Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 63 of 144
Found at i:13494106 original size:27 final size:27
Alignment explanation
Indices: 13494076--13494147 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
13494066 AACACATCAG
**
13494076 GATAGAAATGCCTTTGTGATGAACTCT
1 GATAGAAATGCCTTTGTGACAAACTCT
* *
13494103 GATAGAAATTCCTTTGTGGCAAACTCT
1 GATAGAAATGCCTTTGTGACAAACTCT
* * *
13494130 GAGAGAACTGTCTTTGTG
1 GATAGAAATGCCTTTGTG
13494148 GAAAAATCGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (27 bp):
GATAGAAATGCCTTTGTGACAAACTCT
Found at i:13499869 original size:29 final size:29
Alignment explanation
Indices: 13499836--13499897 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
13499826 AATAGGTTTT
*
13499836 ACACTGGAAAATCGTTTT-CAGCCAAACAA
1 ACACTAGAAAATC-TTTTACAGCCAAACAA
* *
13499865 ACACTATAAAATCTTTTACAGCCAAATAA
1 ACACTAGAAAATCTTTTACAGCCAAACAA
13499894 ACAC
1 ACAC
13499898 AACCTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.23
Consensus pattern (29 bp):
ACACTAGAAAATCTTTTACAGCCAAACAA
Found at i:13501747 original size:51 final size:51
Alignment explanation
Indices: 13501688--13501839 Score: 178
Period size: 63 Copynumber: 2.7 Consensus size: 51
13501678 TAAACGAAAG
13501688 AGTCTGATGACTAAGTGTCATCGTGAGTAAACGAATCCTCTACGGATTAAA
1 AGTCTGATGACTAAGTGTCATCGTGAGTAAACGAATCCTCTACGGATTAAA
13501739 AGTCTGATGACTAAGTGTCATCGTGAGTATCATCGTGAGTAAACGAATCCTCTACGGATTAAA
1 AGTCTGATGACT-A-----A--GT--G--TCATCGTGAGTAAACGAATCCTCTACGGATTAAA
* *
13501802 GGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCC
1 AGTCTGATGACTAAGTGTCATCGTGAGTAAACGAATCC
13501840 ATGACGAATT
Statistics
Matches: 87, Mismatches: 2, Indels: 24
0.77 0.02 0.21
Matches are distributed among these distances:
51 32 0.37
52 1 0.01
53 1 0.01
55 2 0.02
57 2 0.02
59 2 0.02
61 1 0.01
62 1 0.01
63 45 0.52
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTCTGATGACTAAGTGTCATCGTGAGTAAACGAATCCTCTACGGATTAAA
Found at i:13501807 original size:63 final size:63
Alignment explanation
Indices: 13501705--13501830 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
13501695 TGACTAAGTG
13501705 TCATCGTGAGTAAACGAATCCTCTACGGATTAAAAGTCTGATGACTAAGTGTCATCGTGAGTA
1 TCATCGTGAGTAAACGAATCCTCTACGGATTAAAAGTCTGATGACTAAGTGTCATCGTGAGTA
*
13501768 TCATCGTGAGTAAACGAATCCTCTACGGATTAAAGGTCTGATGACTAAGTGTCATCGTGAGTA
1 TCATCGTGAGTAAACGAATCCTCTACGGATTAAAAGTCTGATGACTAAGTGTCATCGTGAGTA
13501831 AATGAATCCA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (63 bp):
TCATCGTGAGTAAACGAATCCTCTACGGATTAAAAGTCTGATGACTAAGTGTCATCGTGAGTA
Found at i:13501851 original size:51 final size:51
Alignment explanation
Indices: 13501768--13501881 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 51
13501758 ATCGTGAGTA
* * * *
13501768 TCATCGTGAGTAAACGAATCCTCTACGGATTAAAGGT-CTGATGACTAA-GTG
1 TCATCGTGAGTAAACGAATCCTCGACGAATTAAAGGTCCAG-TGAC-AATATG
*
13501819 TCATCGTGAGTAAATGAATCCAT-GACGAATTAAAGGTCCAGTGACAATATG
1 TCATCGTGAGTAAACGAATCC-TCGACGAATTAAAGGTCCAGTGACAATATG
13501870 TCATCGTGAGTA
1 TCATCGTGAGTA
13501882 TTAAATGGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
50 2 0.04
51 50 0.91
52 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (51 bp):
TCATCGTGAGTAAACGAATCCTCGACGAATTAAAGGTCCAGTGACAATATG
Found at i:13502604 original size:21 final size:19
Alignment explanation
Indices: 13502580--13502631 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
13502570 GAGTTTTTAA
13502580 TATCGGTAGATGCATGACTTG
1 TATCGGTAGAT-CAT-ACTTG
*
13502601 TATCGGTAGAAATTATACTTG
1 TATCGGTAG--ATCATACTTG
13502622 TATCGGTAGA
1 TATCGGTAGA
13502632 ACTATTACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
21 23 0.82
22 2 0.07
23 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (19 bp):
TATCGGTAGATCATACTTG
Found at i:13510803 original size:23 final size:23
Alignment explanation
Indices: 13510744--13510867 Score: 121
Period size: 23 Copynumber: 5.3 Consensus size: 23
13510734 ACACTAGCGC
*
13510744 GCTCTCT-ATTTAGCAC-GTCTCGT
1 GCTCTCTGA-TTAGCACTGTGT-GT
13510767 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
* *
13510792 GCTCTCTGATTAGCACTTTATGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
13510815 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
13510838 AC-CTCT-ATTTAGCACTGTGTGT
1 GCTCTCTGA-TTAGCACTGTGTGT
13510860 GCTCTCTG
1 GCTCTCTG
13510868 TTGCCCAGCA
Statistics
Matches: 85, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
21 1 0.01
22 17 0.20
23 46 0.54
25 17 0.20
26 4 0.05
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:13510857 original size:68 final size:65
Alignment explanation
Indices: 13510778--13510907 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 65
13510768 CTCTCTGTTA
13510778 TTAGCACTGTGTGTGCTCTCTGATT-AGCACTTTATGTGCTCTCTGATTAGTACTTTGTGTACCT
1 TTAGCACTGTGTGTGCTCTCTG-TTCAGCAC-TTATGTGCTCTCTG-TTAGTACTTTG-GTACCT
13510842 CTAT
62 CTAT
13510846 TTAGCACTGTGTGTGCTCTCTGTTGCCCAGCACTTATGTGCTCTCTGTTAGTACTTTGGTAC
1 TTAGCACTGTGTGTGCTCTCTGTT---CAGCACTTATGTGCTCTCTGTTAGTACTTTGGTAC
13510908 TCTCAGTTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
67 2 0.03
68 26 0.45
69 11 0.19
70 14 0.24
71 5 0.09
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (65 bp):
TTAGCACTGTGTGTGCTCTCTGTTCAGCACTTATGTGCTCTCTGTTAGTACTTTGGTACCTCTAT
Found at i:13517874 original size:23 final size:23
Alignment explanation
Indices: 13517844--13517970 Score: 114
Period size: 23 Copynumber: 5.4 Consensus size: 23
13517834 ACACTAGCAC
13517844 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTCT-GT
*
13517867 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTCTGT
* * *
13517892 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
* * *
13517915 GCTCTCTGATTT-GTACTTTGTGT
1 GCTCTCTG-TTTAGCACTGTCTGT
* * *
13517938 ACTCTCTGTTTAGCATTGTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
13517961 GCTCTCTGTT
1 GCTCTCTGTT
13517971 GCCCAGCACT
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.03
23 63 0.71
24 3 0.03
25 17 0.19
26 3 0.03
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.46
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTCTGT
Found at i:13517960 original size:46 final size:47
Alignment explanation
Indices: 13517845--13517969 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 47
13517835 CACTAGCACG
* * *
13517845 CTCTCTGTTTAGCA-CGTCTCGTGCTCTCTGTTATTAGCACTGTGTGTG
1 CTCTCTGTTTAGCATTGTGT-GTGCTCTCTG-TATTAGCACTGTGTGTA
* * * *
13517893 CTCTCTGATTAGCACTT-TGTGTGCTCTCTG-ATTTGTACTTTGTGTA
1 CTCTCTGTTTAGCA-TTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
13517939 CTCTCTGTTTAGCATTGTGTGTGCTCTCTGT
1 CTCTCTGTTTAGCATTGTGTGTGCTCTCTGT
13517970 TGCCCAGCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.03
46 38 0.58
48 23 0.35
49 2 0.03
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.46
Consensus pattern (47 bp):
CTCTCTGTTTAGCATTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
Found at i:13518009 original size:69 final size:69
Alignment explanation
Indices: 13517868--13518017 Score: 182
Period size: 69 Copynumber: 2.1 Consensus size: 69
13517858 ACGTCTCGTG
* *
13517868 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTTGTACTT
1 CTCTCTG-T-TTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTT
13517933 TGTGTA
64 TGTGTA
*
13517939 CTCTCTGTTTAGCATTGTGTGTGCTCTCTG-TTGCCCAGCAC-TTATGTGCTCTCTG-TTAGTAC
1 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGATT----AGCACTTTATGTGCTCTCTGATTAGTAC
13518001 TTTG-GTA
62 TTTGTGTA
*
13518008 CTCTCAGTTT
1 CTCTCTGTTT
13518018 GTTCCATATA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
68 2 0.03
69 33 0.46
70 11 0.15
71 20 0.28
72 5 0.07
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (69 bp):
CTCTCTGTTTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTTTG
TGTA
Found at i:13519340 original size:2 final size:2
Alignment explanation
Indices: 13519327--13519368 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
13519317 ATTTATTATC
*
13519327 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13519369 CAACTTTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13520441 original size:3 final size:3
Alignment explanation
Indices: 13520422--13520473 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
13520412 CGCTACAATG
* * *
13520422 TCT TCC TCT TTT TCT TCT TCT TCT TCT TCCT TC- TCT TCT TCT TCA
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT
13520467 TCT TCT T
1 TCT TCT T
13520474 TCACACCCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:13543663 original size:18 final size:18
Alignment explanation
Indices: 13543642--13543694 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
13543632 GCATTCGAAC
*
13543642 ATGTGGTTGCATCTGATT
1 ATGTGATTGCATCTGATT
* **
13543660 ATGTGACTGCATCTGGGT
1 ATGTGATTGCATCTGATT
13543678 ATGTGATTGCATCTGAT
1 ATGTGATTGCATCTGAT
13543695 CAAGTTGCAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (18 bp):
ATGTGATTGCATCTGATT
Found at i:13545172 original size:34 final size:35
Alignment explanation
Indices: 13545113--13545249 Score: 102
Period size: 38 Copynumber: 3.8 Consensus size: 35
13545103 CTGTACATGT
*
13545113 TTATGCAGCGACA-TTCCTTGGTGCAA-TT-GAATAC
1 TTATGCAGCGATAGTT--TTGGTGCAATTTAGAATAC
*
13545147 TTATGCAGCGATAGTTTTGGATGCAATTTGAAGAATAT
1 TTATGCAGCGATAGTTTTGG-TGCAATTT--AGAATAC
* * *
13545185 TTATGCAGCGATAGTCTTGGGTGC-ATTCTGGAAATAT
1 TTATGCAGCGATAGT-TTTGGTGCAATT-TAG-AATAC
* * *
13545222 TTCTGCGGCGACAGTTTTGGTGCAATTT
1 TTATGCAGCGATAGTTTTGGTGCAATTT
13545250 GGAAGTGCTC
Statistics
Matches: 85, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
33 4 0.05
34 17 0.20
35 4 0.05
36 9 0.11
37 23 0.27
38 24 0.28
39 4 0.05
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (35 bp):
TTATGCAGCGATAGTTTTGGTGCAATTTAGAATAC
Found at i:13545191 original size:38 final size:37
Alignment explanation
Indices: 13545141--13545250 Score: 125
Period size: 38 Copynumber: 2.9 Consensus size: 37
13545131 TGGTGCAATT
*
13545141 GAATACTTATGCAGCGATAGTTTTGGATGCAATTTGAA
1 GAATATTTATGCAGCGATAGTTTTGG-TGCAATTTGAA
* *
13545179 GAATATTTATGCAGCGATAGTCTTGGGTGC-ATTCTGGA
1 GAATATTTATGCAGCGATAGT-TTTGGTGCAATT-TGAA
* * *
13545217 -AATATTTCTGCGGCGACAGTTTTGGTGCAATTTG
1 GAATATTTATGCAGCGATAGTTTTGGTGCAATTTG
13545251 GAAGTGCTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
36 9 0.15
37 23 0.37
38 26 0.42
39 4 0.06
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.35
Consensus pattern (37 bp):
GAATATTTATGCAGCGATAGTTTTGGTGCAATTTGAA
Found at i:13545314 original size:37 final size:37
Alignment explanation
Indices: 13545225--13545320 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
13545215 GAAATATTTC
* *
13545225 TGCGGCGACAGTTTT-GGTGCAATTTGGAAGTGCTCA
1 TGCGGCGACAGTTTTGGGTGCAATATAGAAGTGCTCA
* ** * *
13545261 TGTGGCGACAAATTTGGGCGCAATATAGAGGTGCTCA
1 TGCGGCGACAGTTTTGGGTGCAATATAGAAGTGCTCA
13545298 TGCGGCGACAGTTTTGGGTGCAA
1 TGCGGCGACAGTTTTGGGTGCAA
13545321 ATTTGGATGT
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 12 0.25
37 36 0.75
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (37 bp):
TGCGGCGACAGTTTTGGGTGCAATATAGAAGTGCTCA
Found at i:13546498 original size:17 final size:17
Alignment explanation
Indices: 13546478--13546514 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
13546468 GACAATGTAG
13546478 ATGCAGCGACAATAAAA
1 ATGCAGCGACAATAAAA
*
13546495 ATGCAGTGACAATAAAA
1 ATGCAGCGACAATAAAA
13546512 ATG
1 ATG
13546515 TAAGGACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (17 bp):
ATGCAGCGACAATAAAA
Found at i:13546522 original size:17 final size:17
Alignment explanation
Indices: 13546485--13546524 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13546475 TAGATGCAGC
*
13546485 GACAATAAAAATGCAGT
1 GACAATAAAAATGAAGT
13546502 GACAATAAAAATGTAAG-
1 GACAATAAAAATG-AAGT
13546519 GACAAT
1 GACAAT
13546525 TATACTACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (17 bp):
GACAATAAAAATGAAGT
Found at i:13549767 original size:26 final size:26
Alignment explanation
Indices: 13549724--13549778 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
13549714 AATTCTGGGC
**
13549724 ACAATTTTGGACACGTTCATGTAGCG
1 ACAATTTTGGACACGTTCATACAGCG
* *
13549750 ACAATTTTGTACATGTTCATACAGCG
1 ACAATTTTGGACACGTTCATACAGCG
13549776 ACA
1 ACA
13549779 TTCCTGGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (26 bp):
ACAATTTTGGACACGTTCATACAGCG
Found at i:13551243 original size:13 final size:13
Alignment explanation
Indices: 13551225--13551252 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13551215 GTGCTGTTAG
13551225 GATTTCTCCTTGT
1 GATTTCTCCTTGT
13551238 GATTTCTCCTTGT
1 GATTTCTCCTTGT
13551251 GA
1 GA
13551253 ACATAAAAAA
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:0.11, C:0.21, G:0.18, T:0.50
Consensus pattern (13 bp):
GATTTCTCCTTGT
Found at i:13558781 original size:12 final size:12
Alignment explanation
Indices: 13558764--13558806 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
13558754 TCCTTATTAA
13558764 AATTTTTTATAT
1 AATTTTTTATAT
13558776 AATTTTTTGA-A-
1 AATTTTTT-ATAT
13558787 AATATTTTTATAT
1 AAT-TTTTTATAT
13558800 AATTTTT
1 AATTTTT
13558807 AAATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.15
12 19 0.70
13 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (12 bp):
AATTTTTTATAT
Found at i:13558799 original size:24 final size:23
Alignment explanation
Indices: 13558762--13558806 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
13558752 CATCCTTATT
13558762 AAAATTTTTTATATAATTTTTTG
1 AAAATTTTTTATATAATTTTTTG
13558785 AAAATATTTTTATATAATTTTT
1 AAAAT-TTTTTATATAATTTTT
13558807 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AAAATTTTTTATATAATTTTTTG
Found at i:13559406 original size:16 final size:17
Alignment explanation
Indices: 13559385--13559418 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13559375 AATTTTTTGA
13559385 AAAAT-AATTAATTTAT
1 AAAATAAATTAATTTAT
*
13559401 AAAATAAATTATTTTAT
1 AAAATAAATTAATTTAT
13559418 A
1 A
13559419 TAAAAGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATAAATTAATTTAT
Found at i:13564333 original size:18 final size:18
Alignment explanation
Indices: 13564310--13564353 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
13564300 ATTGAAGGTA
13564310 ATTCTTAACTCTAAATTC
1 ATTCTTAACTCTAAATTC
13564328 ATTCTTAACTCTAAATTC
1 ATTCTTAACTCTAAATTC
*
13564346 ATTTTTAA
1 ATTCTTAA
13564354 GTTGTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTCTTAACTCTAAATTC
Found at i:13585663 original size:4 final size:4
Alignment explanation
Indices: 13585654--13585679 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13585644 CAAGTTGCAA
13585654 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
13585680 GATGTCAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:13588918 original size:22 final size:22
Alignment explanation
Indices: 13588885--13588943 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
13588875 GGATGTAATA
13588885 TGCC-AATATAATTGATTGATTG
1 TGCCAAAT-TAATTGATTGATTG
13588907 TGCCAAATTAATTGATTGATTG
1 TGCCAAATTAATTGATTGATTG
*
13588929 TGCCAATTTAATTGA
1 TGCCAAATTAATTGA
13588944 ATATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 32 0.91
23 3 0.09
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (22 bp):
TGCCAAATTAATTGATTGATTG
Found at i:13595827 original size:22 final size:22
Alignment explanation
Indices: 13595783--13595824 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13595773 AAAAGATTTT
13595783 AAGAATTCGAGAGAAGAAGAAG
1 AAGAATTCGAGAGAAGAAGAAG
13595805 AAGAATT-GCAGAGAA-AAGAA
1 AAGAATTCG-AGAGAAGAAGAA
13595825 AGATTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.57, C:0.05, G:0.29, T:0.10
Consensus pattern (22 bp):
AAGAATTCGAGAGAAGAAGAAG
Found at i:13609138 original size:48 final size:48
Alignment explanation
Indices: 13609074--13609168 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
13609064 GGGGCATTCA
* *
13609074 TGTCTATAGTTTATTGTGTCTTATGCTCAATCCCATCAAGCAAGGGCC
1 TGTCTATAGTTTATTGTGCCTTATGCTCAAACCCATCAAGCAAGGGCC
*
13609122 TGTCTATATTTTATTGTGCCTTATGCTCAAACCCATCAAGCAAGGGC
1 TGTCTATAGTTTATTGTGCCTTATGCTCAAACCCATCAAGCAAGGGC
13609169 TCAAAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (48 bp):
TGTCTATAGTTTATTGTGCCTTATGCTCAAACCCATCAAGCAAGGGCC
Found at i:13610708 original size:17 final size:17
Alignment explanation
Indices: 13610686--13610748 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
13610676 ATTATAATTT
13610686 ATTAAAAAATTATTTTA
1 ATTAAAAAATTATTTTA
* *
13610703 ATTAAAATATTATTTCA
1 ATTAAAAAATTATTTTA
*
13610720 A-TAAAATATTTAAATTTTA
1 ATTAAAA-AATT--ATTTTA
13610739 CATTAAAAAA
1 -ATTAAAAAA
13610749 ATTTTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
16 5 0.14
17 18 0.51
19 5 0.14
20 2 0.06
21 5 0.14
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAAAAAATTATTTTA
Found at i:13610724 original size:16 final size:17
Alignment explanation
Indices: 13610686--13610729 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
13610676 ATTATAATTT
* *
13610686 ATTAAAAAATTATTTTA
1 ATTAAAATATTATTTCA
13610703 ATTAAAATATTATTTCA
1 ATTAAAATATTATTTCA
13610720 A-TAAAATATT
1 ATTAAAATATT
13610730 TAAATTTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATATTATTTCA
Found at i:13610871 original size:27 final size:26
Alignment explanation
Indices: 13610810--13610871 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
13610800 TATATTAATT
* *
13610810 TAATAAA-TT-ATTAAATTTTCAAAT
1 TAATAAACTTAATTAAATTTTAAAAA
13610834 TAA-AAATCTTAATATAAATTTTAAAAA
1 TAATAAA-CTTAAT-TAAATTTTAAAAA
13610861 TAATAAACTTA
1 TAATAAACTTA
13610872 TAAATTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 3 0.10
24 3 0.10
25 2 0.06
26 2 0.06
27 18 0.58
28 3 0.10
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (26 bp):
TAATAAACTTAATTAAATTTTAAAAA
Found at i:13610923 original size:32 final size:31
Alignment explanation
Indices: 13610870--13610944 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 31
13610860 ATAATAAACT
*
13610870 TATAAATTGATTACTTAAATTTAATAACTCA
1 TATAAATTAATTACTTAAATTTAATAACTCA
* * *
13610901 TGATAAATTAATTAGTTTAATTTAATAACTTA
1 T-ATAAATTAATTACTTAAATTTAATAACTCA
*
13610933 TATTAATTAATT
1 TATAAATTAATT
13610945 CAACTTGTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 11 0.29
32 27 0.71
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (31 bp):
TATAAATTAATTACTTAAATTTAATAACTCA
Found at i:13611993 original size:29 final size:29
Alignment explanation
Indices: 13611961--13612024 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
13611951 ATAAAAGAAC
* * *
13611961 CATTAGAAGAATCACAAGAAAAACTTATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
* *
13611990 CATTAAAAGAATCAAAATAAAACCTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
13612019 CATTAA
1 CATTAA
13612025 CCAAAGGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (29 bp):
CATTAAAAGAATCAAAAGAAAAACTGATT
Found at i:13612739 original size:26 final size:27
Alignment explanation
Indices: 13612709--13612767 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
13612699 AATGTCATTT
13612709 TTTTTAATATTT-ATGAGATTAAGCC-A
1 TTTTTAATATTTGA-GAGATTAAGCCGA
*
13612735 CTTTTTCAATATTTGAGGGATTAAGCCGA
1 -TTTTT-AATATTTGAGAGATTAAGCCGA
13612764 TTTT
1 TTTT
13612768 AAAAAATGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 5 0.18
28 21 0.75
29 2 0.07
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (27 bp):
TTTTTAATATTTGAGAGATTAAGCCGA
Found at i:13612767 original size:28 final size:28
Alignment explanation
Indices: 13612708--13612761 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
13612698 AAATGTCATT
*
13612708 TTTTTTAATATTTATGAGATTAAGCCAC
1 TTTTTCAATATTTATGAGATTAAGCCAC
*
13612736 TTTTTCAATATTTGA-GGGATTAAGCC
1 TTTTTCAATATTT-ATGAGATTAAGCC
13612762 GATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (28 bp):
TTTTTCAATATTTATGAGATTAAGCCAC
Found at i:13614120 original size:35 final size:35
Alignment explanation
Indices: 13614074--13614145 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
13614064 AGAGATATTC
*
13614074 TTAGGATGTTCAATCATTGATTTGTGGTTAATTGT
1 TTAGGATGTTCAATCATTGATTTATGGTTAATTGT
13614109 TTAGGATGTTCAATCATTGATTTATGGTTAATTGT
1 TTAGGATGTTCAATCATTGATTTATGGTTAATTGT
13614144 TT
1 TT
13614146 GATTTTAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.50
Consensus pattern (35 bp):
TTAGGATGTTCAATCATTGATTTATGGTTAATTGT
Found at i:13615839 original size:23 final size:22
Alignment explanation
Indices: 13615806--13615856 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
13615796 CTTAATTTGA
13615806 TAAAATA-TTTTGATATAACAAAT
1 TAAAATATTTTTGA-AT-ACAAAT
* *
13615829 TAAAATGTTTTTGAATACAAGT
1 TAAAATATTTTTGAATACAAAT
13615851 TAAAAT
1 TAAAAT
13615857 TGACAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAAATATTTTTGAATACAAAT
Found at i:13615853 original size:22 final size:24
Alignment explanation
Indices: 13615813--13615856 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
13615803 TGATAAAATA
13615813 TTTTGATATAACAAATTAAAATGT
1 TTTTGATATAACAAATTAAAATGT
*
13615837 TTTTGA-AT-ACAAGTTAAAAT
1 TTTTGATATAACAAATTAAAAT
13615857 TGACAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAATGT
Found at i:13625721 original size:29 final size:29
Alignment explanation
Indices: 13625693--13626119 Score: 389
Period size: 30 Copynumber: 14.5 Consensus size: 29
13625683 TTTTAGAGAA
* * *
13625693 TTTAGGGTTAAAATGTGATTTTAGAAGAA-
1 TTTAGGGTCAAAATGTAATTTTGGAA-AAG
* * *
13625722 TTCGAGGGTCAAAAGGTAATTTTATG-AAAG
1 TT-TAGGGTCAAAATGTAATTTT-GGAAAAG
* * *
13625752 TTTGGGGTCAAAATGTGATTTTAGG-AAGG
1 TTTAGGGTCAAAATGTAATTTT-GGAAAAG
* * * *
13625781 TTTAAGGTTAAAATATGATTTTGGGAAAA-
1 TTTAGGGTCAAAATGTAATTTT-GGAAAAG
* * *
13625810 TTTGAGGGTCAAAATGTAATATTAGAGAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
* *
13625840 TTTGGGGTCAAAATGTCATTTTGGAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
*
13625869 TTTAAGGGTCAAAATGCAATTTTGGAAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
*
13625899 TTTAGGGTTAAAATGTAATTTT-GAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* * *
13625927 TTTAAGGTTAAAATGTAATTTTGGATAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
13625956 TTTAAGGGTCAAAATGTAATTTTGGAAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
* *
13625986 TTTAAGGGTTAAAATGTAATTTTGGAGAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
* *
13626016 TTTGGGGGTCAACATGTAATTTTGGAAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
* ** *
13626046 TTTAGGGTGAAAATGGGATTTTGGAAAGG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* * *
13626075 TTTGAGGGTCAAAATATGATTTT-AAAAAGG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAA-G
13626105 TTTAGGGGTCAAAAT
1 TTTA-GGGTCAAAAT
13626120 ATAGTTTTTA
Statistics
Matches: 329, Mismatches: 57, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
28 27 0.08
29 128 0.39
30 173 0.53
31 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (29 bp):
TTTAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:13625819 original size:59 final size:57
Alignment explanation
Indices: 13625693--13626119 Score: 385
Period size: 59 Copynumber: 7.2 Consensus size: 57
13625683 TTTTAGAGAA
* * * * * * *
13625693 TTTAGGGTTAAAATGTGATTTTAGAAGAATTCGAGGGTCAAAAGGTAATTTTATG-AAAG
1 TTTAGGGTCAAAATGTAATTTTGGAA-AGTT-TAGGGTCAAAATGTAATTTT-GGAAAAG
* * * * * * *
13625752 TTTGGGGTCAAAATGTGATTTTAGGAAGGTTTAAGGTTAAAATATGATTTTGGGAAAA-
1 TTTAGGGTCAAAATGTAATTTT-GGAAAGTTTAGGGTCAAAATGTAATTTT-GGAAAAG
* * * *
13625810 TTTGAGGGTCAAAATGTAATATTAGAGAAGTTTGGGGTCAAAATGTCATTTTGGAAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGA-AAGTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
13625869 TTTAAGGGTCAAAATGCAATTTTGGAAAAGTTTAGGGTTAAAATGTAATTTT-GAAAAG
1 TTT-AGGGTCAAAATGTAATTTTGG-AAAGTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
13625927 TTTAAGGTTAAAATGTAATTTTGGATAAGTTTAAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGA-AAGTTT-AGGGTCAAAATGTAATTTTGGAAAAG
* * *
13625986 TTTAAGGGTTAAAATGTAATTTTGGAGAAGTTTGGGGGTCAACATGTAATTTTGGAAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGA-AAGTTT-AGGGTCAAAATGTAATTTTGGAAAAG
* ** * * *
13626046 TTTAGGGTGAAAATGGGATTTTGGAAAGGTTTGAGGGTCAAAATATGATTTT-AAAAAGG
1 TTTAGGGTCAAAATGTAATTTTGGAAA-GTTT-AGGGTCAAAATGTAATTTTGGAAAA-G
13626105 TTTAGGGGTCAAAAT
1 TTTA-GGGTCAAAAT
13626120 ATAGTTTTTA
Statistics
Matches: 307, Mismatches: 48, Indels: 25
0.81 0.13 0.07
Matches are distributed among these distances:
56 1 0.00
57 24 0.08
58 59 0.19
59 156 0.51
60 67 0.22
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (57 bp):
TTTAGGGTCAAAATGTAATTTTGGAAAGTTTAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:13636293 original size:30 final size:29
Alignment explanation
Indices: 13636160--13636602 Score: 344
Period size: 30 Copynumber: 15.0 Consensus size: 29
13636150 AAGAATTTAA
*
13636160 GGTTAAAATGTAATTTTGGAAGAATTTGAA
1 GGTTAAAATGTAATTTTGGAA-AATTTGAG
* * * * *
13636190 GGTCAAAAGGTAGTTTTATGAAAGTTTG-G
1 GGTTAAAATGTAATTTT-GGAAAATTTGAG
* **
13636219 GGTCAAAATGTAATTTTGGGAAGGTTT--G
1 GGTTAAAATGTAATTTT-GGAAAATTTGAG
*
13636247 GGTTAAAACATG-ATTTTTGGAAAATTTGAG
1 GGTT-AAA-ATGTAATTTTGGAAAATTTGAG
* **
13636277 GGTTAAAATGTAATTTTAGAGAAGCTT-AG
1 GGTTAAAATGTAATTTTGGA-AAATTTGAG
* * *
13636306 GGTTAAAATGTGATTTTAGAAAAGTTTAAG
1 GGTTAAAATGTAATTTTGGAAAA-TTTGAG
* *
13636336 GGTCAAAATGTAATTTTGGAAAAGTTTGGG
1 GGTTAAAATGTAATTTTGGAAAA-TTTGAG
* * *
13636366 GGTTAAAATGTAATTTTAGAGAAGTTTAAG
1 GGTTAAAATGTAATTTTGGA-AAATTTGAG
*
13636396 GGTTAAAATGTAATTTTGGAAAATTTTAG
1 GGTTAAAATGTAATTTTGGAAAATTTGAG
* *
13636425 GGGTAAAATGTAATTTTGGAGAAGTTT-AG
1 GGTTAAAATGTAATTTTGGA-AAATTTGAG
* *
13636454 AGGTTAAAATGTAATCTTAGAAAAGTTTG-G
1 -GGTTAAAATGTAATTTTGGAAAA-TTTGAG
*
13636484 TGGTTAAAATGTAATTTTGGAGAAGTTT-AGG
1 -GGTTAAAATGTAATTTTGGA-AAATTTGA-G
* * *
13636515 GGTCAAAATGCAATTTTGGAAAAGTTTGGG
1 GGTTAAAATGTAATTTTGGAAAA-TTTGAG
* * * *
13636545 GGTGAAAATGTAATTTTAGAAAGGTTTGGG
1 GGTTAAAATGTAATTTTGGAAA-ATTTGAG
* * *
13636575 GGTTAAAATGTGATTTTAGAAAGTTTGA
1 GGTTAAAATGTAATTTTGGAAAATTTGA
13636603 TGATCAAAAT
Statistics
Matches: 337, Mismatches: 56, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
28 16 0.05
29 100 0.30
30 213 0.63
31 8 0.02
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTGGAAAATTTGAG
Found at i:13636383 original size:60 final size:60
Alignment explanation
Indices: 13636155--13636601 Score: 432
Period size: 60 Copynumber: 7.6 Consensus size: 60
13636145 TTTCGAAGAA
** * * *
13636155 TTTAA-GGTTAAAATGTAATTTTGGAAGAA-TTTGAAGGTCAAAAGGTAGTTTTATG-AAAG
1 TTTAAGGGTTAAAATGTAATTTTGGAA-AAGTTTGGGGGTTAAAATGTAATTTTA-GAAAAG
* * * * * *
13636214 TTT-GGGGTCAAAATGTAATTTTGGGAAGGTTT--GGGTTAAAACATG-ATTTTTGGAAAA-
1 TTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTT-AAA-ATGTAATTTTAGAAAAG
* * * * * *
13636271 TTTGAGGGTTAAAATGTAATTTTAGAGAAGCTT-AGGGTTAAAATGTGATTTTAGAAAAG
1 TTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTAGAAAAG
* *
13636330 TTTAAGGGTCAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTAGAGAAG
1 TTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTAGAAAAG
* * * *
13636390 TTTAAGGGTTAAAATGTAATTTTGGAAAATTTTAGGGG-TAAAATGTAATTTTGGAGAAG
1 TTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTAGAAAAG
* * * * *
13636449 TTT-AGAGGTTAAAATGTAATCTTAGAAAAGTTTGGTGGTTAAAATGTAATTTTGGAGAAG
1 TTTAAG-GGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTAGAAAAG
* * * * *
13636509 TTTAGGGGTCAAAATGCAATTTTGGAAAAGTTTGGGGGTGAAAATGTAATTTTAGAAAGG
1 TTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTAGAAAAG
** * *
13636569 TTTGGGGGTTAAAATGTGATTTTAG-AAAGTTTG
1 TTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTG
13636602 ATGATCAAAA
Statistics
Matches: 324, Mismatches: 51, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
57 10 0.03
58 48 0.15
59 118 0.36
60 147 0.45
61 1 0.00
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (60 bp):
TTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTAGAAAAG
Found at i:13636612 original size:119 final size:118
Alignment explanation
Indices: 13636151--13636601 Score: 427
Period size: 119 Copynumber: 3.8 Consensus size: 118
13636141 GAAGTTTCGA
* * * * *
13636151 AGAA-TTTAA-GGTTAAAATGTAATTTTGGAAGAA-TTT-GAAGGTCAAAAGGTAGTTTTATGAA
1 AGAAGTTTAAGGGTCAAAATGCAATTTTGGAA-AAGTTTAG-GGGT-AAAATGTAATTTTA-GAA
* * * * * *
13636212 AGTTT-GGGGTCAAAATGTAATTTTGGGAAGGTTT-G-GGTTAAAACATG-ATTTTTGG
62 AGTTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTGGTGGTT-AAA-ATGTAATTTTAG
* * * * * * * * *
13636267 A-AAATTTGAGGGTTAAAATGTAATTTTAGAGAAGCTTAGGGTTAAAATGTGATTTTAGAAAAGT
1 AGAAGTTTAAGGGTCAAAATGCAATTTTGGAAAAGTTTAGGGGTAAAATGTAATTTTAG-AAAGT
* * * *
13636331 TTAAGGGTCAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTAATTTTAG
65 TTAGGGGTTAAAATGTAATTTTAGAAAAGTTTGGTGGTTAAAATGTAATTTTAG
* * * *
13636385 AGAAGTTTAAGGGTTAAAATGTAATTTTGGAAAATTTTAGGGGTAAAATGTAATTTTGGAGAAGT
1 AGAAGTTTAAGGGTCAAAATGCAATTTTGGAAAAGTTTAGGGGTAAAATGTAATTTTAGA-AAGT
* * *
13636450 TTAGAGGTTAAAATGTAATCTTAGAAAAGTTTGGTGGTTAAAATGTAATTTTGG
65 TTAGGGGTTAAAATGTAATTTTAGAAAAGTTTGGTGGTTAAAATGTAATTTTAG
* *
13636504 AGAAGTTTAGGGGTCAAAATGCAATTTTGGAAAAGTTTGGGGGTGAAAATGTAATTTTAGAAAGG
1 AGAAGTTTAAGGGTCAAAATGCAATTTTGGAAAAGTTTAGGGGT-AAAATGTAATTTTAGAAA-G
* *
13636569 TTTGGGGGTTAAAATGTGATTTTAG-AAAGTTTG
64 TTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTG
13636602 ATGATCAAAA
Statistics
Matches: 282, Mismatches: 40, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
115 3 0.01
116 25 0.09
117 52 0.18
118 13 0.05
119 152 0.54
120 37 0.13
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (118 bp):
AGAAGTTTAAGGGTCAAAATGCAATTTTGGAAAAGTTTAGGGGTAAAATGTAATTTTAGAAAGTT
TAGGGGTTAAAATGTAATTTTAGAAAAGTTTGGTGGTTAAAATGTAATTTTAG
Found at i:13639694 original size:29 final size:30
Alignment explanation
Indices: 13639649--13639705 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
13639639 TAGTTTAATG
*
13639649 TGTATTTTTATATATG-AATTTTAATTTTA
1 TGTAATTTTATATATGAAATTTTAATTTTA
*
13639678 TGTAATTTTAT-TCATGAAATTTTGATTT
1 TGTAATTTTATAT-ATGAAATTTTAATTT
13639706 GATCTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 13 0.54
30 10 0.42
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (30 bp):
TGTAATTTTATATATGAAATTTTAATTTTA
Found at i:13639958 original size:29 final size:27
Alignment explanation
Indices: 13639894--13639958 Score: 67
Period size: 31 Copynumber: 2.3 Consensus size: 27
13639884 ATTTTATGTG
**
13639894 TATAATTACATCAAATTAAAGTTCATG
1 TATAATTACATCAAATTAAAGTTCACA
*
13639921 TATCAAATTACACATTAAATTAAAGTTCACA
1 TAT--AATT--ACATCAAATTAAAGTTCACA
13639952 TATAATT
1 TATAATT
13639959 TTAAGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 3 0.10
29 8 0.26
31 20 0.65
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (27 bp):
TATAATTACATCAAATTAAAGTTCACA
Found at i:13647510 original size:20 final size:18
Alignment explanation
Indices: 13647482--13647558 Score: 60
Period size: 20 Copynumber: 4.4 Consensus size: 18
13647472 CCACGTCAGT
*
13647482 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAA-TA-TA
13647502 AAATTATTTTTTAAAATATA
1 AAATTA--TTTTAAAATATA
13647522 AAATT-TTTT-AAAT-T-
1 AAATTATTTTAAAATATA
13647536 -AA-T-TTTTAAAATATA
1 AAATTATTTTAAAATATA
13647551 AAATTATT
1 AAATTATT
13647559 AAAAATATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 18
0.72 0.01 0.27
Matches are distributed among these distances:
12 5 0.10
13 6 0.12
14 1 0.02
15 1 0.02
16 6 0.12
17 5 0.10
18 2 0.04
20 12 0.25
21 2 0.04
22 8 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (18 bp):
AAATTATTTTAAAATATA
Found at i:13647523 original size:29 final size:29
Alignment explanation
Indices: 13647491--13647593 Score: 134
Period size: 29 Copynumber: 3.4 Consensus size: 29
13647481 TAAATGATTT
13647491 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
* * *
13647520 TAAAATTTTTTAAATTAATTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
* *
13647549 TAAAATTATTAAAAATATTTTTTTTGAAATAA
1 TAAAATTATT-AAAAT-TATTTTTTAAAAT-A
13647581 TAAAATTATTAAA
1 TAAAATTATTAAA
13647594 TAATTTTAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 35 0.56
30 4 0.06
31 13 0.21
32 11 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTTTTTAAAATA
Found at i:13647529 original size:17 final size:17
Alignment explanation
Indices: 13647507--13647566 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
13647497 TATTAAAATT
13647507 ATTTTTTAAAATATAAA
1 ATTTTTTAAAATATAAA
13647524 ATTTTTT-AAAT-T--A
1 ATTTTTTAAAATATAAA
13647537 A-TTTTTAAAATATAAA
1 ATTTTTTAAAATATAAA
* *
13647553 ATTATTAAAAATAT
1 ATTTTTTAAAATAT
13647567 TTTTTTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
12 5 0.14
13 6 0.17
14 1 0.03
15 1 0.03
16 6 0.17
17 17 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTTTAAAATATAAA
Found at i:13647634 original size:15 final size:15
Alignment explanation
Indices: 13647611--13647640 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13647601 AATTTCCAAT
*
13647611 TTCATCTTCTTCTTC
1 TTCACCTTCTTCTTC
13647626 TTCACCTTCTTCTTC
1 TTCACCTTCTTCTTC
13647641 ATCATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.57
Consensus pattern (15 bp):
TTCACCTTCTTCTTC
Found at i:13648429 original size:11 final size:11
Alignment explanation
Indices: 13648413--13648488 Score: 66
Period size: 11 Copynumber: 6.7 Consensus size: 11
13648403 ATGATGAGTG
13648413 TAATTTTAAAA
1 TAATTTTAAAA
13648424 TAATTTTAACAA
1 TAATTTTAA-AA
*
13648436 TTTTATATTTAAAA
1 --TAAT-TTTAAAA
* *
13648450 -AAATTTAAAT
1 TAATTTTAAAA
13648460 TAATTTTAAAA
1 TAATTTTAAAA
*
13648471 TAAATTTAAAA
1 TAATTTTAAAA
13648482 -AATTTTA
1 TAATTTTA
13648489 TTTTTAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
10 12 0.23
11 28 0.54
12 2 0.04
14 5 0.10
15 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:13648467 original size:21 final size:21
Alignment explanation
Indices: 13648443--13648488 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
13648433 CAATTTTATA
*
13648443 TTTAAAA-AAATTTAAATTAAT
1 TTTAAAATAAATTTAAA-AAAT
13648464 TTTAAAATAAATTTAAAAAAT
1 TTTAAAATAAATTTAAAAAAT
13648485 TTTA
1 TTTA
13648489 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAAATAAATTTAAAAAAT
Found at i:13648496 original size:48 final size:48
Alignment explanation
Indices: 13648413--13648525 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
13648403 ATGATGAGTG
* *
13648413 TAATTTTAAAATAATTTTAACAATTTTATATTT-AAAAA-AATTTAAA
1 TAATTTTAAAATAATTTAAAAAATTTTATATTTAAAAAATAATTTAAA
* *
13648459 TTAATTTTAAAATAAATTTAAAAAATTTTATTTTTAAAAAATAATTTTAA
1 -TAATTTTAAAAT-AATTTAAAAAATTTTATATTTAAAAAATAATTTAAA
*
13648509 TAATTTTAAAATCATTT
1 TAATTTTAAAATAATTT
13648526 GCTGACGTGA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
47 12 0.21
48 22 0.38
49 17 0.29
50 7 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (48 bp):
TAATTTTAAAATAATTTAAAAAATTTTATATTTAAAAAATAATTTAAA
Found at i:13648638 original size:29 final size:29
Alignment explanation
Indices: 13648606--13648672 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
13648596 AAAAATTGCC
13648606 ACGTCAGCACCGTTAGTCCCTTAACGGCT
1 ACGTCAGCACCGTTAGTCCCTTAACGGCT
13648635 ACGTCAGCACCGTTAGTCCCTTAACGGCT
1 ACGTCAGCACCGTTAGTCCCTTAACGGCT
13648664 ACGTCAGCA
1 ACGTCAGCA
13648673 AGACCGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.22
Consensus pattern (29 bp):
ACGTCAGCACCGTTAGTCCCTTAACGGCT
Found at i:13650912 original size:20 final size:20
Alignment explanation
Indices: 13650887--13650925 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13650877 ATGCTTATTT
* *
13650887 TGTGGGGCGGGCAGGGATGA
1 TGTGGGACGGACAGGGATGA
13650907 TGTGGGACGGACAGGGATG
1 TGTGGGACGGACAGGGATG
13650926 GGCCGAGGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.10, G:0.56, T:0.15
Consensus pattern (20 bp):
TGTGGGACGGACAGGGATGA
Found at i:13660536 original size:55 final size:55
Alignment explanation
Indices: 13660477--13660583 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
13660467 ATCTGTGAAA
*
13660477 TCGCATGAAAAGCATGACATTACGAAAGTATGTGTAAAAATATCTGAGATCTGAT
1 TCGCATGAAAAGCATGACATTACGAAAGTATGTGTAAAAATATATGAGATCTGAT
** * *
13660532 TCGCATGTTAAGCATGCCATTACGAAAGTATTTGTAAAAATATATGAGATCT
1 TCGCATGAAAAGCATGACATTACGAAAGTATGTGTAAAAATATATGAGATCT
13660584 TATATGTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (55 bp):
TCGCATGAAAAGCATGACATTACGAAAGTATGTGTAAAAATATATGAGATCTGAT
Found at i:13663080 original size:22 final size:22
Alignment explanation
Indices: 13663054--13663113 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
13663044 ACCCTATAGA
13663054 CTCCAATATCGGACCACCACTC
1 CTCCAATATCGGACCACCACTC
*** * *
13663076 CTCCACCGTTGGACCGCCACTC
1 CTCCAATATCGGACCACCACTC
* *
13663098 CACCATTATCGGACCA
1 CTCCAATATCGGACCA
13663114 TCGTCATCGC
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.45, G:0.13, T:0.18
Consensus pattern (22 bp):
CTCCAATATCGGACCACCACTC
Found at i:13664117 original size:29 final size:29
Alignment explanation
Indices: 13664077--13664138 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
13664067 GGTATTTTGG
*
13664077 TTATGGATTTTTAAGAT-A-ATTTTGGACTT
1 TTATGGACTTTT-AGATAATATTTTGGA-TT
*
13664106 TTATGGACTTTTTGATAATATTTTGGATT
1 TTATGGACTTTTAGATAATATTTTGGATT
13664135 TTAT
1 TTAT
13664139 TGTCTAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 18 0.62
30 8 0.28
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (29 bp):
TTATGGACTTTTAGATAATATTTTGGATT
Found at i:13667384 original size:15 final size:16
Alignment explanation
Indices: 13667364--13667397 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13667354 AAATTAAATT
13667364 AATTAA-CTAAATGCA
1 AATTAACCTAAATGCA
13667379 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
13667395 AAT
1 AAT
13667398 GAGATGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:13667873 original size:21 final size:21
Alignment explanation
Indices: 13667831--13667874 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
13667821 GTCGATCAAC
**
13667831 TATTTCTAATGCATTTAAACA
1 TATTTCTAATGCATGAAAACA
13667852 TATTT-TAATGCATGAAACACA
1 TATTTCTAATGCATGAAA-ACA
13667873 TA
1 TA
13667875 CATGATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TATTTCTAATGCATGAAAACA
Found at i:13671551 original size:26 final size:26
Alignment explanation
Indices: 13671522--13671572 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
13671512 CATATCCATA
*
13671522 TAAATATTTCATATAACCATTTCATC
1 TAAACATTTCATATAACCATTTCATC
* * *
13671548 TAAACCTTTCATTTTACCATTTCAT
1 TAAACATTTCATATAACCATTTCAT
13671573 TTACACAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAACATTTCATATAACCATTTCATC
Found at i:13671570 original size:13 final size:13
Alignment explanation
Indices: 13671527--13671575 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
13671517 CCATATAAAT
*
13671527 ATTTCATATAACC
1 ATTTCATTTAACC
*
13671540 ATTTCATCTAAACC
1 ATTTCAT-TTAACC
*
13671554 -TTTCATTTTACC
1 ATTTCATTTAACC
13671566 ATTTCATTTA
1 ATTTCATTTA
13671576 CACAATTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.14
13 21 0.72
14 4 0.14
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTCATTTAACC
Found at i:13674971 original size:10 final size:9
Alignment explanation
Indices: 13674957--13674997 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
13674947 TATCCGAGTT
13674957 TAAAAAAAA
1 TAAAAAAAA
*
13674966 TCAAAAAAA
1 TAAAAAAAA
13674975 TAAAATAAAA
1 TAAAA-AAAA
*
13674985 TAAAATAAA
1 TAAAAAAAA
13674994 TAAA
1 TAAA
13674998 CATTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:13674996 original size:4 final size:5
Alignment explanation
Indices: 13674957--13674997 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
13674947 TATCCGAGTT
*
13674957 TAAAA -AAAA TCAAA -AAAA TAAAA TAAAA TAAAA T-AAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
13674998 CATTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 11 0.35
5 20 0.65
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:13675654 original size:14 final size:15
Alignment explanation
Indices: 13675635--13675663 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13675625 AAACGTTTCT
13675635 TAAAT-AAAAAGAAA
1 TAAATAAAAAAGAAA
13675649 TAAATAAAAAAGAAA
1 TAAATAAAAAAGAAA
13675664 GATTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (15 bp):
TAAATAAAAAAGAAA
Found at i:13684993 original size:12 final size:12
Alignment explanation
Indices: 13684976--13685001 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13684966 AGTTGTTTAT
13684976 TTAAATATTCAA
1 TTAAATATTCAA
13684988 TTAAATATTCAA
1 TTAAATATTCAA
13685000 TT
1 TT
13685002 CCATAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAAATATTCAA
Found at i:13689484 original size:97 final size:97
Alignment explanation
Indices: 13689318--13689511 Score: 282
Period size: 97 Copynumber: 2.0 Consensus size: 97
13689308 AACCTTGCAA
* * **
13689318 AAGGGTATTCGATTATCCCGGTTTAAAGAAAAGTCGAGCCTAGTAAGTTAAGGCACAAATTTTTG
1 AAGGGTATTCGATTATCCCGATTTAAAGAAAAATCGAGCCTAGTAAGTTAAGGCACAAATTTTCA
*
13689383 AAA-CCAGAGATAAAGAAACATTGCCTCGATTT
66 AAACCCA-AAATAAAGAAACATTGCCTCGATTT
* *
13689415 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTAAAGAAAAATCGAGCCTAGTAAGTTAAGGCACAAATTTTCA
* * *
13689480 AAACCCAAAATAAAGGAATATTGTCTCGATTT
66 AAACCCAAAATAAAGAAACATTGCCTCGATTT
13689512 TAAATATTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 83 0.97
98 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTAAAGAAAAATCGAGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCCAAAATAAAGAAACATTGCCTCGATTT
Found at i:13689891 original size:29 final size:29
Alignment explanation
Indices: 13689859--13690126 Score: 239
Period size: 29 Copynumber: 9.3 Consensus size: 29
13689849 AAAAACATGG
* *
13689859 TTTTAGGAAGTTCGAGGGTAAAAATGTGA
1 TTTTTGGAAGTTCGAGGGTAAAAATGTAA
* *
13689888 TTTTTGCAAGTTCG-GAGGCAAAAATGTAA
1 TTTTTGGAAGTTCGAG-GGTAAAAATGTAA
* * * *
13689917 TTTTTGCAAGTCCGA--GCAAAATTGTAA
1 TTTTTGGAAGTTCGAGGGTAAAAATGTAA
* * *
13689944 TTTTTGAAAGTTTG-GGAGCAAAAATGTAA
1 TTTTTGGAAGTTCGAGG-GTAAAAATGTAA
* * *
13689973 TTTTTAAGAAGTTTGAGGGAAAAAATGTAA
1 TTTTT-GGAAGTTCGAGGGTAAAAATGTAA
*
13690003 TTTTTGGAAGTT-TAGGGGT-AAAATGTAA
1 TTTTTGGAAGTTCGA-GGGTAAAAATGTAA
*
13690031 TTTTTGAGAAGTTCAAGGGTAAAAATGTAA
1 TTTTTG-GAAGTTCGAGGGTAAAAATGTAA
*
13690061 TTTTTGGAAGTTC-AGGGGT-AAAATGTTA
1 TTTTTGGAAGTTCGA-GGGTAAAAATGTAA
* *
13690089 TTTTTAAGAAGTTCAAGGGTAAAAATGTAA
1 TTTTT-GGAAGTTCGAGGGTAAAAATGTAA
13690119 -TTTTGGAA
1 TTTTTGGAA
13690127 AATTTTAGAG
Statistics
Matches: 203, Mismatches: 21, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
27 22 0.11
28 34 0.17
29 97 0.48
30 48 0.24
31 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (29 bp):
TTTTTGGAAGTTCGAGGGTAAAAATGTAA
Found at i:13690041 original size:58 final size:59
Alignment explanation
Indices: 13689859--13690126 Score: 293
Period size: 58 Copynumber: 4.6 Consensus size: 59
13689849 AAAAACATGG
* * * *
13689859 TTTTAGGAAGTTCGAGGGTAAAAATGTGATTTTTGCAAG-TTCGGAGGCAAAAATGTAAT
1 TTTTAAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGG-GGCAAAAATGTAAT
* * * *
13689918 TTTT--GCAAGTCCGA--GCAAAATTGTAATTTTTGAAAGTTT-GGGAGCAAAAATGTAAT
1 TTTTAAG-AAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGGG-GCAAAAATGTAAT
* * *
13689974 TTTTAAGAAGTTTGAGGGAAAAAATGTAATTTTTGGAAGTTTAGGGG-TAAAATGTAAT
1 TTTTAAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGCAAAAATGTAAT
* * * * *
13690032 TTTTGAGAAGTTCAAGGGTAAAAATGTAATTTTTGGAAGTTCAGGGG-TAAAATGTTAT
1 TTTTAAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGCAAAAATGTAAT
*
13690090 TTTTAAGAAGTTCAAGGGTAAAAATGTAA-TTTTGGAA
1 TTTTAAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAA
13690127 AATTTTAGAG
Statistics
Matches: 183, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
55 1 0.01
56 37 0.20
57 17 0.09
58 98 0.54
59 27 0.15
60 3 0.02
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (59 bp):
TTTTAAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGCAAAAATGTAAT
Found at i:13691968 original size:35 final size:34
Alignment explanation
Indices: 13691906--13691982 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 34
13691896 GGACATTATT
* * *
13691906 AATTTAAATTTAGAAGAAATTTAAACTTAAATTA
1 AATTTAAATTTAAAACAAATTTAAACTTAAAATA
13691940 AATTTAAATTTAAAAACAAATTTAAACTTAAAATA
1 AATTTAAATTT-AAAACAAATTTAAACTTAAAATA
*
13691975 AATCTAAA
1 AATTTAAA
13691983 AAAGGTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
34 11 0.29
35 27 0.71
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (34 bp):
AATTTAAATTTAAAACAAATTTAAACTTAAAATA
Found at i:13691972 original size:17 final size:17
Alignment explanation
Indices: 13691906--13691982 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
13691896 GGACATTATT
* * *
13691906 AATTTAAATTTAGAAGA
1 AATTTAAACTTAAAATA
*
13691923 AATTTAAACTTAAATTA
1 AATTTAAACTTAAAATA
* *
13691940 AATTTAAATTTAAAAACA
1 AATTTAAACTT-AAAATA
13691958 AATTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
*
13691975 AATCTAAA
1 AATTTAAA
13691983 AAAGGTTTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
17 35 0.71
18 14 0.29
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAACTTAAAATA
Found at i:13692508 original size:78 final size:78
Alignment explanation
Indices: 13692376--13692871 Score: 577
Period size: 78 Copynumber: 6.4 Consensus size: 78
13692366 GAGGGTTACA
* *
13692376 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGTTGCAATCTGCTCCAGGTTCGAAGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCAATCTGCTCCAGGTTCGGAGTAAGAGA
*
13692441 TTTACTGATGATG
66 TTTGCTGATGATG
* * *
13692454 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGTTTGCAATCTGCTCCAAGTTCGGAGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCAATCTGCTCCAGGTTCGGAGTAAGAGA
* * *
13692519 CTTGTTAATGATG
66 TTTGCTGATGATG
* * * * * * *
13692532 ATCTGCCTCAAGCTCGAGGTAAGAGATCGAATGGCTGTAATCTGC-CTTAGGTTCGGGGTAAAAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCAATCTGCTC-CAGGTTCGGAGTAAGAG
*
13692596 ATTTGCTGATGGTG
65 ATTTGCTGATGATG
* * * * * ** * *
13692610 ATCTGCCTCAAGCTCAGGGTAAAAGATCGGATGGCTATAATCTGC-CCTAGGCTT-GGGGTAAGT
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCAATCTGCTCC-AGG-TTCGGAGTAAGA
*
13692673 GATCTGCTGATGATG
64 GATTTGCTGATGATG
* * * *
13692688 ATCTGCCCTAGGCTCGGGGTAAGAGATCTAATGGTTGCAATTTGCTCCAGGTTCGGAGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCAATCTGCTCCAGGTTCGGAGTAAGAGA
* *
13692753 ATTGCTTATGATG
66 TTTGCTGATGATG
*** * *
13692766 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAGCAGTTGCAATCTGCCCCAGGCTCAGG-GTAAGAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCAATCTGCTCCAGGTTC-GGAGTAAGAG
13692830 ATTTGCTGATGATG
65 ATTTGCTGATGATG
*
13692844 ATCTGCCCCAAGCTCGGGGCAAGAGATC
1 ATCTGCCCCAAGCTCGGGGTAAGAGATC
13692872 TGCTGATGAT
Statistics
Matches: 353, Mismatches: 59, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
77 3 0.01
78 344 0.97
79 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (78 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCAATCTGCTCCAGGTTCGGAGTAAGAGA
TTTGCTGATGATG
Found at i:13692910 original size:39 final size:39
Alignment explanation
Indices: 13692376--13692910 Score: 317
Period size: 39 Copynumber: 13.7 Consensus size: 39
13692366 GAGGGTTACA
* *
13692376 ATCTGCCCCAGGCTCGGGGTAAGAGATC-G--AATGGTTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGAT-GATG
* * ** * *
13692413 CAATCTGCTCCAGGTTCGAAGTAAGAGATTTACTGATGATG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGATGATG
* *
13692454 ATCTGCCCCAGGCTCGGGGTAAGAGATC-G--AATGTTTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGATG-ATG
* * * * * *
13692491 CAATCTGCTCCAAGTTCGGAGTAAGAGA-CTTGTTAATGATG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATC-TGCTGATGATG
* * * * * *
13692532 ATCTGCCTCAAGCTCGAGGTAAGAGATC-GAATGGCTG-TA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTG-CT-GATGATG
** * * * *
13692571 ATCTGCCTTAGGTTCGGGGTAAAAGATTTGCTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGATGATG
* * * * * * * *
13692610 ATCTGCCTCAAGCTCAGGGTAAAAGATCGGATGGCT-ATA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCT-GATGATG
* * *
13692649 ATCTGCCCTAGGCTTGGGGTAAGTGATCTGCTGATGATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGATGATG
* ** *
13692688 ATCTGCCCTAGGCTCGGGGTAAGAGATCTAATG--GTTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGATGATG
* * * * *
13692725 CAATTTGCTCCAGGTTCGGAGTAAGAGAAT-TGCTTATGATG
1 --ATCTGCCCCAGGCTCGGGGTAAGAG-ATCTGCTGATGATG
* * * *
13692766 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAGCAGTTGCA--
1 ATCTGCCCCAGGCTCGGGGTAAGAGATC-TGCTGATG-ATG
* *
13692805 ATCTGCCCCAGGCTCAGGGTAAGAGATTTGCTGATGATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGATGATG
* *
13692844 ATCTGCCCCAAGCTCGGGGCAAGAGATCTGCTGATGATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGATGATG
*
13692883 ATCTGCCCCAGGCTCGGGGTAAAAGATC
1 ATCTGCCCCAGGCTCGGGGTAAGAGATC
13692911 AGATTTTCAA
Statistics
Matches: 373, Mismatches: 96, Indels: 54
0.71 0.18 0.10
Matches are distributed among these distances:
36 3 0.01
37 6 0.02
38 14 0.04
39 322 0.86
40 13 0.03
41 9 0.02
42 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (39 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATCTGCTGATGATG
Found at i:13704635 original size:97 final size:97
Alignment explanation
Indices: 13704440--13704627 Score: 234
Period size: 97 Copynumber: 1.9 Consensus size: 97
13704430 AACCTTACAA
* * * **
13704440 AAGGGTATTCGATTATCCCGGTTTAAATAAAAGTCGCGTCTAATAAGTTAAGACACAAATTTTTG
1 AAGGGTATTCGATTATCCCGGTTTAAAGAAAAATCGCGCCTAATAAGTTAAGACACAAATTTTCA
* *
13704505 AAACTAGAGATAAAGAAACATTGTCTCAATTT
66 AAACTAGAAATAAAGAAACATTGCCTCAATTT
* * * * *
13704537 AAGGGTATTTGATTATCCCGGTTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGGTTTAAAGAAAAATCGCGCCTAATAAGTTAAGACACAAATTTTCA
* * *
13704602 AAAC-CGAAATAAAGGAATATTGCCTC
66 AAACTAGAAATAAAGAAACATTGCCTC
13704628 GACTTTAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
96 17 0.22
97 59 0.78
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGGTTTAAAGAAAAATCGCGCCTAATAAGTTAAGACACAAATTTTCA
AAACTAGAAATAAAGAAACATTGCCTCAATTT
Found at i:13705031 original size:58 final size:58
Alignment explanation
Indices: 13704919--13705085 Score: 144
Period size: 58 Copynumber: 2.9 Consensus size: 58
13704909 GGTTAAAATG
* * * * * *
13704919 TAATTTTGGAAAATTTTAGAGGTAAAA-ATGTCATTTTAGGAAAATTC-GGTGTAAAAACA
1 TAATTTTGGAAAAGTTTAGGGGCAAAATATG--ATTTTTGGACAGTTCAGG-GTAAAAACA
** * * **
13704978 TGGTTTTGG-GAAGTTTAGGGGCAAAATTGTGATTTTTGGA-AGTTCGAGGGTAAAAATG
1 TAATTTTGGAAAAGTTTAGGGGCAAAA-TATGATTTTTGGACAGTTC-AGGGTAAAAACA
*
13705036 TAATTTTGGAAAAGTTTAGGGTCAAAATATGATTTTTGGACAGTTCAGGG
1 TAATTTTGGAAAAGTTTAGGGGCAAAATATGATTTTTGGACAGTTCAGGG
13705086 ACCATCTAGG
Statistics
Matches: 86, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
57 4 0.05
58 51 0.59
59 29 0.34
60 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (58 bp):
TAATTTTGGAAAAGTTTAGGGGCAAAATATGATTTTTGGACAGTTCAGGGTAAAAACA
Found at i:13705034 original size:30 final size:28
Alignment explanation
Indices: 13704939--13705085 Score: 91
Period size: 29 Copynumber: 5.1 Consensus size: 28
13704929 AAATTTTAGA
* * *
13704939 GGTAAAAATGTCATTTTAGGAAAATTC-G
1 GGTAAAAATGTGATTTTTGG-AAGTTCAG
** * * *
13704967 GTGTAAAAACATGGTTTTGGGAAGTTTAGG
1 G-GTAAAAATGTGATTTTTGGAAGTTCA-G
* *
13704997 GGCAAAATTGTGATTTTTGGAAGTTCGAG
1 GGTAAAAATGTGATTTTTGGAAGTTC-AG
* *
13705026 GGTAAAAATGT-AATTTTGGAAAAGTTTAG
1 GGTAAAAATGTGATTTTTGG--AAGTTCAG
* *
13705055 GGTCAAAATATGATTTTTGGACAGTTCAG
1 GGTAAAAATGTGATTTTTGGA-AGTTCAG
13705084 GG
1 GG
13705086 ACCATCTAGG
Statistics
Matches: 89, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
28 13 0.15
29 61 0.69
30 15 0.17
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
GGTAAAAATGTGATTTTTGGAAGTTCAG
Found at i:13706823 original size:6 final size:6
Alignment explanation
Indices: 13706812--13706887 Score: 70
Period size: 6 Copynumber: 13.3 Consensus size: 6
13706802 AGACATTATT
* * * *
13706812 AATTTA AATTT- -AGTTA AATTTA AA-ATA AATTTA AACTTA AA-ATA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
**
13706856 AATTTA AATTTA AAAATA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AA
13706888 AACAAATTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
4 3 0.05
5 8 0.15
6 44 0.80
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:13706842 original size:11 final size:12
Alignment explanation
Indices: 13706826--13706881 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
13706816 TAAATTTAGT
13706826 TAAATTTAAA-A
1 TAAATTTAAACA
*
13706837 TAAATTTAAACT
1 TAAATTTAAACA
* **
13706849 TAAA-ATAAATT
1 TAAATTTAAACA
*
13706860 TAAATTTAAAAA
1 TAAATTTAAACA
13706872 TAAATTTAAA
1 TAAATTTAAA
13706882 TTTAAAAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
11 19 0.51
12 18 0.49
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAATTTAAACA
Found at i:13706873 original size:18 final size:17
Alignment explanation
Indices: 13706825--13706916 Score: 130
Period size: 17 Copynumber: 5.3 Consensus size: 17
13706815 TTAAATTTAG
13706825 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
13706842 TTAAACTTAAAATAAAT
1 TTAAATTTAAAATAAAT
13706859 TTAAATTTAAAAATAAAT
1 TTAAATTT-AAAATAAAT
*
13706877 TTAAATTTAAAAACAAAT
1 TTAAATTT-AAAATAAAT
*
13706895 TTAAACTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
13706912 CTAAA
1 TTAAA
13706917 AAAGGTTTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
17 35 0.51
18 33 0.49
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:13708781 original size:85 final size:85
Alignment explanation
Indices: 13708638--13708805 Score: 241
Period size: 85 Copynumber: 2.0 Consensus size: 85
13708628 CAAACCCCTA
*
13708638 TCTTCCTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAGCATCCATCTTCCTGATGAGATAT
1 TCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAATAAAGCATCCATCTTCCTGATGAGATAT
13708703 AAAGAAGTGAACCAAATCAG
66 AAAGAAGTGAACCAAATCAG
* * * * *
13708723 TCTTCCTGATGAGATACAAAGAAGTG-GATTAAATCAATGAAGCGGT-CATCTTCTTGATGAGAT
1 TCTTCCTGATGAGATACAAAGAAGTGAG-TCAAAGCAATAAAGC-ATCCATCTTCCTGATGAGAT
*
13708786 ATAGAGAAGTGAACCAAATC
64 ATAAAGAAGTGAACCAAATC
13708806 GATGAAGCGA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
84 1 0.01
85 72 0.97
86 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAATAAAGCATCCATCTTCCTGATGAGATAT
AAAGAAGTGAACCAAATCAG
Found at i:13708794 original size:48 final size:48
Alignment explanation
Indices: 13708723--13708814 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
13708713 ACCAAATCAG
* **
13708723 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCA
1 TCTTCCTGATGAGATACAAAGAAGTGAACCAAATCAATGAAGCGGTCA
* * * *
13708771 TCTTCTTGATGAGATATAGAGAAGTGAACCAAATCGATGAAGCG
1 TCTTCCTGATGAGATACAAAGAAGTGAACCAAATCAATGAAGCG
13708815 AAGCTAAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAAAGAAGTGAACCAAATCAATGAAGCGGTCA
Found at i:13708920 original size:210 final size:209
Alignment explanation
Indices: 13708552--13708977 Score: 658
Period size: 210 Copynumber: 2.0 Consensus size: 209
13708542 ATCGAACAAC
* * * *
13708552 GAAGTGGTCATCTTCCTAATGAGATACAGAGAAGTGAACCAAATCGATGAAGTGGAGCTCAATGT
1 GAAGCGGTCATCTTCCTAATGAGATACAGAGAAGTGAACCAAATCGATGAAGCGAAGCTAAATGT
*
13708617 GAGTGAAACTTCAAACCCCTATCTTCCTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAGCA
66 GAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAGCA
* *
13708682 TCCATCTTCCTGATGAGATATAAAGAAGTGAACCAAATCAGTCTTCCTGATGAGATACAAAGAAG
131 TCCATCTTCCTGATGAGATACAAAGAAGTGAACCAAATCAGTCTTCCTGATAAGATACAAAGAAG
*
13708747 TGGATTAAATCAAT
196 TGAATTAAATCAAT
* * *
13708761 GAAGCGGTCATCTTCTTGATGAGATATAGAGAAGTGAACCAAATCGATGAAGCGAAGCTAAATGT
1 GAAGCGGTCATCTTCCTAATGAGATACAGAGAAGTGAACCAAATCGATGAAGCGAAGCTAAATGT
13708826 GAGTGAAACTTCAAACCCCCCATCTTCCTGATGAGATACAGAGAAGCTG-GTCAAAGCAATAAAG
66 GAGTGAAACTTCAAA-CCCCCATCTTCCTGATGAGATACAGAGAAG-TGAGTCAAAGCAATAAAG
* * * * *
13708890 CGGT-CATCTTCCTGATGAGATACAAAGAAGTGAACTAAATCCGTCTTCCTGATAAGATATAGAG
129 C-ATCCATCTTCCTGATGAGATACAAAGAAGTGAACCAAATCAGTCTTCCTGATAAGATACAAAG
*
13708954 AAGTGAATTAGATCAAT
193 AAGTGAATTAAATCAAT
13708971 GAAGCGG
1 GAAGCGG
13708978 CTGATGAGAT
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
209 73 0.37
210 121 0.61
211 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (209 bp):
GAAGCGGTCATCTTCCTAATGAGATACAGAGAAGTGAACCAAATCGATGAAGCGAAGCTAAATGT
GAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAGCA
TCCATCTTCCTGATGAGATACAAAGAAGTGAACCAAATCAGTCTTCCTGATAAGATACAAAGAAG
TGAATTAAATCAAT
Found at i:13708937 original size:37 final size:37
Alignment explanation
Indices: 13708896--13709072 Score: 185
Period size: 37 Copynumber: 4.7 Consensus size: 37
13708886 AAAGCGGTCA
* *
13708896 TCTTCCTGATGAGATACAAAGAAGTGAACTAAATCCG
1 TCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCG
* * ** * **
13708933 TCTTCCTGATAAGATATAGAGAAGTGAATTAGATCAA
1 TCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCG
***
13708970 TGAAGCGGCTGATGAGATACAGAGAAGTGAACCAAATCCG
1 T-CTTC--CTGATGAGATACAGAGAAGTGAACCAAATCCG
13709010 TCTTCCTGATGAGATACAGAGAAGTGAACCAAATCC-
1 TCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCG
* *
13709046 ACGTTCCTAATGAGATACAGAGAAGTG
1 TC-TTCCTGATGAGATACAGAGAAGTG
13709073 GATTAAATAA
Statistics
Matches: 114, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
36 1 0.01
37 85 0.75
38 1 0.01
39 1 0.01
40 26 0.23
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (37 bp):
TCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCG
Found at i:13709982 original size:14 final size:15
Alignment explanation
Indices: 13709963--13709991 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13709953 AAACGTTTCT
13709963 TAAATAAAA-AGAAA
1 TAAATAAAAGAGAAA
13709977 TAAATAAAAGAGAAA
1 TAAATAAAAGAGAAA
13709992 GATTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (15 bp):
TAAATAAAAGAGAAA
Found at i:13713223 original size:21 final size:21
Alignment explanation
Indices: 13713199--13713239 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13713189 GCTTTCTTCA
* *
13713199 CTTGCCTCGTTGCTGCCTCCG
1 CTTGCCTCGCTACTGCCTCCG
13713220 CTTGCCTCGCTACTGCCTCC
1 CTTGCCTCGCTACTGCCTCC
13713240 ACTTTAAGTT
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:0.02, C:0.46, G:0.20, T:0.32
Consensus pattern (21 bp):
CTTGCCTCGCTACTGCCTCCG
Found at i:13713604 original size:31 final size:33
Alignment explanation
Indices: 13713532--13713598 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
13713522 TTGATTTAAA
*
13713532 TTTAAAA-ACATATATTAGTGACAACATTTTAC
1 TTTAAAATATATATATTAGTGACAACATTTTAC
13713564 TTTAAAATATATATATTAGTGACAACATTTTAC
1 TTTAAAATATATATATTAGTGACAACATTTTAC
13713597 TT
1 TT
13713599 AAATATTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (33 bp):
TTTAAAATATATATATTAGTGACAACATTTTAC
Found at i:13713633 original size:8 final size:8
Alignment explanation
Indices: 13713620--13713701 Score: 62
Period size: 8 Copynumber: 9.8 Consensus size: 8
13713610 CTGTTTTTAT
13713620 TAATTAAA
1 TAATTAAA
13713628 TAATTAAATA
1 TAATT-AA-A
13713638 TAATTAAA
1 TAATTAAA
13713646 TAATTAAA
1 TAATTAAA
*
13713654 T-ATT--T
1 TAATTAAA
13713659 TCAATTAAA
1 T-AATTAAA
13713668 TAATTAAA
1 TAATTAAA
13713676 TAAAATTAAA
1 T--AATTAAA
*
13713686 TACTTATATA
1 TAATTA-A-A
13713696 TAATTA
1 TAATTA
13713702 TTTACCAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
5 1 0.02
7 6 0.10
8 27 0.45
9 6 0.10
10 20 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATTAAA
Found at i:13713643 original size:18 final size:18
Alignment explanation
Indices: 13713620--13713842 Score: 105
Period size: 18 Copynumber: 11.9 Consensus size: 18
13713610 CTGTTTTTAT
13713620 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
13713638 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
13713656 TTTTCAATTAAATAATTAAATA
1 ---T-AATTAAATAATTAAATA
* * *
13713678 AAATTAAATACTTATATA
1 TAATTAAATAATTAAATA
* * **
13713696 TAATT-ATTTACCAAA-A
1 TAATTAAATAATTAAATA
**
13713712 T-ATTTTA-AATTAAATA
1 TAATTAAATAATTAAATA
13713728 GTTAATTAAATATAATTAAATAA
1 --TAATT-AA-ATAATTAAAT-A
* **
13713751 TTAATTGATACTGTTTATAAT-
1 -TAATT-A-AATAATTA-AATA
* ** *
13713772 TAAATACCTAATTAAACA
1 TAATTAAATAATTAAATA
*
13713790 TAATTAAATAATTTAATA
1 TAATTAAATAATTAAATA
** * *
13713808 TAATTATTTACTTTAATA
1 TAATTAAATAATTAAATA
13713826 TAATTAAATAATTAAAT
1 TAATTAAATAATTAAAT
13713843 CTTTTAAATT
Statistics
Matches: 151, Mismatches: 38, Indels: 32
0.68 0.17 0.14
Matches are distributed among these distances:
15 7 0.05
16 3 0.02
17 6 0.04
18 84 0.56
19 4 0.03
20 4 0.03
21 2 0.01
22 36 0.24
23 5 0.03
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (18 bp):
TAATTAAATAATTAAATA
Found at i:13713643 original size:22 final size:21
Alignment explanation
Indices: 13713617--13713754 Score: 87
Period size: 22 Copynumber: 6.9 Consensus size: 21
13713607 GGGCTGTTTT
13713617 TATTAATTAAATAATT-AA-A
1 TATTAATTAAATAATTAAATA
13713636 TA-TAATTAAATAATTAAATA
1 TATTAATTAAATAATTAAATA
*
13713656 TTTTCAATTAAATAATTAAATA
1 TATT-AATTAAATAATTAAATA
*
13713678 -A--AATTAAATACTT--ATA
1 TATTAATTAAATAATTAAATA
** ***
13713694 TA-TAATTATTTACCAAAATA
1 TATTAATTAAATAATTAAATA
* * *
13713714 TTTTAAATTAAATAGTTAATTA
1 TATT-AATTAAATAATTAAATA
*
13713736 AATATAATTAAATAATTAA
1 TAT-TAATTAAATAATTAA
13713755 TTGATACTGT
Statistics
Matches: 91, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
16 3 0.03
17 1 0.01
18 32 0.35
19 4 0.04
20 6 0.07
21 2 0.02
22 42 0.46
23 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
TATTAATTAAATAATTAAATA
Found at i:13713672 original size:40 final size:40
Alignment explanation
Indices: 13713621--13713696 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
13713611 TGTTTTTATT
*
13713621 AATTAAATAATTAAATATAATTAAATAATTAAATATTTTC
1 AATTAAATAATTAAATAAAATTAAATAATTAAATATTTTC
* *
13713661 AATTAAATAATTAAATAAAATTAAATACTTATATAT
1 AATTAAATAATTAAATAAAATTAAATAATTAAATAT
13713697 AATTATTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (40 bp):
AATTAAATAATTAAATAAAATTAAATAATTAAATATTTTC
Found at i:13713683 original size:58 final size:58
Alignment explanation
Indices: 13713620--13713862 Score: 171
Period size: 58 Copynumber: 3.9 Consensus size: 58
13713610 CTGTTTTTAT
*
13713620 TAATTAAATAATTAAATATAATTAAATAATTAAATATTTTCAATTAAATAATTAAATA
1 TAATTAAATAATTAAATATAATTAAATAATTAAATATTTTAAATTAAATAATTAAATA
* * * ** ***
13713678 AAATTAAATACTTATATATAATTATTTACCAAAATATTTTAAATTAAATAGTTAATTAAATA
1 TAATTAAATAATTAAATATAATTAAATAATTAAATATTTTAAATT-AA-A--TAATTAAATA
* * ** * *
13713740 TAATTAAATAATTAATTGATACTGTTTATAATTAAATACCTAATTAAACATAATTAAATAATTTA
1 TAATTAAATAATTAAAT-ATAAT-TAAATAATTAAATA--T--TT---TA-AATTAAATAATTAA
13713805 ATA
56 ATA
** * * * *
13713808 TAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAAATATTTAA
1 TAATTAAATAATTAAATATAATTAAATAATTAAATATTTTAAATTAAATAATTAA
13713863 TTAATTGATA
Statistics
Matches: 138, Mismatches: 33, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
58 48 0.35
59 3 0.02
60 1 0.01
62 25 0.18
63 4 0.03
64 10 0.07
66 12 0.09
67 4 0.03
68 23 0.17
70 1 0.01
71 3 0.02
72 4 0.03
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (58 bp):
TAATTAAATAATTAAATATAATTAAATAATTAAATATTTTAAATTAAATAATTAAATA
Found at i:13713734 original size:12 final size:11
Alignment explanation
Indices: 13713719--13713756 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
13713709 AAATATTTTA
13713719 AATTAAATAGTT
1 AATTAAATA-TT
13713731 AATTAAATA-T
1 AATTAAATATT
13713741 AATTAAATAATT
1 AATTAAAT-ATT
13713753 AATT
1 AATT
13713757 GATACTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
12 14 0.58
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
AATTAAATATT
Found at i:13713755 original size:22 final size:22
Alignment explanation
Indices: 13713719--13713802 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 22
13713709 AAATATTTTA
*
13713719 AATTAAATAGTTAATTAAATAT
1 AATTAAATAATTAATTAAATAT
*
13713741 AATTAAATAATTAATTGATACTGTTTAT
1 AATTAAATAATTAATT-A-A----ATAT
** *
13713769 AATTAAATACCTAATTAAACAT
1 AATTAAATAATTAATTAAATAT
13713791 AATTAAATAATT
1 AATTAAATAATT
13713803 TAATATAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
22 27 0.56
23 1 0.02
24 1 0.02
26 1 0.02
27 1 0.02
28 17 0.35
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (22 bp):
AATTAAATAATTAATTAAATAT
Found at i:13713809 original size:112 final size:111
Alignment explanation
Indices: 13713668--13713889 Score: 263
Period size: 112 Copynumber: 2.0 Consensus size: 111
13713658 TTCAATTAAA
* ** *
13713668 TAATTAAATAAAATTAAATACTTATATATAATTATTTAC-CAAAAT-ATTTTA-AATTAAATAGT
1 TAATTAAACAAAATTAAATACTTATATATAATTATTTACTCAAAATAATTAAATAATTAAAT-CT
*
13713730 TAATTAAATATAATTAAATAATTAATTGATACTGTTTATAATTAAATACC
65 T--TTAAAT-TAAATAAATAATTAATTGATACTGTTTATAATTAAATACC
* * * *
13713780 TAATTAAACATAATTAAATAATT-TAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
1 TAATTAAACAAAATTAAATACTTAT-ATATAATTATTTAC-TCAAAATAATTAAATAATTAAATC
**
13713844 TTTTAAATTAAATATTTAATTAATTGATACTGTTTATAATTAAATA
64 TTTTAAATTAAATAAATAATTAATTGATACTGTTTATAATTAAATA
13713890 TTTAATTATT
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
111 1 0.01
112 69 0.73
113 6 0.06
114 4 0.04
115 6 0.06
116 8 0.09
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (111 bp):
TAATTAAACAAAATTAAATACTTATATATAATTATTTACTCAAAATAATTAAATAATTAAATCTT
TTAAATTAAATAAATAATTAATTGATACTGTTTATAATTAAATACC
Found at i:13713898 original size:18 final size:17
Alignment explanation
Indices: 13713789--13713909 Score: 63
Period size: 18 Copynumber: 6.9 Consensus size: 17
13713779 CTAATTAAAC
13713789 ATAATTAAATAATTTAAT
1 ATAATTAAAT-ATTTAAT
**
13713807 ATAATTATTTACTTTAAT
1 ATAATTAAATA-TTTAAT
*
13713825 ATAATTAAATAATTAAATCTT
1 ATAATTAAAT-ATTTAA---T
*
13713846 TTAAATTAAATATTTAAT
1 AT-AATTAAATATTTAAT
*
13713864 -TAATT-GATACTGTT--T
1 ATAATTAAATA-T-TTAAT
13713879 ATAATTAAATATTTAAT
1 ATAATTAAATATTTAAT
* *
13713896 -TATTTAATTATTTA
1 ATAATTAAATATTTA
13713910 CTGGTTTTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 26
0.68 0.09 0.22
Matches are distributed among these distances:
15 6 0.08
16 23 0.29
17 8 0.10
18 27 0.34
19 1 0.01
21 7 0.09
22 8 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
ATAATTAAATATTTAAT
Found at i:13717475 original size:40 final size:40
Alignment explanation
Indices: 13717429--13717546 Score: 112
Period size: 42 Copynumber: 2.9 Consensus size: 40
13717419 CGCTTATGGG
* *
13717429 AAAGCGCCGCAAATGCACACCTTTAGCGGCGCTTATTAGA
1 AAAGCGCCGCTAATGCACACCTTTAGCGGCACTTATTAGA
* *
13717469 AAAGCGCCGCTAATG-ACCTGACCTTTAGCGGCACTTTTTATA
1 AAAGCGCCGCTAATGCA-C--ACCTTTAGCGGCACTTATTAGA
* * * *
13717511 TAAGTGCCGCTAATGACCAGACCTTTAGCGGAACTT
1 AAAGCGCCGCTAATG--CACACCTTTAGCGGCACTT
13717547 GGGGGAAAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
39 1 0.02
40 15 0.23
42 47 0.73
45 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCACACCTTTAGCGGCACTTATTAGA
Found at i:13717498 original size:42 final size:41
Alignment explanation
Indices: 13717447--13717583 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 41
13717437 GCAAATGCAC
* * *
13717447 ACCTTTAGCGGCGCTTATTAGAAAAGCGCCGCTAATGACCTG
1 ACCTTTAGCGGCACTT-TTAGAAAAGAGCCGCTAATGACCAG
* * *
13717489 ACCTTTAGCGGCACTTTTTATATAAGTGCCGCTAATGACCAG
1 ACCTTTAGCGGCAC-TTTTAGAAAAGAGCCGCTAATGACCAG
* *** * *
13717531 ACCTTTAGCGGAACTTGGGGGAAAGAGCCGCTAATGACCCG
1 ACCTTTAGCGGCACTTTTAGAAAAGAGCCGCTAATGACCAG
13717572 ACCTTTAGCGGC
1 ACCTTTAGCGGC
13717584 GCTTGGGAGA
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
41 30 0.38
42 47 0.59
43 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.24
Consensus pattern (41 bp):
ACCTTTAGCGGCACTTTTAGAAAAGAGCCGCTAATGACCAG
Found at i:13717575 original size:41 final size:41
Alignment explanation
Indices: 13717469--13717596 Score: 148
Period size: 41 Copynumber: 3.1 Consensus size: 41
13717459 GCTTATTAGA
* * *** *
13717469 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCACTTTTTAT
1 AAAGAGCCGCTAATGACCAGACCTTTAGCGGCACTTGGGAG
* * *
13717510 ATAAGTGCCGCTAATGACCAGACCTTTAGCGGAACTTGGGGG
1 A-AAGAGCCGCTAATGACCAGACCTTTAGCGGCACTTGGGAG
* *
13717552 AAAGAGCCGCTAATGACCCGACCTTTAGCGGCGCTTGGGAG
1 AAAGAGCCGCTAATGACCAGACCTTTAGCGGCACTTGGGAG
13717593 AAAG
1 AAAG
13717597 CACCGTTAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 40 0.55
42 33 0.45
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (41 bp):
AAAGAGCCGCTAATGACCAGACCTTTAGCGGCACTTGGGAG
Found at i:13717637 original size:40 final size:40
Alignment explanation
Indices: 13717572--13717661 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
13717562 TAATGACCCG
* * **
13717572 ACCTTTAGCGGCGCTTGGGAGAAAGCACCGTTAATGCTTT
1 ACCTTTTGCGGCGCTTAGGAGAAAGCACCACTAATGCTTT
**
13717612 ACCTTTTGCGGCGCATTAGGA-AAAGCGTCACTAATGCTTT
1 ACCTTTTGCGGCGC-TTAGGAGAAAGCACCACTAATGCTTT
13717652 ACCTTTTGCG
1 ACCTTTTGCG
13717662 ATGCTTTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 38 0.88
41 5 0.12
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.30
Consensus pattern (40 bp):
ACCTTTTGCGGCGCTTAGGAGAAAGCACCACTAATGCTTT
Found at i:13718181 original size:33 final size:33
Alignment explanation
Indices: 13718135--13718197 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
13718125 TAGAAATGGA
* *
13718135 TAGAAATGTTGAAGTCAGAGAAATGAGTAATGT
1 TAGAAATGATGAAGTCAGAGAAATAAGTAATGT
*
13718168 TAGAAATGATGAAGTTAGAGAAATAAGTAA
1 TAGAAATGATGAAGTCAGAGAAATAAGTAA
13718198 CGTTCACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.25, T:0.25
Consensus pattern (33 bp):
TAGAAATGATGAAGTCAGAGAAATAAGTAATGT
Found at i:13718191 original size:17 final size:17
Alignment explanation
Indices: 13718136--13718191 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
13718126 AGAAATGGAT
* *
13718136 AGAAATGTTGAAGTCAG
1 AGAAATGATGAAGTTAG
13718153 AGAAATGA-GTAATGTT--
1 AGAAATGATG-AA-GTTAG
13718169 AGAAATGATGAAGTTAG
1 AGAAATGATGAAGTTAG
13718186 AGAAAT
1 AGAAAT
13718192 AAGTAACGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
15 3 0.09
16 11 0.34
17 16 0.50
18 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.25
Consensus pattern (17 bp):
AGAAATGATGAAGTTAG
Found at i:13719648 original size:41 final size:41
Alignment explanation
Indices: 13719603--13719698 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
13719593 GAATTTTATT
* *
13719603 TTAACAAGAATTTTAGTCACTCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
13719644 TTAACAAGAATTCTAGTCTCCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
13719685 TTGACAAGAATTCT
1 TTAACAAGAATTCT
13719699 CTAAGAACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.31
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:13719710 original size:17 final size:17
Alignment explanation
Indices: 13719688--13719726 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
13719678 CTCCACCTTG
*
13719688 ACAAGAATTCTCTAA-GA
1 ACAAGAACTCTC-AAGGA
13719705 ACAAGAACTCTCAAGGA
1 ACAAGAACTCTCAAGGA
13719722 ACAAG
1 ACAAG
13719727 TTCTCCTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.15, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAAGGA
Found at i:13723023 original size:23 final size:23
Alignment explanation
Indices: 13722997--13723050 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
13722987 AAGTGTCTTG
* *
13722997 AATAGGAGCACCAAAGTGCTAAT
1 AATAGGAGCACCAAAGTACTAAC
* **
13723020 AATAAGAATACCAAAGTACTAAC
1 AATAGGAGCACCAAAGTACTAAC
*
13723043 AACAGGAG
1 AATAGGAG
13723051 TATCGAAATA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.15
Consensus pattern (23 bp):
AATAGGAGCACCAAAGTACTAAC
Found at i:13726291 original size:24 final size:23
Alignment explanation
Indices: 13726234--13726299 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
13726224 AAACATGCAT
**
13726234 TTAATAAATA-TAGCAATAAATA
1 TTAATAAATATTAATAATAAATA
**
13726256 -TAATAAGCATTAATAATAAATAA
1 TTAATAAATATTAATAATAAAT-A
13726279 TTAATAAATATTAATAATAAA
1 TTAATAAATATTAATAATAAA
13726300 GAAAAAAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 7 0.20
22 9 0.26
23 1 0.03
24 18 0.51
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (23 bp):
TTAATAAATATTAATAATAAATA
Found at i:13727533 original size:59 final size:57
Alignment explanation
Indices: 13727473--13727696 Score: 252
Period size: 59 Copynumber: 3.8 Consensus size: 57
13727463 AACTTTACAA
*
13727473 AAAAATTATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACCCTCGAACATCC
1 AAAAATTATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACCCTCGAACGTCC
* * * *
13727530 AAAAATTCCATTTTTGACCTTCAACTTTCCAAAAATTACCATTTTACCCTCGGATGTCC
1 AAAAATT--ATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACCCTCGAACGTCC
* * * * *
13727589 AAAAATTCCATTTTTGACCCTGAATTTTCCAAAAATTACCATTTTACCCCCTAATGTCC
1 AAAAATT--ATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACCCTCGAACGTCC
** * * *
13727648 AAAAATTCTATTTTTGACCCCGAAC-CTCCAAAAATTACTATTTTCCCCT
1 AAAAA-T-TATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACCCT
13727697 GAAGTGTCTA
Statistics
Matches: 146, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
57 7 0.05
58 20 0.14
59 117 0.80
60 1 0.01
61 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (57 bp):
AAAAATTATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACCCTCGAACGTCC
Found at i:13727563 original size:30 final size:31
Alignment explanation
Indices: 13727399--13727683 Score: 202
Period size: 29 Copynumber: 9.7 Consensus size: 31
13727389 CATGTTTTCA
*
13727399 ACCCT-GAACTTTTCAAAAA-T-CATATTTTG
1 ACCCTCGAACTTTCCAAAAATTCCAT-TTTTG
* *
13727428 ACCC-C-AAATTTCCAAAAATTACATTTTTG
1 ACCCTCGAACTTTCCAAAAATTCCATTTTTG
* *
13727457 -CTCC-CAAACTTTACAAAAAAATT--ATTTTTG
1 AC-CCTCGAACTTT-C-CAAAAATTCCATTTTTG
*
13727487 ACCCT-AAACTTTCCAAAAATTACCA-TTTT-
1 ACCCTCGAACTTTCCAAAAATT-CCATTTTTG
*
13727516 ACCCTCGAAC-ATCCAAAAATTCCATTTTTG
1 ACCCTCGAACTTTCCAAAAATTCCATTTTTG
*
13727546 ACCTTC-AACTTTCCAAAAATTACCA-TTTT-
1 ACCCTCGAACTTTCCAAAAATT-CCATTTTTG
* *
13727575 ACCCTCGGA-TGTCCAAAAATTCCATTTTTG
1 ACCCTCGAACTTTCCAAAAATTCCATTTTTG
*
13727605 ACCCT-GAATTTTCCAAAAATTACCA-TTTT-
1 ACCCTCGAACTTTCCAAAAATT-CCATTTTTG
* * * *
13727634 ACCCCCTAA-TGTCCAAAAATTCTATTTTTG
1 ACCCTCGAACTTTCCAAAAATTCCATTTTTG
*
13727664 ACCC-CGAAC-CTCCAAAAATT
1 ACCCTCGAACTTTCCAAAAATT
13727684 ACTATTTTCC
Statistics
Matches: 210, Mismatches: 20, Indels: 52
0.74 0.07 0.18
Matches are distributed among these distances:
28 27 0.13
29 90 0.43
30 77 0.37
31 9 0.04
32 7 0.03
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (31 bp):
ACCCTCGAACTTTCCAAAAATTCCATTTTTG
Found at i:13727689 original size:30 final size:30
Alignment explanation
Indices: 13727423--13727691 Score: 172
Period size: 30 Copynumber: 9.1 Consensus size: 30
13727413 AAAAATCATA
* *
13727423 TTTTGACCCCAAATTTCCAAAAATTA-CAT
1 TTTTGACCCCGAACTTCCAAAAATTACCAT
* * * **
13727452 TTTTG-CTCCCAAACTTTACAAAAA-AATTAT
1 TTTTGAC-CCCGAAC-TTCCAAAAATTACCAT
**
13727482 TTTTGACCCTAAACTTTCCAAAAATTACCA-
1 TTTTGACCCCGAAC-TTCCAAAAATTACCAT
*
13727512 TTTT-ACCCTCGAACATCCAAAAATT-CCAT
1 TTTTGACCC-CGAACTTCCAAAAATTACCAT
*
13727541 TTTTGACCTTC-AACTTTCCAAAAATTACCA-
1 TTTTGACC-CCGAAC-TTCCAAAAATTACCAT
*
13727571 TTTT-ACCCTCGGA-TGTCCAAAAATT-CCAT
1 TTTTGACCC-CGAACT-TCCAAAAATTACCAT
* *
13727600 TTTTGACCCTGAATTTTCCAAAAATTACCA-
1 TTTTGACCCCGAA-CTTCCAAAAATTACCAT
* *
13727630 TTTT-ACCCCCTAA-TGTCCAAAAATT-CTAT
1 TTTTGA-CCCCGAACT-TCCAAAAATTACCAT
* *
13727659 TTTTGACCCCGAACCTCCAAAAATTACTAT
1 TTTTGACCCCGAACTTCCAAAAATTACCAT
13727689 TTT
1 TTT
13727692 CCCCTGAAGT
Statistics
Matches: 192, Mismatches: 23, Indels: 49
0.73 0.09 0.19
Matches are distributed among these distances:
28 11 0.06
29 84 0.44
30 87 0.45
31 10 0.05
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (30 bp):
TTTTGACCCCGAACTTCCAAAAATTACCAT
Found at i:13732925 original size:18 final size:18
Alignment explanation
Indices: 13732902--13732994 Score: 73
Period size: 18 Copynumber: 4.9 Consensus size: 18
13732892 GAATTCAATG
13732902 AAGAAA-AAAGAATAAAAA
1 AAGAAAGAAA-AATAAAAA
**
13732920 AAGAAAGAAAAGGAAAAA
1 AAGAAAGAAAAATAAAAA
*
13732938 AGGAAAGAAAAAATAGAAAA
1 AAGAAAG-AAAAATA-AAAA
*
13732958 AAGGAAA-AAAATTGAAAAAA
1 AA-GAAAGAAAAAT--AAAAA
*
13732978 AAGCAAGAAAAATAAAA
1 AAGAAAGAAAAATAAAA
13732995 GGAGAGGTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
18 22 0.37
19 16 0.27
20 16 0.27
21 5 0.08
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.05
Consensus pattern (18 bp):
AAGAAAGAAAAATAAAAA
Found at i:13732948 original size:29 final size:28
Alignment explanation
Indices: 13732904--13732967 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
13732894 ATTCAATGAA
13732904 GAAAAAAGAATAAAAAAAGA-AAGAAAAG
1 GAAAAAAGAATAAAAAAAGAGAA-AAAAG
*
13732932 GAAAAAAGGAA-AGAAAAAATAGAAAAAAG
1 GAAAAAA-GAATA-AAAAAAGAGAAAAAAG
13732961 GAAAAAA
1 GAAAAAA
13732968 ATTGAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 8 0.25
29 22 0.69
30 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (28 bp):
GAAAAAAGAATAAAAAAAGAGAAAAAAG
Found at i:13732958 original size:21 final size:21
Alignment explanation
Indices: 13732919--13732968 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
13732909 AAGAATAAAA
13732919 AAAGAAAGAAAAGGAAAAAAGG
1 AAAGAAA-AAAAGGAAAAAAGG
13732941 AAAGAAAAAATA-GAAAAAAGG
1 AAAGAAAAAA-AGGAAAAAAGG
13732962 AAA-AAAA
1 AAAGAAAA
13732969 TTGAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.15
21 15 0.56
22 8 0.30
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAAGGAAAAAAGG
Found at i:13734074 original size:50 final size:50
Alignment explanation
Indices: 13733909--13734192 Score: 197
Period size: 50 Copynumber: 5.7 Consensus size: 50
13733899 ATGAGCACAT
* * * * *
13733909 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACAAACTCGGTACC-AT
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAA
* * * * * * * *
13733958 GAAGATTTGAAGGG-AAGGATTAAGGACACGACGGTGAATCTGGTACCTTAA
1 GAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACC-TAA
* * * *
13734009 -AAGATGTGATGGGAAAGGTTGAGGTCACAACGGTGAACCCGGTACCTAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAA
* * *
13734058 GAAGATGTGAAGGGAAAAGTTGAAGCCGCAACGACGAACCCGGTACCTTAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC-TAA
* * * * * *
13734109 -AAGATATTATA-GGAAAGATTAAGGTCGCAACGGCAAACCCGGTACCTTAA
1 GAAGATGTGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC-TAA
* * * *
13734159 -AACA--TGACGGGAAAGATTGAGGCTGCAACGGCGA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGA
13734193 GTAGATTGAA
Statistics
Matches: 186, Mismatches: 41, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
48 27 0.15
49 35 0.19
50 115 0.62
51 9 0.05
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (50 bp):
GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAA
Found at i:13734427 original size:39 final size:38
Alignment explanation
Indices: 13734384--13734508 Score: 160
Period size: 39 Copynumber: 3.2 Consensus size: 38
13734374 CTAGACCATA
* *
13734384 GGGCAAATCACAGTCAGCCAATCTCTTACCCCGAGCCTG
1 GGGCAGATCACA-TCAACCAATCTCTTACCCCGAGCCTG
* * * * *
13734423 GGGCAGATGACAACTATCCGATCTTTTACCCCGAGCCTG
1 GGGCAGATCACATC-AACCAATCTCTTACCCCGAGCCTG
13734462 GGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTG
1 GGGCAGATCA-CATCAACCAATCTCTTACCCCGAGCCTG
13734501 GGGCAGAT
1 GGGCAGAT
13734509 TGCAGTTATC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 69 0.95
40 3 0.04
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.19
Consensus pattern (38 bp):
GGGCAGATCACATCAACCAATCTCTTACCCCGAGCCTG
Found at i:13734451 original size:78 final size:78
Alignment explanation
Indices: 13734363--13734508 Score: 215
Period size: 78 Copynumber: 1.9 Consensus size: 78
13734353 ATGAAAATTT
* *
13734363 CGATCTTTTACCTAGA-CCATAGGGCAAATCA-CAGTCAGCCAATCTCTTACCCCGAGCCTGGGG
1 CGATCTTTTACCCAGAGCC-TAGGGCAAATCACCA-TCAACCAATCTCTTACCCCGAGCCTGGGG
13734426 CAGATGACAACTATC
64 CAGATGACAACTATC
* * *
13734441 CGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTTTTACCCAGAGCCTAGGGCAAATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCA
13734506 GAT
66 GAT
13734509 TGCAGTTATC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 57 0.93
79 4 0.07
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (78 bp):
CGATCTTTTACCCAGAGCCTAGGGCAAATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCA
GATGACAACTATC
Found at i:13734726 original size:75 final size:75
Alignment explanation
Indices: 13734583--13734728 Score: 188
Period size: 75 Copynumber: 1.9 Consensus size: 75
13734573 GATGAAGCCA
* * * *
13734583 AGCTCAAAGTGAGCAAATCTTCGAACTCCAGCTTCTTGATGAGATACTAAGAAGAAGACCAAATC
1 AGCTCAAAGTGAGCAAATCTTCGAACTACAGCTTCCTGATAAGATACTAAGAAGAAGACCAAAGC
13734648 AATAAAACAC
66 AATAAAACAC
* * * *
13734658 AGCTCAATGTGAGCGAAA-CTTCGAACTACAGCTTCCTGATAAGATACTGAGAAGCAAG-TCGAA
1 AGCTCAAAGTGAGC-AAATCTTCGAACTACAGCTTCCTGATAAGATACTAAGAAG-AAGACCAAA
13734721 GCAATAAA
64 GCAATAAA
13734729 GTATTTAGCT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
75 55 0.90
76 6 0.10
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (75 bp):
AGCTCAAAGTGAGCAAATCTTCGAACTACAGCTTCCTGATAAGATACTAAGAAGAAGACCAAAGC
AATAAAACAC
Found at i:13734911 original size:172 final size:172
Alignment explanation
Indices: 13734614--13735083 Score: 796
Period size: 172 Copynumber: 2.7 Consensus size: 172
13734604 CGAACTCCAG
* * *
13734614 CTTCTTGATGAGATACTAAGAAGAAGACCAAATCAATAAAACACAGCTCAATGTGAGCGAAACTT
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATAAAACAAAGCTCAATGTGAGCGAAACTT
* * * *
13734679 CGAACTACAGCTTCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAGTATTTAGCTTCTTG
66 TGAACTCCAGCTTCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAGTAGTTAGCTTCCTG
* *
13734744 ATGATATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
131 ACGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
*
13734786 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATAAAACAAAGCTCAATCTGAGCGAAACTT
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATAAAACAAAGCTCAATGTGAGCGAAACTT
*
13734851 TGAACTCCAGCTTCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTG
66 TGAACTCCAGCTTCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAGTAGTTAGCTTCCTG
*
13734916 ACGAGATGCAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
131 ACGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
13734958 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATAAAACAAAGCTCAATGTGAGCGAAACTT
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATAAAACAAAGCTCAATGTGAGCGAAACTT
* * * *
13735023 TGAACTCCAGCTTCCTGATGAGATATTGAGAAGCAAGTCGAAGCGATAAAGTAGTTGGCTT
66 TGAACTCCAGCTTCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAGTAGTTAGCTT
13735084 TCGGATGAGA
Statistics
Matches: 280, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 280 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (172 bp):
CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATAAAACAAAGCTCAATGTGAGCGAAACTT
TGAACTCCAGCTTCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAGTAGTTAGCTTCCTG
ACGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
Found at i:13736159 original size:24 final size:23
Alignment explanation
Indices: 13736102--13736167 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
13736092 AAACATGCAT
**
13736102 TTAATAAATA-TAGCAATAAATA
1 TTAATAAATATTAATAATAAATA
**
13736124 -TAATAAGCATTAATAATAAATAA
1 TTAATAAATATTAATAATAAAT-A
13736147 TTAATAAATATTAATAATAAA
1 TTAATAAATATTAATAATAAA
13736168 GAAAAAAAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 7 0.20
22 9 0.26
23 1 0.03
24 18 0.51
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (23 bp):
TTAATAAATATTAATAATAAATA
Found at i:13737309 original size:30 final size:29
Alignment explanation
Indices: 13737275--13737490 Score: 185
Period size: 29 Copynumber: 7.3 Consensus size: 29
13737265 CAAAAATCAT
13737275 ATTTTAACCCTAAACATTCCAAAAATTACC
1 ATTTT-ACCCTAAACATTCCAAAAATTACC
*
13737305 ATTTTACCCTCGAACA-TCCAAAAATT-CC
1 ATTTTACCCT-AAACATTCCAAAAATTACC
* *
13737333 ATTTTTGACCTTAAACTTTCCAAAAATTACC
1 A-TTTT-ACCCTAAACATTCCAAAAATTACC
***
13737364 ATTTTACCCT-CGGATGTCCAAAAATT-CC
1 ATTTTACCCTAAACAT-TCCAAAAATTACC
13737392 ACTTTTGACCCTAAA-ATTTCCAAAAATTACC
1 A-TTTT-ACCCTAAACA-TTCCAAAAATTACC
* * * *
13737423 ATTTTACCCT-CAGATTTCAAAAATTTCC
1 ATTTTACCCTAAACATTCCAAAAATTACC
**
13737451 ATTTTTAACCCTAAAGTTTCCAAAAATTA-C
1 A-TTTT-ACCCTAAACATTCCAAAAATTACC
13737481 ATTTTACCCT
1 ATTTTACCCT
13737491 CGAATATCCA
Statistics
Matches: 153, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
28 26 0.17
29 54 0.35
30 54 0.35
31 19 0.12
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
ATTTTACCCTAAACATTCCAAAAATTACC
Found at i:13737318 original size:59 final size:59
Alignment explanation
Indices: 13737246--13737605 Score: 383
Period size: 59 Copynumber: 6.1 Consensus size: 59
13737236 AAAAATCATG
* * * *
13737246 TTTTGACCCTCGAACTTTTCAAAAA-T-CATATTTTAACCCTAAACATTCCAAAAATTACCA
1 TTTT-ACCCTCGAA-TATCCAAAAATTCCAT-TTTTGACCCTAAACTTTCCAAAAATTACCA
* *
13737306 TTTTACCCTCGAACATCCAAAAATTCCATTTTTGACCTTAAACTTTCCAAAAATTACCA
1 TTTTACCCTCGAATATCCAAAAATTCCATTTTTGACCCTAAACTTTCCAAAAATTACCA
* * * *
13737365 TTTTACCCTCGGATGTCCAAAAATTCCACTTTTGACCCTAAAATTTCCAAAAATTACCA
1 TTTTACCCTCGAATATCCAAAAATTCCATTTTTGACCCTAAACTTTCCAAAAATTACCA
* * *
13737424 TTTTACCCTC-AGAT-TTCAAAAATTTCCATTTTTAACCCTAAAGTTTCCAAAAATTA-CA
1 TTTTACCCTCGA-ATATCCAAAAA-TTCCATTTTTGACCCTAAACTTTCCAAAAATTACCA
* *
13737482 TTTTACCCTCGAATATCCAAAAAAATT-TATTTTTGACCCCAAACTTTCCAAAAAAATTACCA
1 TTTTACCCTCGAATATCC--AAAAATTCCATTTTTGACCCTAAACTTTCC--AAAAATTACCA
* * ** ** * *
13737544 TTTTACCTTCGAATGTCCAAAAATTTTATTTTTGACCCCGAAC-CTCCAAAAATTACTA
1 TTTTACCCTCGAATATCCAAAAATTCCATTTTTGACCCTAAACTTTCCAAAAATTACCA
13737602 TTTT
1 TTTT
13737606 TCTATTGAAG
Statistics
Matches: 261, Mismatches: 27, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
58 42 0.16
59 153 0.59
60 19 0.07
61 29 0.11
62 18 0.07
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (59 bp):
TTTTACCCTCGAATATCCAAAAATTCCATTTTTGACCCTAAACTTTCCAAAAATTACCA
Found at i:13737563 original size:31 final size:29
Alignment explanation
Indices: 13737472--13737566 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 29
13737462 TAAAGTTTCC
13737472 AAAAATTACATTTTACCCTCGAATATCCAA
1 AAAAATTACATTTTA-CCTCGAATATCCAA
* * * *
13737502 AAAAATTTA-TTTTTGACCCCAAACTTTCCAA
1 AAAAA-TTACATTTT-ACCTCGAA-TATCCAA
*
13737533 AAAAATTACCATTTTACCTTCGAATGTCCAA
1 AAAAATTA-CATTTTACC-TCGAATATCCAA
13737564 AAA
1 AAA
13737567 TTTTATTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
30 17 0.33
31 27 0.53
32 7 0.14
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAATTACATTTTACCTCGAATATCCAA
Done.