCTATT
ATTAGCACGTATAT
Found at i:14671758 original size:9 final size:9
Alignment explanation
Indices: 14671721--14671787 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
14671711 TTGCTTTTAT
14671721 TAAAAATTA
1 TAAAAATTA
*
14671730 T-GAAA-TA
1 TAAAAATTA
*
14671737 TTAAAA-TA
1 TAAAAATTA
14671745 TTAAAAATTA
1 -TAAAAATTA
14671755 TAAAAATTA
1 TAAAAATTA
*
14671764 TAAAAAGCGTA
1 TAAAAA--TTA
14671775 -AAAAATTA
1 TAAAAATTA
14671783 TAAAA
1 TAAAA
14671788 TATATAAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 3 0.06
8 10 0.21
9 25 0.53
10 7 0.15
11 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:14671760 original size:18 final size:18
Alignment explanation
Indices: 14671721--14671792 Score: 51
Period size: 17 Copynumber: 4.0 Consensus size: 18
14671711 TTGCTTTTAT
*
14671721 TAAAAATTAT-GAAATAT
1 TAAAAATTATAAAAATAT
*
14671738 TAAAATATTA-AAAATTA-
1 TAAAA-ATTATAAAAATAT
**
14671755 TAAAAATTATAAAAAGCGT
1 TAAAAATTATAAAAA-TAT
*
14671774 AAAAAATTATAAAATATAT
1 TAAAAATTATAAAA-ATAT
14671793 AAAGATTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
16 4 0.10
17 14 0.34
18 8 0.20
19 14 0.34
20 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (18 bp):
TAAAAATTATAAAAATAT
Found at i:14672037 original size:19 final size:19
Alignment explanation
Indices: 14672015--14672139 Score: 69
Period size: 19 Copynumber: 6.5 Consensus size: 19
14672005 TTTTTTATGT
14672015 TTTTTATAAAATTTTACAA
1 TTTTTATAAAATTTTACAA
* * **
14672034 TTTTTTTTTTATTTTTTACAA
1 --TTTTTATAAAATTTTACAA
**
14672055 TTTTTATAAAAAATT-CTAA
1 TTTTTATAAAATTTTAC-AA
*
14672074 TTTTTA-ATAATTTTA-AA
1 TTTTTATAAAATTTTACAA
* *
14672091 TTTTTTATTAAAATTTAATAA
1 -TTTTTA-TAAAATTTTACAA
* *
14672112 TTTTTCTAAAA-TTTATCAT
1 TTTTTATAAAATTTTA-CAA
14672131 TTTTTATAA
1 TTTTTATAA
14672140 TTTTTTTTCT
Statistics
Matches: 77, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
17 2 0.03
18 15 0.19
19 31 0.40
20 12 0.16
21 17 0.22
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTATAAAATTTTACAA
Found at i:14672038 original size:21 final size:20
Alignment explanation
Indices: 14672014--14672116 Score: 54
Period size: 21 Copynumber: 5.2 Consensus size: 20
14672004 ATTTTTTATG
14672014 TTTTTTATAAAATTTTACAAT
1 TTTTTTATAAAATTTTA-AAT
* * **
14672035 TTTTTTTTTATTTTTTACAAT
1 TTTTTTATAAAATTTTA-AAT
* * *
14672056 TTTTATAAAAAATTCT-AA-
1 TTTTTTATAAAATTTTAAAT
*
14672074 -TTTTTA-ATAATTTTAAA-
1 TTTTTTATAAAATTTTAAAT
*
14672091 TTTTTTATTAAAATTTAATAAT
1 TTTTTTA-TAAAATTTTA-AAT
14672113 TTTT
1 TTTT
14672117 CTAAAATTTA
Statistics
Matches: 60, Mismatches: 16, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
16 6 0.10
17 7 0.12
18 6 0.10
19 2 0.03
20 7 0.12
21 28 0.47
22 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTATAAAATTTTAAAT
Found at i:14682392 original size:37 final size:38
Alignment explanation
Indices: 14682350--14682422 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
14682340 CATTACAAAA
* *
14682350 TTTTAAGATTA-CTTTTTAAGTATACTAACCATTATTT
1 TTTTAAGATTACCTTTTTAAGTATACCAACAATTATTT
14682387 TTTTAAGATTACCTTTTTAAGTATACCAACAATTAT
1 TTTTAAGATTACCTTTTTAAGTATACCAACAATTAT
14682423 ATTTAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 11 0.33
38 22 0.67
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.48
Consensus pattern (38 bp):
TTTTAAGATTACCTTTTTAAGTATACCAACAATTATTT
Found at i:14701529 original size:24 final size:24
Alignment explanation
Indices: 14701482--14701529 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14701472 AATTAAACAA
* *
14701482 TATGAGTTATTAAATTTAATTAAT
1 TATGAGTTATTAAATTCAACTAAT
*
14701506 TATGGGTTATTAAATTCAACTAAT
1 TATGAGTTATTAAATTCAACTAAT
14701530 CAATTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
TATGAGTTATTAAATTCAACTAAT
Found at i:14701678 original size:17 final size:16
Alignment explanation
Indices: 14701650--14701688 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
14701640 GAAATTTAAG
14701650 TATTTTATTAAAATAA
1 TATTTTATTAAAATAA
14701666 TATTTTGATTAAAATAA
1 TATTTT-ATTAAAATAA
*
14701683 AATTTT
1 TATTTT
14701689 TATTTGACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TATTTTATTAAAATAA
Found at i:14704754 original size:23 final size:24
Alignment explanation
Indices: 14704715--14704761 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
14704705 CATGGATAGT
14704715 AATAAAAATTATATAAAAATATTC
1 AATAAAAATTATATAAAAATATTC
* *
14704739 AATAAAAATT-TGTAAATATATTC
1 AATAAAAATTATATAAAAATATTC
14704762 TTAATATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
AATAAAAATTATATAAAAATATTC
Found at i:14708559 original size:13 final size:13
Alignment explanation
Indices: 14708541--14708568 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14708531 ATTATTGAAC
14708541 GACAAGTAACAAG
1 GACAAGTAACAAG
14708554 GACAAGTAACAAG
1 GACAAGTAACAAG
14708567 GA
1 GA
14708569 ACGACTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.25, T:0.07
Consensus pattern (13 bp):
GACAAGTAACAAG
Found at i:14715941 original size:16 final size:16
Alignment explanation
Indices: 14715908--14715941 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14715898 TCAAGGTGTT
* *
14715908 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
14715924 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
14715940 AA
1 AA
14715942 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:14718768 original size:21 final size:21
Alignment explanation
Indices: 14718742--14718782 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14718732 AGACGAGCAA
* *
14718742 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
14718763 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
14718783 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:14720717 original size:16 final size:16
Alignment explanation
Indices: 14720684--14720717 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14720674 GGAGATTGTT
* *
14720684 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
14720700 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
14720716 AA
1 AA
14720718 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:14724725 original size:21 final size:21
Alignment explanation
Indices: 14724695--14724739 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14724685 ACTTTATCTA
* * *
14724695 TTTTTGAAATTTTTATTTATT
1 TTTTTAAAATTTATATGTATT
14724716 TTTTTAAAATTTATATGTATT
1 TTTTTAAAATTTATATGTATT
14724737 TTT
1 TTT
14724740 AGTAAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTAAAATTTATATGTATT
Found at i:14724746 original size:21 final size:20
Alignment explanation
Indices: 14724693--14724747 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
14724683 TCACTTTATC
* *
14724693 TATTTTTG-AAATTTTTATT
1 TATTTTTGTAAATTTATATG
*
14724712 TATTTTTTTAAAATTTATATG
1 TATTTTTGT-AAATTTATATG
14724733 TATTTTTAGTAAATT
1 TATTTTT-GTAAATT
14724748 CTTACTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.24
21 21 0.72
22 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTTTGTAAATTTATATG
Found at i:14725941 original size:14 final size:14
Alignment explanation
Indices: 14725922--14725952 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14725912 CGCTTCCTCT
14725922 TATAAGCATTTTAA
1 TATAAGCATTTTAA
14725936 TATAAGCATTTTAA
1 TATAAGCATTTTAA
14725950 TAT
1 TAT
14725953 GTATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (14 bp):
TATAAGCATTTTAA
Found at i:14726210 original size:18 final size:18
Alignment explanation
Indices: 14726195--14726248 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
14726185 AATAAAATCA
14726195 AATAATTATTTCAAATAT
1 AATAATTATTTCAAATAT
* *
14726213 CATTATTATTTCAAATATGT
1 AATAATTATTTCAAATA--T
14726233 AA-AA-TATTTCAAATAT
1 AATAATTATTTCAAATAT
14726249 TTCAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.03
18 26 0.87
19 1 0.03
20 2 0.07
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
AATAATTATTTCAAATAT
Found at i:14726246 original size:9 final size:9
Alignment explanation
Indices: 14726219--14726258 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
14726209 ATATCATTAT
14726219 TATTTCAAA
1 TATTTCAAA
* *
14726228 TATGTAAAA
1 TATTTCAAA
14726237 TATTTCAAA
1 TATTTCAAA
14726246 TATTTCAAA
1 TATTTCAAA
14726255 TATT
1 TATT
14726259 ATTATTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (9 bp):
TATTTCAAA
Found at i:14732351 original size:14 final size:16
Alignment explanation
Indices: 14732327--14732360 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
14732317 TCTATTTGAA
14732327 TTTTATGAA-TTTTAG
1 TTTTATGAATTTTTAG
14732342 TTTT-TGAATTTTTAG
1 TTTTATGAATTTTTAG
14732357 TTTT
1 TTTT
14732361 GATTAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTTATGAATTTTTAG
Found at i:14736065 original size:25 final size:24
Alignment explanation
Indices: 14736007--14736065 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 24
14735997 ATCATTTTAA
*
14736007 AATTTAATTTAAAATTATTAGTTAT
1 AATTT-ATTTAAAATTATTAGTGAT
*
14736032 AACTCTATTTAAAATTAAGTT-GTGAT
1 AA-TTTATTTAAAATT-A-TTAGTGAT
14736058 AATTTATT
1 AATTTATT
14736066 AACTCTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 17 0.61
26 9 0.32
27 2 0.07
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (24 bp):
AATTTATTTAAAATTATTAGTGAT
Found at i:14736808 original size:22 final size:24
Alignment explanation
Indices: 14736777--14736823 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
14736767 CAATATTTAT
*
14736777 TTTTTAATTACTATAA-TTAAATA
1 TTTTTAATTAATATAATTTAAATA
*
14736800 TTTTT-ATTAATTTAATTTAAATA
1 TTTTTAATTAATATAATTTAAATA
14736823 T
1 T
14736824 ATTTCATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTAATTAATATAATTTAAATA
Found at i:14744135 original size:18 final size:18
Alignment explanation
Indices: 14744112--14744147 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14744102 ATTGCTGTAG
14744112 ATCGTTCTTCTTAATGTT
1 ATCGTTCTTCTTAATGTT
14744130 ATCGTTCTTCTTAATGTT
1 ATCGTTCTTCTTAATGTT
14744148 TTGCATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.56
Consensus pattern (18 bp):
ATCGTTCTTCTTAATGTT
Found at i:14746699 original size:130 final size:130
Alignment explanation
Indices: 14746464--14746835 Score: 397
Period size: 130 Copynumber: 2.9 Consensus size: 130
14746454 AAAATTCTTC
* * * * * * *
14746464 AAAATGAAGGCGAAATTTGATGTTCGGCGATTCGCGAAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAGATTTGATGTTTGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAA
* * * * * * *
14746529 TTTTGTATTTGCTCAAAATAATCGAATTTCCCTTCGAAATTTCATTCATATTTTTTAAAATCCCT
66 TTTCGCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * **
14746594 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATTGTGCCCTAATATGTTGGGTTGCAA
1 AAAACGAAGACGAGATTTGATGTTTGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAA
** * ** * * *
14746659 TTTCGCATTTGTTCAAAATAATCGAATATCATTTTAAAATTTTGCTCGTGTCTTTTAAAATCTCT
66 TTTCGCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * *
14746724 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCAGG-ATTGTGCCCTAACGTGTTGGGTAGCA
1 AAAACGAAGACGAGATTTGATGTTTGGCAATTCGC-GGAATTGTGCCCTAACGTGTTGGGTTGCA
* * *
14746788 ATTTCCCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
65 ATTTCGC-ATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTC
14746836 GGCTCTTCTA
Statistics
Matches: 197, Mismatches: 43, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
130 194 0.98
131 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (130 bp):
AAAACGAAGACGAGATTTGATGTTTGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:14748310 original size:22 final size:24
Alignment explanation
Indices: 14748274--14748317 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
14748264 CTTATGTGTT
*
14748274 TATATTATATATTATAATAAATAA
1 TATATTATATATTATAAAAAATAA
14748298 TATATT-TAT-TTATAAAAAAT
1 TATATTATATATTATAAAAAAT
14748318 GTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATTATATATTATAAAAAATAA
Found at i:14748323 original size:22 final size:22
Alignment explanation
Indices: 14748273--14748331 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
14748263 ACTTATGTGT
*
14748273 TTATATTATATATTATAATAAATA
1 TTATATT-TAT-TTATAAAAAATA
* *
14748297 ATATATTTATTTATAAAAAATG
1 TTATATTTATTTATAAAAAATA
14748319 TTATAATTT-TTTA
1 TTAT-ATTTATTTA
14748332 CTATAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 17 0.57
23 7 0.23
24 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATATTTATTTATAAAAAATA
Found at i:14748425 original size:16 final size:16
Alignment explanation
Indices: 14748404--14748434 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14748394 TCTTTTTTTT
14748404 TTATAAAACTTATATA
1 TTATAAAACTTATATA
*
14748420 TTATAAAATTTATAT
1 TTATAAAACTTATAT
14748435 TTTTCACTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAAAACTTATATA
Found at i:14749414 original size:24 final size:24
Alignment explanation
Indices: 14749386--14749434 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14749376 TTTACATGCT
14749386 TCAGACCCTAGGTTTAGAAAAACA
1 TCAGACCCTAGGTTTAGAAAAACA
14749410 TCAGACCCTAGGTTTAGAAAAACA
1 TCAGACCCTAGGTTTAGAAAAACA
14749434 T
1 T
14749435 ACATCTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.22
Consensus pattern (24 bp):
TCAGACCCTAGGTTTAGAAAAACA
Found at i:14752290 original size:2 final size:2
Alignment explanation
Indices: 14752283--14752307 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14752273 AGCGAAAAAT
14752283 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
14752308 TGGAGAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14752436 original size:3 final size:3
Alignment explanation
Indices: 14752417--14752462 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
14752407 ATGAAGTTTG
* *
14752417 TGA TGA TCA TGA AGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
14752463 AAGAAAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:14762092 original size:69 final size:69
Alignment explanation
Indices: 14762009--14762150 Score: 239
Period size: 69 Copynumber: 2.1 Consensus size: 69
14761999 CTGTTCTAGA
**
14762009 TGAAAGTACAAGTACTATGACTGATTCTCTAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
1 TGAAAGTACAAGTACTATGAAGGATTCTCTAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
14762074 CAGT
66 CAGT
* * *
14762078 TGAAAGTAGAAGTACTATGAAGGATTCTCTAGTGGTGTTGGATGAGGATTCACCAACCATGGATG
1 TGAAAGTACAAGTACTATGAAGGATTCTCTAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
14762143 CAGT
66 CAGT
14762147 TGAA
1 TGAA
14762151 GTTGCCATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (69 bp):
TGAAAGTACAAGTACTATGAAGGATTCTCTAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
CAGT
Found at i:14764625 original size:17 final size:17
Alignment explanation
Indices: 14764573--14764645 Score: 53
Period size: 17 Copynumber: 4.5 Consensus size: 17
14764563 TAGTAAAAAT
14764573 ATAATTTCATCACTTTA
1 ATAATTTCATCACTTTA
* * * * ***
14764590 ATAGTATCGTAAAAATA
1 ATAATTTCATCACTTTA
14764607 ATAATTTCATCACTTTA
1 ATAATTTCATCACTTTA
*
14764624 AT-ATTT-ATCTCTTT-
1 ATAATTTCATCACTTTA
14764638 ATAATTTC
1 ATAATTTC
14764646 TAAAAAATTA
Statistics
Matches: 39, Mismatches: 15, Indels: 5
0.66 0.25 0.08
Matches are distributed among these distances:
14 2 0.05
15 11 0.28
16 4 0.10
17 22 0.56
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.47
Consensus pattern (17 bp):
ATAATTTCATCACTTTA
Found at i:14777470 original size:16 final size:16
Alignment explanation
Indices: 14777449--14777482 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
14777439 TGAAAGTCAA
14777449 CTGAGCCAAAATCTTT
1 CTGAGCCAAAATCTTT
14777465 CTGAGCCAAAATCTTT
1 CTGAGCCAAAATCTTT
14777481 CT
1 CT
14777483 TTCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (16 bp):
CTGAGCCAAAATCTTT
Found at i:14790912 original size:22 final size:22
Alignment explanation
Indices: 14790861--14790905 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
14790851 TAACTTAAAT
*
14790861 AAAACTTTTAAATAGTTCAATG
1 AAAATTTTTAAATAGTTCAATG
*
14790883 AAAATTTTTAAATAGTTTAATG
1 AAAATTTTTAAATAGTTCAATG
14790905 A
1 A
14790906 CCATTTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (22 bp):
AAAATTTTTAAATAGTTCAATG
Found at i:14792643 original size:21 final size:21
Alignment explanation
Indices: 14792585--14792654 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
14792575 ATTAAATACA
14792585 AATAAATTATA-TTTTTATA-
1 AATAAATTATATTTTTTATAT
*
14792604 AA-AATATTTTTATCTTTTTATAT
1 AATAA-A-TTATAT-TTTTTATAT
14792627 AATAAATTATATTTTTTATCAT
1 AATAAATTATATTTTTTAT-AT
14792649 AATAAA
1 AATAAA
14792655 ATTTGAACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 3 0.07
20 4 0.10
21 7 0.17
22 21 0.50
23 3 0.07
24 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
AATAAATTATATTTTTTATAT
Found at i:14792643 original size:22 final size:22
Alignment explanation
Indices: 14792585--14792654 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 22
14792575 ATTAAATACA
* *
14792585 AATAAATTATATTTTTATA-AA
1 AATAAATTATATTTTTTTATAT
* * *
14792606 AAT-ATTTTTATCTTTTTATAT
1 AATAAATTATATTTTTTTATAT
14792627 AATAAATTATA-TTTTTTATCAT
1 AATAAATTATATTTTTTTAT-AT
14792649 AATAAA
1 AATAAA
14792655 ATTTGAACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 11 0.29
21 14 0.37
22 13 0.34
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (22 bp):
AATAAATTATATTTTTTTATAT
Found at i:14797648 original size:21 final size:21
Alignment explanation
Indices: 14797622--14797662 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14797612 ATCTGCTCAA
* *
14797622 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
14797643 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
14797663 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:14813569 original size:30 final size:30
Alignment explanation
Indices: 14813533--14813589 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
14813523 ACCATGATGG
*
14813533 GGTGAAACAGAAGCAGGAGAAACAGGCTGA
1 GGTGAAACAGAACCAGGAGAAACAGGCTGA
* *
14813563 GGTGAAACAGAACCAGGTGAAGCAGGC
1 GGTGAAACAGAACCAGGAGAAACAGGC
14813590 AGGTATTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.37, T:0.07
Consensus pattern (30 bp):
GGTGAAACAGAACCAGGAGAAACAGGCTGA
Found at i:14813580 original size:15 final size:15
Alignment explanation
Indices: 14813533--14813583 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
14813523 ACCATGATGG
*
14813533 GGTGAAACAGAAGCA
1 GGTGAAACAGAACCA
* * *
14813548 GGAGAAACAG-GCTGA
1 GGTGAAACAGAAC-CA
14813563 GGTGAAACAGAACCA
1 GGTGAAACAGAACCA
14813578 GGTGAA
1 GGTGAA
14813584 GCAGGCAGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.43, C:0.14, G:0.35, T:0.08
Consensus pattern (15 bp):
GGTGAAACAGAACCA
Found at i:14824575 original size:6 final size:6
Alignment explanation
Indices: 14824554--14824634 Score: 85
Period size: 6 Copynumber: 13.8 Consensus size: 6
14824544 CGGCTACACA
* * *
14824554 AATTTT GATTTT --TTTT AATTTT AATTTT AATTTT AGTTTT AGTTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * *
14824600 AGTTTT AGTTTT AGTTTT AGTTTT AATTTT AATTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTT
14824635 ATTAAATGGT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
4 4 0.06
6 66 0.94
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (6 bp):
AATTTT
Found at i:14824593 original size:18 final size:18
Alignment explanation
Indices: 14824554--14824634 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
14824544 CGGCTACACA
*
14824554 AATTTTGATTTT--TTTT
1 AATTTTAATTTTAGTTTT
*
14824570 AATTTTAATTTTAATTTT
1 AATTTTAATTTTAGTTTT
* *
14824588 AGTTTTAGTTTTAGTTTT
1 AATTTTAATTTTAGTTTT
* *
14824606 AGTTTTAGTTTTAGTTTT
1 AATTTTAATTTTAGTTTT
14824624 AATTTTAATTT
1 AATTTTAATTT
14824635 ATTAAATGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
16 11 0.19
18 46 0.81
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
AATTTTAATTTTAGTTTT
Found at i:14829354 original size:18 final size:17
Alignment explanation
Indices: 14829327--14829363 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
14829317 ATTCTTTATT
*
14829327 TTATTAATATATTATAA
1 TTATTAATATAATATAA
14829344 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
14829362 TT
1 TT
14829364 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:14831470 original size:11 final size:11
Alignment explanation
Indices: 14831446--14831486 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
14831436 TATATAACAA
*
14831446 CAAAATAGTAG
1 CAAAATAATAG
*
14831457 CAATATAATAG
1 CAAAATAATAG
*
14831468 CAAAATGATAG
1 CAAAATAATAG
14831479 CAAAATAA
1 CAAAATAA
14831487 CATCAAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:14831471 original size:22 final size:22
Alignment explanation
Indices: 14831437--14831496 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
14831427 TTTAAATAAT
14831437 ATATAACAACAAAAT-AGTAGCA
1 ATATAACAACAAAATGA-TAGCA
* *
14831459 ATATAATAGCAAAATGATAGCA
1 ATATAACAACAAAATGATAGCA
* *
14831481 AAATAACATCAAAATG
1 ATATAACAACAAAATG
14831497 GCAACAAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.58, C:0.12, G:0.10, T:0.20
Consensus pattern (22 bp):
ATATAACAACAAAATGATAGCA
Found at i:14836874 original size:92 final size:92
Alignment explanation
Indices: 14836717--14836899 Score: 339
Period size: 92 Copynumber: 2.0 Consensus size: 92
14836707 AGTTGTTTAT
*
14836717 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGATGCTTTTATTCTGTTGTTCATGATG
1 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGATGCTTTTATTCTGTTGCTCATGATG
14836782 GATGAGATGGAGATGACTAGCACAGCC
66 GATGAGATGGAGATGACTAGCACAGCC
* *
14836809 ATTATTAGATGAATTTAGCTGCATCTATGTATCTGTATGATGCTTTTATTCTGTTGCTCATGATG
1 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGATGCTTTTATTCTGTTGCTCATGATG
14836874 GATGAGATGGAGATGACTAGCACAGC
66 GATGAGATGGAGATGACTAGCACAGC
14836900 TATGAAAGAG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (92 bp):
ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGATGCTTTTATTCTGTTGCTCATGATG
GATGAGATGGAGATGACTAGCACAGCC
Found at i:14848685 original size:24 final size:26
Alignment explanation
Indices: 14848653--14848702 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
14848643 ATAATAAAAA
*
14848653 TATAATTTTATCA-TTTT-AATAATT
1 TATAATTTTATAATTTTTAAATAATT
*
14848677 TATATTTTTATAATTTTTAAATAATT
1 TATAATTTTATAATTTTTAAATAATT
14848703 AAATTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TATAATTTTATAATTTTTAAATAATT
Found at i:14848689 original size:15 final size:16
Alignment explanation
Indices: 14848653--14848692 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
14848643 ATAATAAAAA
14848653 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
14848670 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
14848685 TATAATTT
1 TATAATTT
14848693 TTAAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:14848712 original size:30 final size:30
Alignment explanation
Indices: 14848632--14848726 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
14848622 AATTAAATTG
* * *
14848632 TAATTTTTATAATAATAAAAATATAATTTTA
1 TAATTTTTA-AATAATTAAATTATATTTTTA
*
14848663 TCA-TTTT-AATAA-T---TTATATTTTTA
1 TAATTTTTAAATAATTAAATTATATTTTTA
14848687 TAATTTTTAAATAATTAAATTATATTTTTA
1 TAATTTTTAAATAATTAAATTATATTTTTA
*
14848717 TTATTTTTAA
1 TAATTTTTAA
14848727 GGACTCCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
24 11 0.21
25 4 0.08
26 5 0.10
27 1 0.02
28 5 0.10
30 24 0.46
31 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (30 bp):
TAATTTTTAAATAATTAAATTATATTTTTA
Found at i:14853408 original size:28 final size:30
Alignment explanation
Indices: 14853376--14853434 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
14853366 TGCAGATAGT
* *
14853376 AAAAAAGT-AGATTTAGAGATGCGTATGGA
1 AAAAAAGTAAGATATAGAGATGCATATGGA
14853405 AAAAAAGTAAGATATAGAGATGCATATGGA
1 AAAAAAGTAAGATATAGAGATGCATATGGA
14853435 TCAAAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.49, C:0.03, G:0.25, T:0.22
Consensus pattern (30 bp):
AAAAAAGTAAGATATAGAGATGCATATGGA
Found at i:14859528 original size:16 final size:15
Alignment explanation
Indices: 14859504--14859537 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
14859494 ACACCGCAAC
*
14859504 AAAAAATAATAAACA
1 AAAAAATAAGAAACA
14859519 AAAAACATAAGAAACA
1 AAAAA-ATAAGAAACA
14859535 AAA
1 AAA
14859538 TATATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAAAATAAGAAACA
Found at i:14865495 original size:3 final size:3
Alignment explanation
Indices: 14865487--14865523 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14865477 TAAACCTTAA
14865487 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
14865524 GCAAGCTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:14876502 original size:13 final size:12
Alignment explanation
Indices: 14876486--14876519 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
14876476 GGTTTTTGCC
14876486 TTTCTTTTTCTTT
1 TTTCTTTTT-TTT
14876499 TTTCTTTTTTTT
1 TTTCTTTTTTTT
14876511 TTTACTTTT
1 TTT-CTTTT
14876520 AATAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:14877370 original size:14 final size:15
Alignment explanation
Indices: 14877351--14877379 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14877341 TGAATTTAGC
14877351 AGTTAAA-TTTATTA
1 AGTTAAATTTTATTA
14877365 AGTTAAATTTTATTA
1 AGTTAAATTTTATTA
14877380 TTCATCTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
AGTTAAATTTTATTA
Found at i:14879462 original size:47 final size:48
Alignment explanation
Indices: 14879363--14879463 Score: 120
Period size: 49 Copynumber: 2.1 Consensus size: 48
14879353 CCCCCTCCCA
*
14879363 TCCCTC-TCCCTTTTCCCCACCATCCCTTCCCCTACTCTGGTTCTCTC
1 TCCCTCTTCCCTTTTCCCCACCATCCCTTCCCCTACTCTGATTCTCTC
* * *
14879410 TCCCTCTTCCCTTCTTCCCTACCATCCC-TCCTCTTATTCTGATTCT-T-
1 TCCCTCTTCCCTT-TTCCCCACCATCCCTTCC-CCTACTCTGATTCTCTC
14879457 TCCCTCT
1 TCCCTCT
14879464 CCTCCACCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 13 0.28
48 10 0.21
49 24 0.51
ACGTcount: A:0.07, C:0.50, G:0.03, T:0.41
Consensus pattern (48 bp):
TCCCTCTTCCCTTTTCCCCACCATCCCTTCCCCTACTCTGATTCTCTC
Found at i:14880185 original size:84 final size:84
Alignment explanation
Indices: 14880042--14880212 Score: 288
Period size: 84 Copynumber: 2.0 Consensus size: 84
14880032 ATGGCTGAAC
* *
14880042 CACACGCCCGTGTGCTAGACCATGTGCCCATTCGAAATAGCCTTTCACACTTGTATGCTAGCCAT
1 CACACGCCCGTGTGCTAGACCATGTGCCCATTCGAAATAGCCTCTCACACTTGGATGCTAGCCAT
14880107 GTGTCTCACATGGCCCAGT
66 GTGTCTCACATGGCCCAGT
* * *
14880126 CACACGCCCGTGTGCTAGACCATGTGCCCCTTCGAAATAGCCTCTCACGCTTGGGTGCTAGCCAT
1 CACACGCCCGTGTGCTAGACCATGTGCCCATTCGAAATAGCCTCTCACACTTGGATGCTAGCCAT
*
14880191 GTGTCTTACATGGCCCAGT
66 GTGTCTCACATGGCCCAGT
14880210 CAC
1 CAC
14880213 TCAAAATGTA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (84 bp):
CACACGCCCGTGTGCTAGACCATGTGCCCATTCGAAATAGCCTCTCACACTTGGATGCTAGCCAT
GTGTCTCACATGGCCCAGT
Found at i:14881677 original size:11 final size:10
Alignment explanation
Indices: 14881656--14881708 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 10
14881646 TTTTTCCCTT
14881656 TTTCTTTTTC
1 TTTCTTTTTC
14881666 TTTCTTTCTTC
1 TTTCTTT-TTC
*
14881677 TTTCTGTTTC
1 TTTCTTTTTC
*
14881687 GTTTCTATCTTTA
1 -TTTCT-T-TTTC
14881700 TTTCTTTTT
1 TTTCTTTTT
14881709 ATTACTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 13 0.36
11 15 0.42
12 5 0.14
13 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.74
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:14881691 original size:22 final size:21
Alignment explanation
Indices: 14881656--14881697 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14881646 TTTTTCCCTT
* *
14881656 TTTCTTTTTCTTTCTTTCTTC
1 TTTCTGTTTCTTTCTATCTTC
14881677 TTTCTGTTTCGTTTCTATCTT
1 TTTCTGTTTC-TTTCTATCTT
14881698 TATTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTCTGTTTCTTTCTATCTTC
Found at i:14882625 original size:30 final size:30
Alignment explanation
Indices: 14882589--14882658 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
14882579 GGAGAGGGAT
14882589 GGAAAATGGTAGTT-TGGTTAAGCCTATAAC
1 GGAAAATGGTAGTTCT-GTTAAGCCTATAAC
* * * *
14882619 GTAAAATAGTAGTTCTGTTACGCTTATAAC
1 GGAAAATGGTAGTTCTGTTAAGCCTATAAC
14882649 GGAAAATGGT
1 GGAAAATGGT
14882659 TAGTGGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (30 bp):
GGAAAATGGTAGTTCTGTTAAGCCTATAAC
Found at i:14883439 original size:11 final size:11
Alignment explanation
Indices: 14883423--14883448 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14883413 AAGGGTATCC
14883423 TTTTGCTTTAG
1 TTTTGCTTTAG
14883434 TTTTGCTTTAG
1 TTTTGCTTTAG
14883445 TTTT
1 TTTT
14883449 TAAATAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.15, T:0.69
Consensus pattern (11 bp):
TTTTGCTTTAG
Found at i:14885076 original size:30 final size:30
Alignment explanation
Indices: 14885040--14885105 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
14885030 ACTTATTTTA
14885040 TTGTTAACTTTT-TTATTATTTTA-AAGACAT
1 TTGTTAA-TTTTGTTATTATTTTAGAA-ACAT
14885070 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTTTAGAAACAT
14885100 TTGTTA
1 TTGTTA
14885106 GTTAAGTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 4 0.12
30 28 0.82
31 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAACAT
Found at i:14885246 original size:12 final size:12
Alignment explanation
Indices: 14885225--14885258 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14885215 TATATATTTT
*
14885225 AAAATTATATAA
1 AAAATAATATAA
14885237 AAAATAATATAA
1 AAAATAATATAA
*
14885249 AAATTAATAT
1 AAAATAATAT
14885259 GGGCTAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:14888531 original size:13 final size:14
Alignment explanation
Indices: 14888509--14888545 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14888499 TTTTTATCAT
14888509 ATATTAAAATAAAA
1 ATATTAAAATAAAA
14888523 ATATT-AAATAAAA
1 ATATTAAAATAAAA
*
14888536 A-ATAAAAATA
1 ATATTAAAATA
14888546 CTTTGAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 2 0.10
13 14 0.67
14 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
ATATTAAAATAAAA
Found at i:14890096 original size:52 final size:52
Alignment explanation
Indices: 14890039--14890143 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
14890029 TATAACATAT
14890039 TTTCAAAAATCTTCTCATTAAAAATATAATATAGGTTGTATACACAGTAAAA
1 TTTCAAAAATCTTCTCATTAAAAATATAATATAGGTTGTATACACAGTAAAA
*
14890091 TTTCAAAAATCTTTTCATTAAAAATATAATATAGGTTGTATACACAGTAAAA
1 TTTCAAAAATCTTCTCATTAAAAATATAATATAGGTTGTATACACAGTAAAA
14890143 T
1 T
14890144 AAATAATAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (52 bp):
TTTCAAAAATCTTCTCATTAAAAATATAATATAGGTTGTATACACAGTAAAA
Found at i:14893106 original size:11 final size:11
Alignment explanation
Indices: 14893092--14893136 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
14893082 AGATAAATAT
14893092 TATTTTATTAA
1 TATTTTATTAA
*
14893103 TATTTTAATAA
1 TATTTTATTAA
*
14893114 TATATTTGATTAT
1 TAT-TTT-ATTAA
14893127 TATTTTATTA
1 TATTTTATTA
14893137 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 17 0.59
12 6 0.21
13 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:14893119 original size:24 final size:24
Alignment explanation
Indices: 14893087--14893142 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
14893077 TAATTAGATA
*
14893087 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTGATTAATATTTTAAT
* *
14893112 AATATATTTGATTATTATTTTATT
1 AATATATTTGATTAATATTTTAAT
*
14893136 AGTATAT
1 AATATAT
14893143 AAAGAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AATATATTTGATTAATATTTTAAT
Found at i:14895328 original size:38 final size:41
Alignment explanation
Indices: 14895277--14895442 Score: 158
Period size: 46 Copynumber: 3.9 Consensus size: 41
14895267 CTGATATGAA
14895277 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-T-G
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATAG
* *
14895316 -TGTGTAAAACCATGGTTGAAAGATACCATGACAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT-AG
*
14895361 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CAT-AG
* ** *
14895407 AAGAATAAGACCATGGTTGAAAGATACCGTGGCAAC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
14895443 ATGACAGAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
38 34 0.32
43 1 0.01
45 1 0.01
46 69 0.65
50 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (41 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATAG
Found at i:14895383 original size:46 final size:46
Alignment explanation
Indices: 14895319--14895486 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
14895309 CAACCTGTGT
* * * * * *
14895319 GTAAAACCATGGTTGAAAGATACCATGACAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
14895365 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
14895411 ATAAGACCATGGTTGAAAGATACCGTGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
14895457 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
14895487 TCACGTCAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 104 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:14896715 original size:20 final size:21
Alignment explanation
Indices: 14896674--14896727 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
14896664 TTTTTAAATA
*
14896674 AAAATTATAAAAATACTCTTT
1 AAAATTAAAAAAATACTCTTT
14896695 AAAATTAAAAAAATGA-T-TTT
1 AAAATTAAAAAAAT-ACTCTTT
*
14896715 AAAAATAAAAAAA
1 AAAATTAAAAAAA
14896728 AAACAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 15 0.50
21 14 0.47
22 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATTAAAAAAATACTCTTT
Found at i:14896719 original size:21 final size:22
Alignment explanation
Indices: 14896672--14896728 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
14896662 TATTTTTAAA
*
14896672 TAAAAATTATAAAAATACTCTT
1 TAAAAATTAAAAAAATACTCTT
14896694 T-AAAATTAAAAAAATGA-T-TT
1 TAAAAATTAAAAAAAT-ACTCTT
*
14896714 TAAAAATAAAAAAAA
1 TAAAAATTAAAAAAA
14896729 AACAAAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAAAATTAAAAAAATACTCTT
Found at i:14913778 original size:21 final size:21
Alignment explanation
Indices: 14913752--14913792 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14913742 ATCTGCTCAA
* *
14913752 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
14913773 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
14913793 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:14916640 original size:30 final size:33
Alignment explanation
Indices: 14916569--14916634 Score: 80
Period size: 36 Copynumber: 1.9 Consensus size: 33
14916559 TGGTTGTCAT
*
14916569 TATTGATTGTCTCCCATTAATGTTAATGGCAACCA
1 TATTAATTGTCTCCCATTAATGTTAA--GCAACCA
*
14916604 TTATTAATTGTCTTCCATTAATGTTAA-CAAC
1 -TATTAATTGTCTCCCATTAATGTTAAGCAAC
14916635 TATTAACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
36 24 0.86
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (33 bp):
TATTAATTGTCTCCCATTAATGTTAAGCAACCA
Found at i:14918050 original size:20 final size:20
Alignment explanation
Indices: 14918027--14918068 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14918017 AGGGATCGAA
14918027 ATTAAATTTTAATTTTTATG
1 ATTAAATTTTAATTTTTATG
14918047 ATTAAATTTTAATTTTTATG
1 ATTAAATTTTAATTTTTATG
14918067 AT
1 AT
14918069 AGTAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
ATTAAATTTTAATTTTTATG
Found at i:14919291 original size:22 final size:22
Alignment explanation
Indices: 14919251--14919294 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14919241 TAAAAGTATT
14919251 AAAATATAAATTATATATTATA
1 AAAATATAAATTATATATTATA
*
14919273 AAAACTATAAA-TATTTATTATA
1 AAAA-TATAAATTATATATTATA
14919295 GATAATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATATAAATTATATATTATA
Found at i:14920977 original size:17 final size:19
Alignment explanation
Indices: 14920945--14920984 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
14920935 TTTGTTAAAA
14920945 AAATAGAAATAAATTTA-T
1 AAATAGAAATAAATTTATT
*
14920963 AAATAG-AATATATTTATT
1 AAATAGAAATAAATTTATT
14920981 AAAT
1 AAAT
14920985 TGGATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AAATAGAAATAAATTTATT
Found at i:14921804 original size:15 final size:15
Alignment explanation
Indices: 14921784--14921813 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14921774 TTTTTTGCAA
14921784 AGTCAATTAAATTAT
1 AGTCAATTAAATTAT
14921799 AGTCAATTAAATTAT
1 AGTCAATTAAATTAT
14921814 TATAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
AGTCAATTAAATTAT
Found at i:14922149 original size:14 final size:15
Alignment explanation
Indices: 14922130--14922158 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14922120 TCGGAACATA
14922130 AAAATAT-TAAATTT
1 AAAATATATAAATTT
14922144 AAAATATATAAATTT
1 AAAATATATAAATTT
14922159 TAGTTTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATATATAAATTT
Found at i:14922442 original size:10 final size:9
Alignment explanation
Indices: 14922416--14922440 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14922406 TTCTGTTATT
14922416 TATTTTTAA
1 TATTTTTAA
14922425 TATTTTTAA
1 TATTTTTAA
14922434 TATTTTT
1 TATTTTT
14922441 TAGTCAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTTTAA
Found at i:14924995 original size:12 final size:13
Alignment explanation
Indices: 14924971--14925006 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
14924961 ATATTAGTTT
14924971 ATTAATATTTTAA
1 ATTAATATTTTAA
14924984 ATTAAT-TTTTAA
1 ATTAATATTTTAA
14924996 A-TAATATTTTA
1 ATTAATATTTTA
14925007 TTATTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.18
12 12 0.55
13 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTAATATTTTAA
Found at i:14927539 original size:22 final size:23
Alignment explanation
Indices: 14927513--14927558 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14927503 CAACCAAACC
14927513 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
14927535 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
14927558 A
1 A
14927559 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:14927564 original size:23 final size:23
Alignment explanation
Indices: 14927520--14927564 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14927510 ACCAATTCAA
*
14927520 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
14927543 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
14927565 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:14932801 original size:29 final size:30
Alignment explanation
Indices: 14932748--14932807 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14932738 TCTGAGCCTT
* *
14932748 GGGGCAAAAATGTAATTATGTAAAAATTTA
1 GGGGCAAAAATATAATTATGTAAAAAGTTA
* *
14932778 GGGGCAAAATTATAATTTTG-AAAAAGTTA
1 GGGGCAAAAATATAATTATGTAAAAAGTTA
14932807 G
1 G
14932808 AGTCGAGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.30
Consensus pattern (30 bp):
GGGGCAAAAATATAATTATGTAAAAAGTTA
Found at i:14933036 original size:13 final size:13
Alignment explanation
Indices: 14933018--14933048 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14933008 TTCCAGCAAC
14933018 TATGAATTTATTT
1 TATGAATTTATTT
14933031 TATGAATTTATTT
1 TATGAATTTATTT
*
14933044 GATGA
1 TATGA
14933049 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:14933219 original size:50 final size:50
Alignment explanation
Indices: 14933143--14933335 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
14933133 ATTTGGGTAA
*
14933143 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
14933193 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
14933243 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
14933293 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
14933336 TGTTATTATC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 94 0.73
51 34 0.27
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:14941041 original size:24 final size:24
Alignment explanation
Indices: 14941009--14941056 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14940999 TTGCAAGCCG
* *
14941009 ACACATATAGCCAAATTAATAATT
1 ACACATATAACCAAAATAATAATT
*
14941033 ACACATATAACCAAAATATTAATT
1 ACACATATAACCAAAATAATAATT
14941057 CCTATACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (24 bp):
ACACATATAACCAAAATAATAATT
Found at i:14942109 original size:42 final size:42
Alignment explanation
Indices: 14942000--14942149 Score: 178
Period size: 42 Copynumber: 3.5 Consensus size: 42
14941990 ATACCAATTA
*
14942000 CATATCCC-AGATATGGTCTTACAT-ATAATCTCGTATCGATGC
1 CATATCCCAAG-TATGGTCTTACATGA-AATCTCATATCGATGC
* ** * * *
14942042 CAATAGCCCACCTATGATCTTACATGAAGTCTCATATCGATGT
1 C-ATATCCCAAGTATGGTCTTACATGAAATCTCATATCGATGC
*
14942085 CATATCCTAAGTATGGTCTTACATGAAATCTCATATCGATGC
1 CATATCCCAAGTATGGTCTTACATGAAATCTCATATCGATGC
*
14942127 CATATCCCAGGTATGGTCTTACA
1 CATATCCCAAGTATGGTCTTACA
14942150 CAGAATCTCA
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
42 56 0.63
43 32 0.36
44 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
CATATCCCAAGTATGGTCTTACATGAAATCTCATATCGATGC
Found at i:14945933 original size:19 final size:19
Alignment explanation
Indices: 14945893--14945930 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
14945883 TAATAGTATT
14945893 TTATTATTTAATATTAAAA
1 TTATTATTTAATATTAAAA
14945912 TTATTATCTTAATATTAAA
1 TTATTAT-TTAATATTAAA
14945931 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTATTTAATATTAAAA
Found at i:14946005 original size:24 final size:24
Alignment explanation
Indices: 14945975--14946046 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
14945965 TATTACTTTA
14945975 ATAATATTTAATGTTAAATTTAAT
1 ATAATATTTAATGTTAAATTTAAT
14945999 ATAATATTTAATGTTAAATTTAAT
1 ATAATATTTAATGTTAAATTTAAT
*
14946023 ATAATATTT-ATATTAAA-TTAAT
1 ATAATATTTAATGTTAAATTTAAT
14946045 AT
1 AT
14946047 TAAAGTGATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 7 0.15
23 7 0.15
24 33 0.70
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
ATAATATTTAATGTTAAATTTAAT
Found at i:14946031 original size:12 final size:13
Alignment explanation
Indices: 14945975--14946032 Score: 70
Period size: 12 Copynumber: 4.8 Consensus size: 13
14945965 TATTACTTTA
14945975 ATAATATTTAATG
1 ATAATATTTAATG
*
14945988 TTAA-ATTTAAT-
1 ATAATATTTAATG
14945999 ATAATATTTAATG
1 ATAATATTTAATG
*
14946012 TTAA-ATTTAAT-
1 ATAATATTTAATG
14946023 ATAATATTTA
1 ATAATATTTA
14946033 TATTAAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.16
12 26 0.68
13 6 0.16
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATAATATTTAATG
Found at i:14948407 original size:24 final size:25
Alignment explanation
Indices: 14948375--14948421 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
14948365 CTGTGTAACG
14948375 GGAAGCTCAAAAGAGCC-ATAATTA
1 GGAAGCTCAAAAGAGCCAATAATTA
14948399 GGAAGCTCAAAAGAGCCAATAAT
1 GGAAGCTCAAAAGAGCCAATAAT
14948422 GGGTAGCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (25 bp):
GGAAGCTCAAAAGAGCCAATAATTA
Found at i:14948472 original size:25 final size:26
Alignment explanation
Indices: 14948375--14948504 Score: 85
Period size: 25 Copynumber: 5.2 Consensus size: 26
14948365 CTGTGTAACG
* * *
14948375 GGAAGCTCAAAAGAGCC--ATAATTA
1 GGAAGCTCCAGAGAGCCAAATAATCA
* * *
14948399 GGAAGCTCAAAAGAGCC-AATAAT-G
1 GGAAGCTCCAGAGAGCCAAATAATCA
* * *
14948423 GGTAGCTCC-GA-AGAACAATTAATCA
1 GGAAGCTCCAGAGAG-CCAAATAATCA
* * *
14948448 GGAAGCTCCGGATAGCCATAT-ATCA
1 GGAAGCTCCAGAGAGCCAAATAATCA
14948473 GGAAGCTCCAGAGAGCCAAATAATCA
1 GGAAGCTCCAGAGAGCCAAATAATCA
*
14948499 GAAAGC
1 GGAAGC
14948505 CCATGAAAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 12
0.76 0.14 0.11
Matches are distributed among these distances:
22 2 0.02
23 2 0.02
24 29 0.35
25 35 0.42
26 14 0.17
27 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (26 bp):
GGAAGCTCCAGAGAGCCAAATAATCA
Done.