Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 63 of 93
Found at i:23953382 original size:30 final size:31
Alignment explanation
Indices: 23953348--23953406 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
23953338 TTGATATCAT
23953348 TAATTACAT-AAAACTTTAACATAAATAATA
1 TAATTACATGAAAACTTTAACATAAATAATA
** * *
23953378 TAATTATTTGAAAATTTTAACATAGATAA
1 TAATTACATGAAAACTTTAACATAAATAA
23953407 CACCACTCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (31 bp):
TAATTACATGAAAACTTTAACATAAATAATA
Found at i:23958221 original size:36 final size:35
Alignment explanation
Indices: 23958104--23958317 Score: 263
Period size: 35 Copynumber: 6.1 Consensus size: 35
23958094 CACTTGATTA
*
23958104 AAATTGTTTAATTAAG---TTGTGCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * *
23958136 AAATTGTTTAATTAAATTATTGAGCATAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
23958171 AAATTGTTTAATTAAGTCATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
23958206 AAATTTGTTTAATTAAGTCATTGGGCCTAATTGATT
1 AAA-TTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * * *
23958242 AAAATTGTTTAATTAAATTGTTGGACTTAATTAATT
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
23958278 AAATTGTTTAATTCAGTTATTGGGCCTAATCAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
23958313 AAATT
1 AAATT
23958318 AAACAATTAA
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
32 15 0.10
35 81 0.52
36 58 0.37
37 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.45
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:23958281 original size:107 final size:103
Alignment explanation
Indices: 23958097--23958317 Score: 309
Period size: 107 Copynumber: 2.1 Consensus size: 103
23958087 TCTCAAGCAC
* *
23958097 TTGATTAAAATTGTTTAATTAAGTTGTGCCTAATTAATTAAATTGTTTAATTAAATTATTGAGCA
1 TTGATTAAATTTGTTTAATTAAGTTGGGCCTAATTAATTAAATTGTTTAATTAAATTATTGAGCA
23958162 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAA
66 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAA
* *
23958200 TTGATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTGTTTAATTAAATTGTTG
1 TTGATTAAATTTGTTTAATTAAG---TTGGGCCTAATTAATT-AAATTGTTTAATTAAATTATTG
* * *
23958265 -GACTTAATTAATTAAATTGTTTAATTCAGTTATTGGGCCTAA
62 AG-CATAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAA
**
23958307 TCAATTAAATT
1 TTGATTAAATT
23958318 AAACAATTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
103 22 0.21
106 15 0.14
107 67 0.64
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (103 bp):
TTGATTAAATTTGTTTAATTAAGTTGGGCCTAATTAATTAAATTGTTTAATTAAATTATTGAGCA
TAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAA
Found at i:23961372 original size:17 final size:19
Alignment explanation
Indices: 23961346--23961392 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
23961336 TGGTTAAGAT
23961346 TTAG-TTATTTTTA-TAA-
1 TTAGTTTATTTTTATTAAG
23961362 TTAGTTTATTTTTATTAAG
1 TTAGTTTATTTTTATTAAG
*
23961381 TTATTTTATTTT
1 TTAGTTTATTTT
23961393 ATGTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 9 0.33
18 3 0.11
19 11 0.41
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (19 bp):
TTAGTTTATTTTTATTAAG
Found at i:23963018 original size:19 final size:19
Alignment explanation
Indices: 23962987--23963042 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
23962977 ACCTGAGAGC
*
23962987 AAGAAA-AAGAGAGAAATAA
1 AAGAAAGAA-AGAGAAAGAA
*
23963006 AAGAGAGAAAGAGAAAGAA
1 AAGAAAGAAAGAGAAAGAA
23963025 AAGAAAGAAATGAGAAAG
1 AAGAAAGAAA-GAGAAAG
23963043 GGGAAGAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.04
Consensus pattern (19 bp):
AAGAAAGAAAGAGAAAGAA
Found at i:23963033 original size:13 final size:13
Alignment explanation
Indices: 23962981--23963039 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
23962971 AATTCCACCT
*
23962981 GAGAGCAAGAAAAA
1 GAGAGAAAG-AAAA
*
23962995 GAGAGAAATAAAA
1 GAGAGAAAGAAAA
23963008 GAGAGAAAGAGAAA
1 GAGAGAAAGA-AAA
* *
23963022 GAAAAGAAAGAAAT
1 G-AGAGAAAGAAAA
23963036 GAGA
1 GAGA
23963040 AAGGGGAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
13 15 0.41
14 14 0.38
15 8 0.22
ACGTcount: A:0.66, C:0.02, G:0.29, T:0.03
Consensus pattern (13 bp):
GAGAGAAAGAAAA
Found at i:23964658 original size:43 final size:43
Alignment explanation
Indices: 23964547--23964728 Score: 195
Period size: 43 Copynumber: 4.2 Consensus size: 43
23964537 AGCTGGGTCA
* ** * *
23964547 TCATCATTAGCTTATGCGCACTCCCTACTTGCATATAGCCGAG
1 TCATCATCAGCTTATGCGCACTCCCTACTCACACATAGCCGGG
* *
23964590 TCATCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGTCGGG
1 TCATCATCA---GCTTATGCGCACTCCCTACTCACACATAGCCGGG
* * * *
23964636 TCATCATCGGCTTATGCACACTCCTTACTAACACATAGCCGGG
1 TCATCATCAGCTTATGCGCACTCCCTACTCACACATAGCCGGG
* **
23964679 TCATCATCAGCTTATGTGCACTCCC-ACATCACACATAGTTGGG
1 TCATCATCAGCTTATGCGCACTCCCTAC-TCACACATAGCCGGG
23964722 TCATCAT
1 TCATCAT
23964729 TATCACACAA
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
42 2 0.02
43 77 0.66
46 38 0.32
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (43 bp):
TCATCATCAGCTTATGCGCACTCCCTACTCACACATAGCCGGG
Found at i:23971228 original size:17 final size:19
Alignment explanation
Indices: 23971208--23971243 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
23971198 GAAAATTCCA
23971208 AAATAATA-G-TCAAGATG
1 AAATAATATGATCAAGATG
23971225 AAATAATATGATCAAGATG
1 AAATAATATGATCAAGATG
23971244 TAAGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (19 bp):
AAATAATATGATCAAGATG
Found at i:23993085 original size:11 final size:11
Alignment explanation
Indices: 23993069--23993096 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
23993059 CACTGTGGTT
23993069 TTTAAAACAAC
1 TTTAAAACAAC
23993080 TTTAAAACAAC
1 TTTAAAACAAC
23993091 TTTAAA
1 TTTAAA
23993097 CCCAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:23993153 original size:22 final size:22
Alignment explanation
Indices: 23993090--23993155 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
23993080 TTTAAAACAA
* *
23993090 CTTTAAACCCAAAAGCTCTAAT
1 CTTTAAAACCAAAAGCTCTGAT
*
23993112 CTTTAAAACCAAAAGTTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
23993134 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
23993156 ACCAATGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:23996653 original size:19 final size:19
Alignment explanation
Indices: 23996615--23996653 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23996605 AAAACTTTGG
**
23996615 AATAAAATAATATTTTATT
1 AATAAAATAATATTAAATT
23996634 AATAAAATAATATTAAATT
1 AATAAAATAATATTAAATT
23996653 A
1 A
23996654 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATAAAATAATATTAAATT
Found at i:23997739 original size:19 final size:19
Alignment explanation
Indices: 23997708--23997763 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
23997698 ACCTAATAGC
*
23997708 AAGAAA-AAGAGAGAAATAA
1 AAGAAAGAA-AGAGAAAGAA
*
23997727 AAGAGAGAAAGAGAAAGAA
1 AAGAAAGAAAGAGAAAGAA
23997746 AAGAAAGAAAGGAGAAAG
1 AAGAAAGAAA-GAGAAAG
23997764 GGGAAGGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (19 bp):
AAGAAAGAAAGAGAAAGAA
Found at i:23997754 original size:13 final size:13
Alignment explanation
Indices: 23997712--23997763 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
23997702 AATAGCAAGA
*
23997712 AAAAGAGAGAAAT
1 AAAAGAGAGAAAG
23997725 AAAAGAGAGAAAG
1 AAAAGAGAGAAAG
*
23997738 AGAAAGAAAAGAAAG
1 A-AAAG-AGAGAAAG
23997753 -AAAG-GAGAAAG
1 AAAAGAGAGAAAG
23997764 GGGAAGGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.18
13 17 0.50
14 4 0.12
15 7 0.21
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (13 bp):
AAAAGAGAGAAAG
Found at i:24020389 original size:55 final size:55
Alignment explanation
Indices: 24020303--24020494 Score: 209
Period size: 55 Copynumber: 3.6 Consensus size: 55
24020293 CAGCCGCCGG
* * *
24020303 TCATCAGCTCATGTACACTCCCACACCGCACATAGCTGGAATCATCATCCTCCGA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCCACCGA
* * * * *
24020358 TCATCAGCTCGTGTGCACTCCCACACTGCACATAGCTGAAATCATCGCCCACCGT
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCCACCGA
* * *
24020413 TCATCAGCTCATGTGCATTCCTACACCGCACATAGCTAG-A--ATCA--C-CCG-
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCCACCGA
* *
24020461 TCATCACCGGCATGTGCACTCCCACACCGCACAT
1 TCATCAGC-TCATGTGCACTCCCACACCGCACAT
24020495 GCGCGGTTAC
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
48 7 0.06
49 25 0.21
50 1 0.01
52 3 0.03
54 1 0.01
55 80 0.68
ACGTcount: A:0.26, C:0.39, G:0.15, T:0.21
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCCACCGA
Found at i:24021396 original size:5 final size:5
Alignment explanation
Indices: 24021386--24021432 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
24021376 AAAAAGGAGT
* * *
24021386 AAGAA AAGAA AAGGA AAGAA AAGAA AA-CA AGGAA AAGAA AATGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA-GAA AA
24021433 TCTTGATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
4 2 0.06
5 27 0.79
6 5 0.15
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:24021422 original size:14 final size:15
Alignment explanation
Indices: 24021386--24021426 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
24021376 AAAAAGGAGT
*
24021386 AAGAAAAGAAAAGGA
1 AAGAAAAGAAAAGCA
24021401 AAGAAAAGAAAA-CA
1 AAGAAAAGAAAAGCA
*
24021415 AGGAAAAGAAAA
1 AAGAAAAGAAAA
24021427 TGAAAATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAAAAGCA
Found at i:24024641 original size:68 final size:68
Alignment explanation
Indices: 24024420--24024744 Score: 328
Period size: 68 Copynumber: 4.8 Consensus size: 68
24024410 CTTTACTCAT
* * *
24024420 CTCATAAGGTATATGGAATTTACATCATATACAT-ATCTCATGGCATTCATCATGCTTTCTCAAT
1 CTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACTCAAT
*
24024484 CAT
66 CAC
* * * * * *
24024487 CTCATGTAGTATATGGAATATACATCATATACATAATATCATGGCATTCATCATGCTTTCTCAAT
1 CTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACTCAAT
*
24024552 CAT
66 CAC
* * ** * * *
24024555 CTCTTGTACTATATGGAATATACATCATATACATAATCTCATGGCATTTATCATGCATACTTAAT
1 CTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACTCAAT
24024620 CAC
66 CAC
* * ** * * * * *** * * *
24024623 CTTATATGGTATAGGGAATTTACATTGTATCCACAATTTTATAATATACATCATTCATACTTAAT
1 CTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACTCAAT
*
24024688 CAT
66 CAC
* *
24024691 CTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGAATTCATCAT
1 CTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCAT
24024745 ACCAAACATG
Statistics
Matches: 213, Mismatches: 44, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
67 30 0.14
68 183 0.86
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (68 bp):
CTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACTCAAT
CAC
Found at i:24028614 original size:19 final size:19
Alignment explanation
Indices: 24028592--24028628 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24028582 TGTTTTGATT
24028592 TTTAATTATTGTTAATTAG
1 TTTAATTATTGTTAATTAG
* *
24028611 TTTAGTTTTTGTTAATTA
1 TTTAATTATTGTTAATTA
24028629 ATTTCTAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (19 bp):
TTTAATTATTGTTAATTAG
Found at i:24036372 original size:16 final size:16
Alignment explanation
Indices: 24036351--24036381 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24036341 TTTGTTGACT
24036351 TTTTTTATTTTTATTA
1 TTTTTTATTTTTATTA
24036367 TTTTTTATTTTTATT
1 TTTTTTATTTTTATT
24036382 TTGCCTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTATTTTTATTA
Found at i:24039117 original size:159 final size:157
Alignment explanation
Indices: 24038786--24039255 Score: 861
Period size: 159 Copynumber: 3.0 Consensus size: 157
24038776 TCCTCCAACA
*
24038786 AGGCCTCATATGTCCGTTTGAAGTAATAATCGAACTTAGAGTTAATTATATATTCAATAAATATC
1 AGGCCTCATATATCCGTTTGAAGTAATAATCGAACTTAGAGTTAATTATATATTCAATAAATATC
* *
24038851 TGTGAGTGAACTTGCATCAAAGTG-TTTTTGAGAAATACATATGTGTTGGGATGAAGCATTTAAC
66 TGTGAGTGAACTTGCATCAAAGTGTTTTTTGGGAAATACATATGTGTTGGGATGAAGCATTTAAA
24038915 TGATTTTACTTGGTTTTTCATTAAACG
131 TGATTTTACTTGGTTTTTCATTAAACG
24038942 AGGCCTCATATATCCGTTTGAAGTAATAATCGAACTTAGAGTTAATTATATATTCAATAAATATC
1 AGGCCTCATATATCCGTTTGAAGTAATAATCGAACTTAGAGTTAATTATATATTCAATAAATATC
* *
24039007 TGTGAGTGAACTAGCATCAAAGTGTTTTTTTTGGGAAATACATATTTGTTGGGATGAAGCATTTA
66 TGTGAGTGAACTTGCATCAAAGTG--TTTTTTGGGAAATACATATGTGTTGGGATGAAGCATTTA
24039072 AATGATTTTACTTGGTTTTTCATTAAACG
129 AATGATTTTACTTGGTTTTTCATTAAACG
24039101 AGGCCTCATATATCCGTTTGAAGTAATAATCGAACTTAGAGTTAATTATATATTCAATAAATATC
1 AGGCCTCATATATCCGTTTGAAGTAATAATCGAACTTAGAGTTAATTATATATTCAATAAATATC
*
24039166 TTTGAGTGAACTTGCATCAAAGTGTTTTTTGGGAAATACATATGTGTTGGGATGAAGCATTTAAA
66 TGTGAGTGAACTTGCATCAAAGTGTTTTTTGGGAAATACATATGTGTTGGGATGAAGCATTTAAA
24039231 TGATTTTACTTGGTTTTTCATTAAA
131 TGATTTTACTTGGTTTTTCATTAAA
24039256 TTATGTATGG
Statistics
Matches: 303, Mismatches: 8, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
156 87 0.29
157 65 0.21
159 151 0.50
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (157 bp):
AGGCCTCATATATCCGTTTGAAGTAATAATCGAACTTAGAGTTAATTATATATTCAATAAATATC
TGTGAGTGAACTTGCATCAAAGTGTTTTTTGGGAAATACATATGTGTTGGGATGAAGCATTTAAA
TGATTTTACTTGGTTTTTCATTAAACG
Found at i:24039499 original size:43 final size:43
Alignment explanation
Indices: 24039406--24039567 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 43
24039396 TTGTGTGACA
* * * *
24039406 ATGATGACCCAACTATGTGGGA-T-GTGGAGTGCACATGAA-CTG
1 ATGATGACCCGACTATGTGCGAGTAG-GGAGTGCGCAT-AAGCCG
* *
24039448 ATGATGACCCGACTATGTGCGAGTAGGGGGTGCGCATAAGCCT
1 ATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCCG
*
24039491 ATGATGACCCGACTATGTGCTAGTAGGGAGTGCGCATAAGCCG
1 ATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCCG
*
24039534 ATAATGACCCCGGA-TATGTGCGAGTAGGGAGTGC
1 ATGATGA-CCC-GACTATGTGCGAGTAGGGAGTGC
24039568 ACATGATGAT
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
42 22 0.21
43 57 0.55
44 23 0.22
45 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (43 bp):
ATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCCG
Found at i:24039854 original size:22 final size:22
Alignment explanation
Indices: 24039823--24039881 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
24039813 CCACCCCTGT
*
24039823 TTCTCATTGCAGCGAAAAAGAA
1 TTCTCGTTGCAGCGAAAAAGAA
* * *
24039845 TTCTCGTTGCAGTGAAAATGGA
1 TTCTCGTTGCAGCGAAAAAGAA
*
24039867 TTCTCGCTGCAGCGA
1 TTCTCGTTGCAGCGA
24039882 GAAACTCTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (22 bp):
TTCTCGTTGCAGCGAAAAAGAA
Found at i:24042374 original size:60 final size:60
Alignment explanation
Indices: 24042281--24042395 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
24042271 TCGTTGCAGC
** * * *
24042281 GAAATTCATTCTCGCTGCAGTGATAAACTTTCTGTTTCTGGGTTATAATTTCGCTACAGT
1 GAAATTCATTCTCGCTGCAGCAAGAAACTTTCTGTTTCTAGGTTACAATTTCGCTACAGT
*
24042341 GAAATTCATTCTCGTTGCAGCAAGAAA-TCTTCTGTTTCTAGGTTACAATTTCGCT
1 GAAATTCATTCTCGCTGCAGCAAGAAACT-TTCTGTTTCTAGGTTACAATTTCGCT
24042396 GCATCAAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 47 0.98
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.39
Consensus pattern (60 bp):
GAAATTCATTCTCGCTGCAGCAAGAAACTTTCTGTTTCTAGGTTACAATTTCGCTACAGT
Found at i:24052402 original size:28 final size:28
Alignment explanation
Indices: 24052361--24052512 Score: 139
Period size: 28 Copynumber: 5.3 Consensus size: 28
24052351 TTAAGACAAA
*
24052361 AAATAT-TTTATCTTGTATAAATTGAGAC
1 AAATATGTTT-TCTTGTATAAATTAAGAC
24052389 AAATATGTTTTCTTG-ACTAAATTAAGAC
1 AAATATGTTTTCTTGTA-TAAATTAAGAC
* * *
24052417 AAAAAATAT-TTTTCTTGTCTTAAATCAAGGC
1 ---AAATATGTTTTCTTGT-ATAAATTAAGAC
* * *
24052448 AAACATATTTTCTTGTCTAAATTAAGACC
1 AAATATGTTTTCTTGTATAAATTAAGA-C
*
24052477 AAATATGTTTTCTTGTCTAAATTAAGAC
1 AAATATGTTTTCTTGTATAAATTAAGAC
*
24052505 AAACATGT
1 AAATATGT
24052513 CAAAGCTGCC
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
27 1 0.01
28 42 0.40
29 38 0.37
30 8 0.08
31 15 0.14
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (28 bp):
AAATATGTTTTCTTGTATAAATTAAGAC
Found at i:24052413 original size:59 final size:58
Alignment explanation
Indices: 24052339--24052512 Score: 217
Period size: 59 Copynumber: 3.0 Consensus size: 58
24052329 TTAAGACAAC
* *
24052339 TCTTGTCTATAATTAAGACAAAAAATATTTTATCTTGTATAAATTGAGACAAATATGTTT
1 TCTTGTCTA-AATTAAGACAAAAAATATTTT-TCTTGTATAAATTAAGACAAACATGTTT
* * * * *
24052399 TCTTGACTAAATTAAGACAAAAAATATTTTTCTTGTCTTAAATCAAGGCAAACATATTT
1 TCTTGTCTAAATTAAGACAAAAAATATTTTTCTTGT-ATAAATTAAGACAAACATGTTT
* *
24052458 TCTTGTCTAAATTAAGAC--CAAATATGTTTTCTTGTCTAAATTAAGACAAACATGT
1 TCTTGTCTAAATTAAGACAAAAAATAT-TTTTCTTGTATAAATTAAGACAAACATGT
24052513 CAAAGCTGCC
Statistics
Matches: 99, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 22 0.22
58 15 0.15
59 54 0.55
60 8 0.08
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (58 bp):
TCTTGTCTAAATTAAGACAAAAAATATTTTTCTTGTATAAATTAAGACAAACATGTTT
Found at i:24052463 original size:29 final size:28
Alignment explanation
Indices: 24052339--24052510 Score: 173
Period size: 29 Copynumber: 5.9 Consensus size: 28
24052329 TTAAGACAAC
*
24052339 TCTTGTCTATAATTAAGACAAAAAATATTTT
1 TCTTGTCTA-AATTAAGAC-AAACATA-TTT
* * * *
24052370 ATCTTGTATAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATATTT
* *
24052399 TCTTGACTAAATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACATA-TTT
* *
24052429 TCTTGTCTTAAATCAAGGCAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
* *
24052458 TCTTGTCTAAATTAAGACCAAATATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATATTT
24052487 TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
24052511 GTCAAAGCTG
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
28 29 0.25
29 44 0.37
30 20 0.17
31 17 0.14
32 8 0.07
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:24061789 original size:22 final size:24
Alignment explanation
Indices: 24061754--24061800 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
24061744 CAAACCCTAG
24061754 GTGAAGAATTTCAAGAGAAA-AAGT
1 GTGAAGAATTTCAAG-GAAACAAGT
24061778 GTGAA-AA-TTCAAGGAAACAAGT
1 GTGAAGAATTTCAAGGAAACAAGT
24061800 G
1 G
24061801 ACAGAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 11 0.50
23 2 0.09
24 5 0.23
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.19
Consensus pattern (24 bp):
GTGAAGAATTTCAAGGAAACAAGT
Found at i:24069425 original size:21 final size:21
Alignment explanation
Indices: 24069385--24069425 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24069375 CCAAAAACTT
**
24069385 GCTGCAGCGAAATTCATTCTC
1 GCTGCAGCGAAAAACATTCTC
*
24069406 GCTGCAGCGAAAAACTTTCT
1 GCTGCAGCGAAAAACATTCT
24069426 GTTTTGTCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
GCTGCAGCGAAAAACATTCTC
Found at i:24078326 original size:42 final size:42
Alignment explanation
Indices: 24078220--24078338 Score: 186
Period size: 41 Copynumber: 2.9 Consensus size: 42
24078210 TGTTGATGTG
** *
24078220 GACCCGGCTATGTGCGAGTAAGAGTGCACATAAGTCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
*
24078262 GACCC-GCTATGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
*
24078303 GACCCGGCTATGTGCGAGTGGGAGTGCCCATAAGCC
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCC
24078339 ATTCCATATG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
41 37 0.53
42 33 0.47
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.22
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:24086935 original size:38 final size:40
Alignment explanation
Indices: 24086849--24086951 Score: 165
Period size: 38 Copynumber: 2.6 Consensus size: 40
24086839 ACTCGGCTCA
*
24086849 TGTACATCCCCCCACATCGTGCACATAGCCGGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGTGCCATCG
* *
24086889 TGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGTGCCATCG
24086927 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
24086952 CGAGCACTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 34 0.58
39 1 0.02
40 24 0.41
ACGTcount: A:0.21, C:0.41, G:0.17, T:0.20
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCCAGTGCCATCG
Found at i:24086944 original size:19 final size:19
Alignment explanation
Indices: 24086884--24086947 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
24086874 TAGCCGGTGC
*
24086884 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
24086903 CATCGTGCACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
24086922 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
24086941 CATCGTG
1 CATCGTG
24086948 CACACGAGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 4 0.12
19 24 0.75
20 4 0.12
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.22
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:24090078 original size:60 final size:58
Alignment explanation
Indices: 24089953--24090095 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 58
24089943 CACCTAAGTG
* * *
24089953 ATTTAAGCCTAGTTAAGTTGGCACATGAGAATTAAATCCAATCTAGTTGGTACCAGGATA
1 ATTTAAGCCTAGTTAAGTTGGCACATGAGAATTAAACCCAATCTAGCTGGCACC--GATA
*
24090013 ATTTAAGCCTAGTTAAGTTGGCACATGAGAGAATTTAAGCCCAATCTAGCTGGCATCC-AT-
1 ATTTAAGCCTAGTTAAGTTGGCACAT--GAGAA-TTAAACCCAATCTAGCTGGCA-CCGATA
* *
24090073 TTTTAAGCCTAATTAAGTTGGCA
1 ATTTAAGCCTAGTTAAGTTGGCA
24090096 TGAAAGGAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
60 47 0.64
61 2 0.03
62 5 0.07
63 17 0.23
64 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (58 bp):
ATTTAAGCCTAGTTAAGTTGGCACATGAGAATTAAACCCAATCTAGCTGGCACCGATA
Found at i:24090190 original size:60 final size:60
Alignment explanation
Indices: 24090103--24090746 Score: 362
Period size: 60 Copynumber: 10.7 Consensus size: 60
24090093 GCATGAAAGG
* ** * *
24090103 AGAATTTTAAATTTTTTAAATTGAACCTATTTTGAGAT-GAGTGGAGCCTAGATTAAGTTTA
1 AGAATTTCAAA-TTTTTAAATACAACCTATTTTGAGATAG-GTCGAGCCTAGATTAAGTCTA
* * * * ** * *
24090164 GGAATTTTAAATTTTTAAATACAACCTATTTTCAAATAGGTTTAGCCTAAATTAAGTGTA
1 AGAATTTCAAATTTTTAAATACAACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* **
24090224 AGAATTTCAAATTTTTAAGT-CGAATTTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
1 AGAATTTCAAATTTTTAAATAC-AACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* * * ** *
24090284 AGAATTTCAAATTTTTAAATTA-AACTTGTTTTGAGATAAGTC-AGGGGTAGATTAGGTCTA
1 AGAATTTCAAATTTTTAAA-TACAACCTATTTTGAGATAGGTCGA-GCCTAGATTAAGTCTA
* * * ** * * * *
24090344 GGAGTTTCAAAATTTTAAATTGAATCTGTTTTGAGATAGGTCGAACCTAAATTAAGTCTA
1 AGAATTTCAAATTTTTAAATACAACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* * ** * * * *
24090404 AGAATTTCAAAATTTT-AGTTGAACTTGTTTTGAG-TAGGTCGAGCCCATATTAAGTCT-
1 AGAATTTCAAATTTTTAAATACAACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* * * * * *
24090461 AGAAATTT-AAATTTTTTTTAAAT-CAAACATGTTTTGAGATAGATTGAGCTTATATTAAGT-TG
1 AG-AATTTCAAA---TTTTTAAATAC-AACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCT-
24090523 A
60 A
* * * * * * * ** * * * *
24090524 AGAATTTTAAATATTCAAAT-CGAACATGTTTTGACATAGATAAATCCCAAATTAAGCCTA
1 AGAATTTCAAATTTTTAAATAC-AACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* ** * * * * *
24090584 AGAATTTCAATTTTTTAAAATTGAACTTGTTTTAAGATAAGTCAAGCCTAGATTAAGTCTA
1 AGAATTTCAAATTTTT-AAATACAACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* * * * * *
24090645 CGAATTTTAATTTTTTAAATATAACCTATTTTGA-ATAGGTCGAGCTTGGATTAAGTC-A
1 AGAATTTCAAATTTTTAAATACAACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* * *
24090703 AGGAATTCCAAAATTGTTAAAATTA-AAACTATTTTGAGATAGGT
1 A-GAATTTC-AAATT-TTTAAA-TACAACCTATTTTGAGATAGGT
24090747 TGAGTACCTA
Statistics
Matches: 460, Mismatches: 98, Indels: 49
0.76 0.16 0.08
Matches are distributed among these distances:
57 5 0.01
58 26 0.06
59 42 0.09
60 261 0.57
61 91 0.20
62 30 0.07
63 5 0.01
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (60 bp):
AGAATTTCAAATTTTTAAATACAACCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
Found at i:24090318 original size:180 final size:179
Alignment explanation
Indices: 24090103--24090664 Score: 535
Period size: 180 Copynumber: 3.1 Consensus size: 179
24090093 GCATGAAAGG
* * *
24090103 AGAATTTTAAATTTTTTAAATTGAACCTATTTTGAGATGAGTGGAGCCTAGATTAAGTTTAGGAA
1 AGAATTTTAAATTTTTTAAATTAAACATGTTTTGAGAT-AGTGGAGCCTAGATTAAGTTTAGGAA
* * ** * *
24090168 TTTTAAATTTTTAAATACAACCTATTTTCAAATAGGTTTAGCCTAAATTAAGTGTAAGAATTTCA
65 TTTTAAATTTTTAAAT-CAACCTGTTTTGAAATAGGTAAAACCTAAATTAAGTCTAAGAATTTCA
* * *
24090233 AATTTTTAAGTCGAATTTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
129 AATTTTTAAGTTGAACTTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* * * * *
24090284 AGAATTTCAAA-TTTTTAAATTAAACTTGTTTTGAGATAAGTCAGG-G-GTAGATTAGGTCTAGG
1 AGAATTTTAAATTTTTTAAATTAAACATGTTTTGAGAT-AGT--GGAGCCTAGATTAAGTTTAGG
* * * * * * **
24090346 AGTTTCAAAATTTTAAATTGAATCTGTTTTGAGATAGGTCGAACCTAAATTAAGTCTAAGAATTT
63 AATTTTAAATTTTTAAA-TCAACCTGTTTTGAAATAGGTAAAACCTAAATTAAGTCTAAGAATTT
* * *
24090411 CAAAATTTT-AGTTGAACTTGTTTTGAG-TAGGTCGAGCCCATATTAAGTCT-
127 CAAATTTTTAAGTTGAACTTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
* * * * * * *
24090461 AGAAATTTAAATTTTTTTTAAATCAAACATGTTTTGAGATAGATTGAGCTTATATTAAGTTGAAG
1 AGAATTTTAAA--TTTTTTAAATTAAACATGTTTTGAGATAG-TGGAGCCTAGATTAAGTTTAGG
* * * * * * * *
24090526 AATTTTAAATATTCAAATCGAACATGTTTTGACATAGATAAATCCCAAATTAAGCCTAAGAATTT
63 AATTTTAAATTTTTAAATC-AACCTGTTTTGAAATAGGTAAAACCTAAATTAAGTCTAAGAATTT
* * * * *
24090591 CAATTTTTTAAAATTGAACTTGTTTTAAGATAAGTCAAGCCTAGATTAAGTCTA
127 CAAATTTTT-AAGTTGAACTTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
*
24090645 CGAATTTT-AATTTTTTAAAT
1 AGAATTTTAAATTTTTTAAAT
24090665 ATAACCTATT
Statistics
Matches: 305, Mismatches: 62, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
177 9 0.03
178 22 0.07
179 19 0.06
180 188 0.62
181 22 0.07
182 18 0.06
183 21 0.07
184 6 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (179 bp):
AGAATTTTAAATTTTTTAAATTAAACATGTTTTGAGATAGTGGAGCCTAGATTAAGTTTAGGAAT
TTTAAATTTTTAAATCAACCTGTTTTGAAATAGGTAAAACCTAAATTAAGTCTAAGAATTTCAAA
TTTTTAAGTTGAACTTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTA
Found at i:24092555 original size:281 final size:272
Alignment explanation
Indices: 24091913--24092620 Score: 707
Period size: 281 Copynumber: 2.6 Consensus size: 272
24091903 CATTGAAAAT
* * * **
24091913 ATATTATTTGGATT-TGACCGAAGATAGAATATTTACCCAAGATGCGAGAAGTTGCAATCTCAAG
1 ATATTATTTGGATTAT-A-CGAAGATAGAATATTTACTCAAGACGC-AAAAGTCACAATCTCAAG
* * *
24091977 TTAATTTTCTTAAGTGAGGGATTTGATTAAAACTTCACC--AGTATGGGAGGGTTCTAATATTAA
63 TTAATTTTCTTAAGTGAGGGATTTGATTAAAACTCCACCATAG-ATGGGAGGGTTTTAATCTTAA
* * * * * * *
24092040 GTCTCAATATTACTTAATCCGAATAATATTTTAAATTAGTAAACAAATATATAGAATATTGTTAT
127 GTCTCAACATTTCTTAATCCAAATAATATTTTAAATTAGTAAACAAAAATAAAGAACATTGTTAG
* ** * * * *
24092105 CTTGGAATAGAAATACTAAATATTTATGCTAGGAAAAAAAAATATTTATGCTCTTAAAAATAAAC
192 CTTGAAATAGAAATAAAAAATATTCATACTAGGAAAAAAAAATATTTAGGCTCTTAAAAATAAAA
**
24092170 TATGCAATAGTACAAA
257 TACACAATAGTACAAA
* * * * *
24092186 ATATTATTTAGG-TTATACCAATGATAGAATATTTACTCGAGACATCAAAAGTCACAATCCCAGG
1 ATATTATTT-GGATTATACGAA-GATAGAATATTTACTCAAGAC-GCAAAAGTCACAATCTCAAG
**
24092250 TTAATTTTCTT-AGATGAGGGATTTGATTAAAACTCCACCTATAGAATAAGAGGGTTTTAATCTT
63 TTAATTTTCTTAAG-TGAGGGATTTGATTAAAACTCCACC-ATAG-ATGGGAGGGTTTTAATCTT
* * *
24092314 AGGTCTCAACATTTCTTAATCTAAATAATATTTTAAATTAGTTAAGA-AAAAATAAAGAACGTTG
125 AAGTCTCAACATTTCTTAATCCAAATAATATTTTAAATTAG-TAA-ACAAAAATAAAGAACATTG
* * * *
24092378 TTAGCTT-AAAGTAGAAATAAAAAATATTCATACTTTA-GAGAAATAGAATATTTAGGCTTTTGA
188 TTAGCTTGAAA-TAGAAATAAAAAATATTCATAC--TAGGA-AAAAAAAATATTTAGGCTCTTAA
* *
24092441 AAATAAAATACATAATAGTATAACA
249 AAATAAAATACACAATAGTACAA-A
* * * *
24092466 CATATTGTTTGGATTATACTGAAGATGGAATTTTTACTCAAGACGCAAAAAGTCACAATCTCGAG
1 -ATATTATTTGGATTATAC-GAAGATAGAATATTTACTCAAGACGC-AAAAGTCACAATCTCAAG
* * * *
24092531 TTAATTTTCTTAAGTGAAGGATTTGATTTAAACTCTAACAGTATGATGGGAGGGTTTTAATCTTA
63 TTAATTTTCTTAAGTGAGGGATTTGATTAAAACTCCACCA-TA-GATGGGAGGGTTTTAATCTTA
*
24092596 ACTCTCAACA-TT-TTAATCCAAATAA
126 AGTCTCAACATTTCTTAATCCAAATAA
24092621 ATGTTTCTTT
Statistics
Matches: 354, Mismatches: 59, Indels: 38
0.78 0.13 0.08
Matches are distributed among these distances:
272 5 0.01
273 78 0.22
274 4 0.01
276 55 0.16
277 40 0.11
278 3 0.01
279 50 0.14
280 7 0.02
281 107 0.30
282 5 0.01
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (272 bp):
ATATTATTTGGATTATACGAAGATAGAATATTTACTCAAGACGCAAAAGTCACAATCTCAAGTTA
ATTTTCTTAAGTGAGGGATTTGATTAAAACTCCACCATAGATGGGAGGGTTTTAATCTTAAGTCT
CAACATTTCTTAATCCAAATAATATTTTAAATTAGTAAACAAAAATAAAGAACATTGTTAGCTTG
AAATAGAAATAAAAAATATTCATACTAGGAAAAAAAAATATTTAGGCTCTTAAAAATAAAATACA
CAATAGTACAAA
Found at i:24094687 original size:62 final size:62
Alignment explanation
Indices: 24094621--24095081 Score: 348
Period size: 62 Copynumber: 7.5 Consensus size: 62
24094611 CTGCGGTGAG
* * * *
24094621 AATCAATTTGGCTACAACAAGAATAGTGACTCTCAAGACAGAAAGTTTCTCGTCGAGGAGAA
1 AATCAATTTGGCTACGACGAGAACAGTGACTCTCAAGACAAAAAGTTTCTCGTCGAGGAGAA
* * * * * *
24094683 AATCAATTTGGCT-TGGCGAGAACAGTGACTCTAAAGACAAAAAGTTTCTCGCCG-TGACGGA
1 AATCAATTTGGCTACGACGAGAACAGTGACTCTCAAGACAAAAAGTTTCTCGTCGAGGA-GAA
* * * * * * * * *
24094744 AATCAATTTTGCTACGGCTAGAATAGTGACACTCAAGACAGAAAGTTTCTC-ACCACGACGAA
1 AATCAATTTGGCTACGACGAGAACAGTGACTCTCAAGACAAAAAGTTTCTCGTCGAGGA-GAA
** * * * *
24094806 AATCAATTTGGCTGTGACGAAAACAGTGACTTTCAAGACAAAAAGTTTCTCGCTAC-AGCA-TA
1 AATCAATTTGGCTACGACGAGAACAGTGACTCTCAAGACAAAAAGTTTCTCG-T-CGAGGAGAA
* * * * * * *
24094868 AATCAATTTGGCTACGATGAGAATAGTGACTCCCAAGATAGAAAGTTTCTCACTGCG-GTA-AA
1 AATCAATTTGGCTACGACGAGAACAGTGACTCTCAAGACAAAAAGTTTCTC-GT-CGAGGAGAA
* * * * * * *
24094930 AATCAATTTGGTTGCGACGAGAACAGTGACTATCAAGATAAAAAGTTTCTCGCCGTGGTGAA
1 AATCAATTTGGCTACGACGAGAACAGTGACTCTCAAGACAAAAAGTTTCTCGTCGAGGAGAA
* * * * * *
24094992 AATCAATTTGGCTGA-GGCGAGAACAGTGACT-TCCAAGACAGACAGTTTCTC-ACCACGGTGAA
1 AATCAATTTGGCT-ACGACGAGAACAGTGACTCT-CAAGACAAAAAGTTTCTCGTCGA-GGAGAA
* *
24095054 AATCAATTTAGCTACGGCGAGAACAGTG
1 AATCAATTTGGCTACGACGAGAACAGTG
24095082 CAAATGGAGT
Statistics
Matches: 316, Mismatches: 69, Indels: 28
0.77 0.17 0.07
Matches are distributed among these distances:
60 4 0.01
61 52 0.16
62 257 0.81
64 2 0.01
65 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (62 bp):
AATCAATTTGGCTACGACGAGAACAGTGACTCTCAAGACAAAAAGTTTCTCGTCGAGGAGAA
Found at i:24094891 original size:124 final size:123
Alignment explanation
Indices: 24094621--24095081 Score: 484
Period size: 124 Copynumber: 3.7 Consensus size: 123
24094611 CTGCGGTGAG
* * * * *
24094621 AATCAATTTGGCTACAACAAGAATAGTGACTCTCAAGACAGAAAGTTTCTCGTCGAGGA-GAAAA
1 AATCAATTTGGCTACGACGAGAATAGTGACTCTCAAGACAGAAAGTTTCTC-ACCACGATGAAAA
* * * *
24094685 TCAATTTGGCT-TGGCGAGAACAGTGACTCTAAAGACAAAAAGTTTCTCGCCGTGACGGA
65 TCAATTTGGCTGTGACGAGAACAGTGACTATCAAGACAAAAAGTTTCTCGCCGT-ACGAA
* * * * *
24094744 AATCAATTTTGCTACGGCTAGAATAGTGACACTCAAGACAGAAAGTTTCTCACCACGACGAAAAT
1 AATCAATTTGGCTACGACGAGAATAGTGACTCTCAAGACAGAAAGTTTCTCACCACGATGAAAAT
* *
24094809 CAATTTGGCTGTGACGAAAACAGTGACTTTCAAGACAAAAAGTTTCTCG-C-TACAGCATA
66 CAATTTGGCTGTGACGAGAACAGTGACTATCAAGACAAAAAGTTTCTCGCCGTAC-G-A-A
* * * ** * *
24094868 AATCAATTTGGCTACGATGAGAATAGTGACTCCCAAGATAGAAAGTTTCTCACTGCGGTAAAAAT
1 AATCAATTTGGCTACGACGAGAATAGTGACTCTCAAGACAGAAAGTTTCTCACCACGATGAAAAT
* * * **
24094933 CAATTTGGTTGCGACGAGAACAGTGACTATCAAGATAAAAAGTTTCTCGCCGTGGTGAA
66 CAATTTGGCTGTGACGAGAACAGTGACTATCAAGACAAAAAGTTTCTCGCCGT-ACGAA
* * * *
24094992 AATCAATTTGGCTGA-GGCGAGAACAGTGACT-TCCAAGACAGACAGTTTCTCACCACGGTGAAA
1 AATCAATTTGGCT-ACGACGAGAATAGTGACTCT-CAAGACAGAAAGTTTCTCACCACGATGAAA
* ** *
24095055 ATCAATTTAGCTACGGCGAGAACAGTG
64 ATCAATTTGGCTGTGACGAGAACAGTG
24095082 CAAATGGAGT
Statistics
Matches: 283, Mismatches: 45, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
121 2 0.01
122 6 0.02
123 63 0.22
124 207 0.73
125 3 0.01
126 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (123 bp):
AATCAATTTGGCTACGACGAGAATAGTGACTCTCAAGACAGAAAGTTTCTCACCACGATGAAAAT
CAATTTGGCTGTGACGAGAACAGTGACTATCAAGACAAAAAGTTTCTCGCCGTACGAA
Found at i:24098304 original size:28 final size:28
Alignment explanation
Indices: 24098226--24098307 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
24098216 AAATTCAATA
* * *
24098226 CAATGACTTTTAAAGGTTTAAGCATAAC
1 CAATGCCTTTTCAAGGTTTAAGCACAAC
* * *
24098254 CATTGCCTTTTCAAGGATCAAGCACAAC
1 CAATGCCTTTTCAAGGTTTAAGCACAAC
24098282 CAATGCCTTTTCAAGGTTTAAGCACA
1 CAATGCCTTTTCAAGGTTTAAGCACA
24098308 TCATTAAGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (28 bp):
CAATGCCTTTTCAAGGTTTAAGCACAAC
Found at i:24098316 original size:12 final size:12
Alignment explanation
Indices: 24098299--24098324 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24098289 TTTTCAAGGT
24098299 TTAAGCACATCA
1 TTAAGCACATCA
24098311 TTAAGCACATCA
1 TTAAGCACATCA
24098323 TT
1 TT
24098325 CAAGATTAAA
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:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (12 bp):
TTAAGCACATCA
Found at i:24100176 original size:21 final size:21
Alignment explanation
Indices: 24100152--24100199 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
24100142 CTTGGTATTG
24100152 ATACTTTTAAGGCAGGAATCC
1 ATACTTTTAAGGCAGGAATCC
* * *
24100173 ATACCTTTAAGGTAGGTATCC
1 ATACTTTTAAGGCAGGAATCC
24100194 ATACTT
1 ATACTT
24100200 AGCATCTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (21 bp):
ATACTTTTAAGGCAGGAATCC
Found at i:24100405 original size:21 final size:21
Alignment explanation
Indices: 24100366--24100405 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24100356 AAACAAGTTC
*
24100366 AAAACTCATTCAAGCAATTCT
1 AAAACTCATTCAAGAAATTCT
*
24100387 AAAACTCATTCCAGAAATT
1 AAAACTCATTCAAGAAATT
24100406 TTGATCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAACTCATTCAAGAAATTCT
Found at i:24110200 original size:13 final size:13
Alignment explanation
Indices: 24110182--24110206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24110172 AGAGAAATTG
24110182 TGATTTTATAAAA
1 TGATTTTATAAAA
24110195 TGATTTTATAAA
1 TGATTTTATAAA
24110207 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:24111620 original size:15 final size:16
Alignment explanation
Indices: 24111600--24111640 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
24111590 CAGATATTTT
24111600 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
24111615 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
24111631 G-TTTTAAAGT
1 GATTTTAAAGT
24111641 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:24111641 original size:15 final size:15
Alignment explanation
Indices: 24111596--24111641 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
24111586 AGATCAGATA
*
24111596 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
24111610 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
24111626 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
24111641 T
1 T
24111642 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:24111723 original size:5 final size:5
Alignment explanation
Indices: 24111683--24111722 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
24111673 CCCCAAGTCC
* *
24111683 AGTTA AGTTA AGATA AGTTA AGTTA AGTTA AGTTA GGTTA
1 AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA
24111723 GATTGAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
AGTTA
Found at i:24117282 original size:13 final size:13
Alignment explanation
Indices: 24117264--24117288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24117254 AGAGAAATTG
24117264 TGATTTTATAAAA
1 TGATTTTATAAAA
24117277 TGATTTTATAAA
1 TGATTTTATAAA
24117289 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:24119244 original size:43 final size:43
Alignment explanation
Indices: 24119185--24119289 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
24119175 CAGCTCATGT
** *
24119185 GCACTCCCTAC-CGCACATGGCTGGGTCATCACT-GGATTATGC
1 GCACTCCCTACTCGCACATAACTAGGTCATC-CTCGGATTATGC
* *
24119227 GCACTCCCTACTCGCACATAATTAGGTCATCCTCGGCTTATGC
1 GCACTCCCTACTCGCACATAACTAGGTCATCCTCGGATTATGC
*
24119270 GCACTCCCTACTTGCACATA
1 GCACTCCCTACTCGCACATA
24119290 GCCGAGTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 13 0.24
43 42 0.76
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAACTAGGTCATCCTCGGATTATGC
Found at i:24123186 original size:2 final size:2
Alignment explanation
Indices: 24123179--24123213 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24123169 ATGGGGTAAT
24123179 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24123214 AGAACGCCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:24135122 original size:27 final size:27
Alignment explanation
Indices: 24135091--24135145 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
24135081 AAAATTTTTC
24135091 ACTTCTCAAACTCAAATTATATTCTAA
1 ACTTCTCAAACTCAAATTATATTCTAA
*
24135118 ACTTCTCAAACTCAAATTATGTTCTAA
1 ACTTCTCAAACTCAAATTATATTCTAA
24135145 A
1 A
24135146 TATTTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (27 bp):
ACTTCTCAAACTCAAATTATATTCTAA
Found at i:24154758 original size:15 final size:16
Alignment explanation
Indices: 24154738--24154768 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
24154728 ATTCATTTAC
24154738 TATTATTA-TTATTTT
1 TATTATTATTTATTTT
24154753 TATTATTATTTATTTT
1 TATTATTATTTATTTT
24154769 ATTTTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTATTATTTATTTT
Found at i:24154770 original size:12 final size:13
Alignment explanation
Indices: 24154738--24154771 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
24154728 ATTCATTTAC
24154738 TATTATTATTATT
1 TATTATTATTATT
24154751 T-TTATTATTATT
1 TATTATTATTATT
24154763 TATT-TTATT
1 TATTATTATT
24154772 TTCTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:24161653 original size:3 final size:3
Alignment explanation
Indices: 24161645--24161702 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
24161635 TACGTATACC
* *
24161645 CAT CAT CAT CAT GCA- CAT CAT C-C CAT CAT CAT CAT ACA- CAC CAT
1 CAT CAT CAT CAT -CAT CAT CAT CAT CAT CAT CAT CAT -CAT CAT CAT
24161689 CA- CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT
24161703 GACCAACTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
2 7 0.15
3 35 0.76
4 4 0.09
ACGTcount: A:0.34, C:0.38, G:0.02, T:0.26
Consensus pattern (3 bp):
CAT
Found at i:24161673 original size:23 final size:23
Alignment explanation
Indices: 24161643--24161703 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
24161633 TATACGTATA
*
24161643 CCCATCATCATCATGCACATCAT
1 CCCATCATCATCATGCACACCAT
*
24161666 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATGCACACCAT
*
24161689 CACATCATCATCATG
1 CCCATCATCATCATG
24161704 ACCAACTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.33, C:0.39, G:0.03, T:0.25
Consensus pattern (23 bp):
CCCATCATCATCATGCACACCAT
Found at i:24161760 original size:43 final size:43
Alignment explanation
Indices: 24161712--24161821 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
24161702 TGACCAACTC
** * *
24161712 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACTTGG-TT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CTCGGCTT
* * *
24161755 ATGCGCACTCCTTACTCTCACATAACCAGGTTATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
* *
24161798 ATGCGCACTCACTACTTGCACATA
1 ATGCGCACTCCCTACTCGCACATA
24161822 GCCGAGTCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 4 0.07
43 51 0.93
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
Found at i:24171058 original size:43 final size:43
Alignment explanation
Indices: 24171006--24171124 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 43
24170996 TTCCCAGCTC
* *
24171006 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCGAGTT
1 ATGCGCACTCCCTACTCGCACATAGCTAGGTCATCACCGACTT
* * * * ** *
24171049 ATGCACACTCTCTACTTGCACATAACCGGGTCATCATCGACTT
1 ATGCGCACTCCCTACTCGCACATAGCTAGGTCATCACCGACTT
* *
24171092 ATGCGCATTCCCTACTCGCACATAGCTAAGTCA
1 ATGCGCACTCCCTACTCGCACATAGCTAGGTCA
24171125 ATATTATTAC
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCTAGGTCATCACCGACTT
Found at i:24171153 original size:2 final size:2
Alignment explanation
Indices: 24171148--24171177 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24171138 CCAATGTATT
24171148 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
24171178 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:24182569 original size:21 final size:19
Alignment explanation
Indices: 24182545--24182585 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
24182535 AACTTAAAAC
24182545 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
24182566 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
24182585 A
1 A
24182586 CTCAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:24183058 original size:73 final size:74
Alignment explanation
Indices: 24182969--24183114 Score: 188
Period size: 73 Copynumber: 2.0 Consensus size: 74
24182959 ATTCAAATTC
* *
24182969 AAATTTTCAGACAGTGAGCTCTTAGCTGGCTAA-CATTTCTTCTTAGTCAATTAAGTCTTCTCTG
1 AAATTTT-AGACAGTGAGCTCTTAGCTGGCTAACCA-TACTTCATAGTCAATTAAGTCTTCTCTG
24183033 TCTCGTAATCA
64 TCTCGTAATCA
* * * * *
24183044 AAATTTT-GACAGTGAGTTTTTAGTTGGCTAACCATACTTCATAGTCGATTAAGTCTTCTTTGTC
1 AAATTTTAGACAGTGAGCTCTTAGCTGGCTAACCATACTTCATAGTCAATTAAGTCTTCTCTGTC
*
24183108 TTGTAAT
66 TCGTAAT
24183115 ATGTTTTAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 53 0.85
74 2 0.03
75 7 0.11
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (74 bp):
AAATTTTAGACAGTGAGCTCTTAGCTGGCTAACCATACTTCATAGTCAATTAAGTCTTCTCTGTC
TCGTAATCA
Found at i:24186877 original size:40 final size:38
Alignment explanation
Indices: 24186822--24186924 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
24186812 ATCCAGCTCA
* * *
24186822 TGTGCATCCCCCCACATCATGCACATAGCCGTAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACA-AGCAGT-GCCATCG
*
24186862 TGTGCATCCCCCCACATCGTGCACAATCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAAGCAGTGCCATCG
*
24186900 TGTACATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
24186925 CGGGCACTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 30 0.52
39 4 0.07
40 24 0.41
ACGTcount: A:0.22, C:0.40, G:0.17, T:0.21
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACAAGCAGTGCCATCG
Found at i:24186917 original size:19 final size:19
Alignment explanation
Indices: 24186857--24186920 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
24186847 TAGCCGTAGT
*
24186857 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
24186876 CATCGTGCACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
24186895 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
24186914 CATCGTG
1 CATCGTG
24186921 CACACGGGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 4 0.12
19 24 0.75
20 4 0.12
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.22
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:24187849 original size:19 final size:19
Alignment explanation
Indices: 24187808--24187849 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
24187798 GAAGAAGGAG
* *
24187808 AAGAAGCTACTGGAGAATG
1 AAGAAGCTACTGAAGAATA
24187827 AAGAAGCTACTTGAAGAA-A
1 AAGAAGCTAC-TGAAGAATA
24187846 AAGA
1 AAGA
24187850 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.50, C:0.10, G:0.26, T:0.14
Consensus pattern (19 bp):
AAGAAGCTACTGAAGAATA
Found at i:24192863 original size:14 final size:14
Alignment explanation
Indices: 24192844--24192896 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
24192834 CCCGCTAGCT
24192844 TTTCTTCTCTCTTC
1 TTTCTTCTCTCTTC
* * *
24192858 TTTCTTCTTTTTTT
1 TTTCTTCTCTCTTC
24192872 TTTCTT-TCTCCTTTC
1 TTTCTTCTCT-C-TTC
24192887 TTTCTTCTCT
1 TTTCTTCTCT
24192897 TTTTACTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 2 0.07
14 17 0.57
15 8 0.27
16 3 0.10
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTCTTCTCTCTTC
Found at i:24192887 original size:29 final size:28
Alignment explanation
Indices: 24192843--24192900 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
24192833 TCCCGCTAGC
*
24192843 TTTTCTTCTCTCTTCTTTCTTCTTTTTT
1 TTTTCTTCTCTCTTCTTTCTTCTCTTTT
24192871 TTTTCTT-TCTCCTTTCTTTCTTCTCTTTT
1 TTTTCTTCTCT-C-TTCTTTCTTCTCTTTT
24192900 T
1 T
24192901 ACTTTCAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 3 0.11
28 8 0.30
29 16 0.59
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTTCTTCTCTCTTCTTTCTTCTCTTTT
Found at i:24192894 original size:7 final size:7
Alignment explanation
Indices: 24192844--24192888 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
24192834 CCCGCTAGCT
24192844 TTTCTTC
1 TTTCTTC
*
24192851 TCTCTTC
1 TTTCTTC
24192858 TTTCTTC
1 TTTCTTC
24192865 TTT-TT-
1 TTTCTTC
24192870 TTT-TTC
1 TTTCTTC
*
24192876 TTTCTCC
1 TTTCTTC
24192883 TTTCTT
1 TTTCTT
24192889 TCTTCTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 5 0.16
7 22 0.69
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTCTTC
Found at i:24203853 original size:35 final size:35
Alignment explanation
Indices: 24203814--24204032 Score: 235
Period size: 35 Copynumber: 6.2 Consensus size: 35
24203804 TTAATTGTTT
*
24203814 AATTTAATCAATTAGGCCCAATAACATAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
24203849 AATTTAATTAATTAAGCACAATAACTTAATTAAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
*
24203884 AATTTTAATCAATTAGGCCCAAT-GCTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * ****
24203919 AAATTTAATCAATTAAGCCTAATGACTTAATTGTTT
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
24203955 AATTTAATTAATTAGGCCAAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
24203990 AATTTAATTAATTAGGCCTAATGA-TATAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACT-TAATTAAAC
24204025 AATTTAAT
1 AATTTAAT
24204033 TGATGAGGCA
Statistics
Matches: 153, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
34 1 0.01
35 126 0.82
36 26 0.17
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:24203902 original size:71 final size:70
Alignment explanation
Indices: 24203813--24204032 Score: 275
Period size: 70 Copynumber: 3.1 Consensus size: 70
24203803 CTTAATTGTT
*
24203813 TAATTTAATCAATTAGGCCCAATAACATAATTAAACAATTTAATTAATTAAGCAC-AATAACTTA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGC-CTAATAACTTA
24203877 ATTAAA
65 ATTAAA
* * *
24203883 TAATTTTAATCAATTAGGCCCAAT-GCTTAATTAAACAAATTTAATCAATTAAGCCTAATGACTT
1 TAA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC-AATTTAATTAATTAAGCCTAATAACTT
***
24203947 AATTGTT
64 AATTAAA
* * * *
24203954 TAATTTAATTAATTAGGCCAAATAACTTAATTAAACAATTTAATTAATTAGGCCTAATGA-TATA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCTAATAACT-TA
24204018 ATTAAA
65 ATTAAA
*
24204024 CAATTTAAT
1 TAATTTAAT
24204033 TGATGAGGCA
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
69 1 0.01
70 67 0.52
71 61 0.47
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (70 bp):
TAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCTAATAACTTAA
TTAAA
Found at i:24203950 original size:106 final size:105
Alignment explanation
Indices: 24203814--24204032 Score: 280
Period size: 106 Copynumber: 2.1 Consensus size: 105
24203804 TTAATTGTTT
*
24203814 AATTTAATCAATTAGGCCCAATAACATAATTAAACAATTTAATTAATTAAG-CACAATAACTTAA
1 AATTTAATCAATTAAGCCCAATAACATAATTAAACAATTTAATTAATTAAGCCA-AATAACTTAA
* *
24203878 TTAAATAATTTTAATCAATTAGGCCCAATGCT-TAATTAAAC
65 TTAAACAA-TTTAATCAATTAGGCCCAATGATATAATTAAAC
* * * **** *
24203919 AAATTTAATCAATTAAGCCTAATGACTTAATTGTTTAATTTAATTAATTAGGCCAAATAACTTAA
1 -AATTTAATCAATTAAGCCCAATAACATAATTAAACAATTTAATTAATTAAGCCAAATAACTTAA
* *
24203984 TTAAACAATTTAATTAATTAGGCCTAATGATATAATTAAAC
65 TTAAACAATTTAATCAATTAGGCCCAATGATATAATTAAAC
24204025 AATTTAAT
1 AATTTAAT
24204033 TGATGAGGCA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
105 28 0.29
106 68 0.69
107 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (105 bp):
AATTTAATCAATTAAGCCCAATAACATAATTAAACAATTTAATTAATTAAGCCAAATAACTTAAT
TAAACAATTTAATCAATTAGGCCCAATGATATAATTAAAC
Found at i:24204033 original size:35 final size:33
Alignment explanation
Indices: 24203814--24204061 Score: 203
Period size: 35 Copynumber: 7.2 Consensus size: 33
24203804 TTAATTGTTT
* * *
24203814 AATTTAATCAATTAGGCCCAATAACATAATTAAAC
1 AATTTAATTAATTAGG-CCAATGA-TTAATTAAAC
* * *
24203849 AATTTAATTAATTAAGCACAATAACTTAATTAAAT
1 AATTTAATTAATTAGGC-CAATGA-TTAATTAAAC
* *
24203884 AATTTTAATCAATTAGGCCCAATGCTTAATTAAAC
1 AA-TTTAATTAATTAGG-CCAATGATTAATTAAAC
* * ****
24203919 AAATTTAATCAATTAAGCCTAATGACTTAATTGTTT
1 -AATTTAATTAATTAGGCC-AATGA-TTAATTAAAC
*
24203955 AATTTAATTAATTAGGCCAAATAACTTAATTAAAC
1 AATTTAATTAATTAGGCC-AATGA-TTAATTAAAC
24203990 AATTTAATTAATTAGGCCTAATGATATAATTAAAC
1 AATTTAATTAATTAGGCC-AATGAT-TAATTAAAC
* *
24204025 AATTTAATTGATGAGGCACAA-G-TTAATTAAAC
1 AATTTAATTAATTAGGC-CAATGATTAATTAAAC
24204057 AATTT
1 AATTT
24204062 TAACAAAGAT
Statistics
Matches: 178, Mismatches: 27, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
32 14 0.08
33 1 0.01
34 5 0.03
35 132 0.74
36 25 0.14
37 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (33 bp):
AATTTAATTAATTAGGCCAATGATTAATTAAAC
Found at i:24209684 original size:18 final size:19
Alignment explanation
Indices: 24209661--24209700 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
24209651 CAAGTGAAAA
24209661 ATTTTA-GAATAAAATAAT
1 ATTTTATGAATAAAATAAT
* *
24209679 ATTTTATTAATAAAATATT
1 ATTTTATGAATAAAATAAT
24209698 ATT
1 ATT
24209701 AAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATTTTATGAATAAAATAAT
Found at i:24209697 original size:11 final size:11
Alignment explanation
Indices: 24209683--24209712 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24209673 AATAATATTT
24209683 TATTAATAAAA
1 TATTAATAAAA
*
24209694 TATTATTAAAA
1 TATTAATAAAA
24209705 TATTAATA
1 TATTAATA
24209713 TTTTATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:24211492 original size:2 final size:2
Alignment explanation
Indices: 24211485--24211564 Score: 126
Period size: 2 Copynumber: 39.5 Consensus size: 2
24211475 TGTACATGTG
*
24211485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TNG TA GT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA
24211528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24211565 GCAATAGACA
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
1 1 0.01
2 70 0.96
3 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24222234 original size:12 final size:13
Alignment explanation
Indices: 24222212--24222240 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24222202 ATACATCTCT
24222212 TTTTAACGATTCA
1 TTTTAACGATTCA
24222225 TTTT-ACGATTCA
1 TTTTAACGATTCA
24222237 TTTT
1 TTTT
24222241 TCAAACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (13 bp):
TTTTAACGATTCA
Found at i:24234200 original size:2 final size:2
Alignment explanation
Indices: 24234128--24234190 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
24234118 TTGTTTTGAA
24234128 AT AT AT 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
*
24234170 AT AN AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
24234191 AGCTATATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24236911 original size:138 final size:137
Alignment explanation
Indices: 24236742--24236993 Score: 450
Period size: 138 Copynumber: 1.8 Consensus size: 137
24236732 ATTTGATAAT
24236742 AATTATAGATTATTTTAAAATTGATCAAATCTTTCAATTTGTATTTATAGCAAATTAAATATCAT
1 AATTATAGATTATTTTAAAATTGATCAAATCTTTCAATTTGTATTTATAGCAAATTAAATATCAT
* *
24236807 AATTTTATAACTAAAAAAGTTTTGGGAAAAAGAAAAGAAAAAGAAAAAAACAAATATTAACCTGA
66 AATTTTATAACT-AAAAAGTTTTAGAAAAAAGAAAAGAAAAAGAAAAAAACAAATATTAACCTGA
24236872 TATTTTAA
130 TATTTTAA
* *
24236880 AATTATAGATTATTTTAAAATTGATCAAATCTTTCAATTTGTGTTTATAGCTAATTAAATATCAT
1 AATTATAGATTATTTTAAAATTGATCAAATCTTTCAATTTGTATTTATAGCAAATTAAATATCAT
*
24236945 AATTTTTTAACTAAAAAGTTTTAGAAAAAAGAAAAGAAAAAGAAAAAAA
66 AATTTTATAACTAAAAAGTTTTAGAAAAAAGAAAAGAAAAAGAAAAAAA
24236994 TAGGGAATGT
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
137 35 0.32
138 74 0.68
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (137 bp):
AATTATAGATTATTTTAAAATTGATCAAATCTTTCAATTTGTATTTATAGCAAATTAAATATCAT
AATTTTATAACTAAAAAGTTTTAGAAAAAAGAAAAGAAAAAGAAAAAAACAAATATTAACCTGAT
ATTTTAA
Found at i:24254127 original size:28 final size:30
Alignment explanation
Indices: 24254086--24254150 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
24254076 GTCTATGGGC
* *
24254086 AATTTTTCAGTTTT-T-TGGGCAAAAATGT
1 AATTTTTCACTTTTATGAGGGCAAAAATGT
*
24254114 AATTTTTCACTTTTATGAGGGCAAAAGTGT
1 AATTTTTCACTTTTATGAGGGCAAAAATGT
*
24254144 AAATTTT
1 AATTTTT
24254151 AAAAATTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 13 0.42
29 1 0.03
30 17 0.55
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.45
Consensus pattern (30 bp):
AATTTTTCACTTTTATGAGGGCAAAAATGT
Found at i:24268116 original size:25 final size:24
Alignment explanation
Indices: 24268060--24268117 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
24268050 TTTTTTCCTT
24268060 AAGTT-AAA-TTTCCAATGCAAGC
1 AAGTTAAAACTTTCCAATGCAAGC
*
24268082 AATGTAAAAACTTTCCCAATG-AAGAC
1 AA-GTTAAAACTTT-CCAATGCAAG-C
24268108 AAGTTAAAAC
1 AAGTTAAAAC
24268118 AATTTTCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 2 0.07
23 2 0.07
24 3 0.10
25 13 0.45
26 9 0.31
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (24 bp):
AAGTTAAAACTTTCCAATGCAAGC
Found at i:24269232 original size:54 final size:54
Alignment explanation
Indices: 24269035--24269232 Score: 174
Period size: 54 Copynumber: 3.7 Consensus size: 54
24269025 ATTGCTAATA
* * * * ** *
24269035 GAATTTTCCATTGGAAAAGCATTTCCCATGGAATTCCGTCGGAAATTTCCAACG
1 GAATTTTCTATTAGAAAAGCATTTTCCATGGAATTCTGTCAAAAATTTCTAACG
* * *
24269089 GAATTTTCTGTTAGACAAGCATTTTCCATGGAATT-TAGTCAAAAATTTCAAACG
1 GAATTTTCTATTAGAAAAGCATTTTCCATGGAATTCT-GTCAAAAATTTCTAACG
* ** *
24269143 GAATGTTCTATT-GAAAA--AGTGTTTCCAATATAATTCTG-CAATAAATTTCTAATG
1 GAATTTTCTATTAGAAAAGCA-T-TTTCC-ATGGAATTCTGTCAA-AAATTTCTAACG
24269197 GAATTTT-TCATTAGAAAAGCATTTTCCATGGAATTC
1 GAATTTTCT-ATTAGAAAAGCATTTTCCATGGAATTC
24269233 ATTAGGTATA
Statistics
Matches: 115, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
51 1 0.01
52 1 0.01
53 13 0.11
54 87 0.76
55 11 0.10
56 1 0.01
57 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (54 bp):
GAATTTTCTATTAGAAAAGCATTTTCCATGGAATTCTGTCAAAAATTTCTAACG
Found at i:24274490 original size:19 final size:19
Alignment explanation
Indices: 24274450--24274491 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
24274440 AGGCCTAAGG
* *
24274450 AATAAATGAATGAGGGTAA
1 AATAAATGAATGAAGATAA
24274469 AATAAATGAA-GAAGATATA
1 AATAAATGAATGAAGATA-A
24274488 AATA
1 AATA
24274492 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:24275466 original size:2 final size:2
Alignment explanation
Indices: 24275449--24275485 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
24275439 TATTGGTGTT
* *
24275449 TA TA TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24275486 GCAATAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24279425 original size:14 final size:15
Alignment explanation
Indices: 24279406--24279444 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24279396 TTTTCTTTCA
*
24279406 TTTTCTTTTCC-TTG
1 TTTTCTTTTCCATTC
24279420 TTTTCTTTTCCATTC
1 TTTTCTTTTCCATTC
*
24279435 TGTTCTTTTC
1 TTTTCTTTTC
24279445 TTACTTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.03, C:0.23, G:0.05, T:0.69
Consensus pattern (15 bp):
TTTTCTTTTCCATTC
Found at i:24280418 original size:36 final size:36
Alignment explanation
Indices: 24280366--24280450 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 36
24280356 GGTGGTGCGA
* *
24280366 GAGTACACATGAGGATATATGCCATGTGCAGTGTGG
1 GAGTGCACATGAGGATATAGGCCATGTGCAGTGTGG
* ** **
24280402 GAGTGCACATGAGGATATCGGTTATGTGTGGTGTGG
1 GAGTGCACATGAGGATATAGGCCATGTGCAGTGTGG
24280438 GAGTGCACATGAG
1 GAGTGCACATGAG
24280451 CTGAGTTAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.25, C:0.12, G:0.38, T:0.26
Consensus pattern (36 bp):
GAGTGCACATGAGGATATAGGCCATGTGCAGTGTGG
Found at i:24288716 original size:23 final size:22
Alignment explanation
Indices: 24288663--24288716 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
24288653 AAAAGAAGAA
* *
24288663 GGAAGAAGAAGAAGAAGTTGCT
1 GGAAGATGAAGAAGAAGCTGCT
* *
24288685 GAAAAATGAGAGAAGAAGCTGCT
1 GGAAGATGA-AGAAGAAGCTGCT
24288708 GGAAGATGA
1 GGAAGATGA
24288717 TATTTATAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.46, C:0.06, G:0.35, T:0.13
Consensus pattern (22 bp):
GGAAGATGAAGAAGAAGCTGCT
Found at i:24297583 original size:37 final size:37
Alignment explanation
Indices: 24297533--24297621 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
24297523 ACTTTTTAAA
* *
24297533 GGATCAAGCATAACCTTTACAAACCACTACTTTTCAT
1 GGATTAAGCATAACCTTTAAAAACCACTACTTTTCAT
*** *
24297570 GGATTAAGCATAACCTTTAAAAATGGCTATTTTTCAT
1 GGATTAAGCATAACCTTTAAAAACCACTACTTTTCAT
24297607 GGATTAAGCATAACC
1 GGATTAAGCATAACC
24297622 CCTGCCTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (37 bp):
GGATTAAGCATAACCTTTAAAAACCACTACTTTTCAT
Found at i:24297736 original size:28 final size:28
Alignment explanation
Indices: 24297612--24297737 Score: 89
Period size: 28 Copynumber: 4.4 Consensus size: 28
24297602 TTCATGGATT
* *
24297612 AAGCATAACCCCTGCCTTTTCAAAGATC
1 AAGCATAACCTCTACCTTTTCAAAGATC
* * *
24297640 AAGCATAACCTC-ACTACTTTTTAAAGGCTT
1 AAGCATAACCTCTAC--CTTTTCAAA-GATC
*
24297670 AAGCATAACCCTTCTACC-TTAC-AAGCAT-
1 AAGCATAA-CC-TCTACCTTTTCAAAG-ATC
* *
24297698 TAGACATAACCTCAACCTTTTCAAAGATC
1 AAG-CATAACCTCTACCTTTTCAAAGATC
24297727 AAGCATAACCT
1 AAGCATAACCT
24297738 TTATAACATT
Statistics
Matches: 75, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
27 6 0.08
28 29 0.39
29 21 0.28
30 12 0.16
31 3 0.04
32 2 0.03
33 2 0.03
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.27
Consensus pattern (28 bp):
AAGCATAACCTCTACCTTTTCAAAGATC
Found at i:24299456 original size:20 final size:20
Alignment explanation
Indices: 24299433--24299471 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24299423 TAGATTCCAA
*
24299433 AATCTATCAATAGTTTTTGC
1 AATCTATCAATAGATTTTGC
*
24299453 AATCTATCCATAGATTTTG
1 AATCTATCAATAGATTTTG
24299472 GCTAGAACCA
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:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (20 bp):
AATCTATCAATAGATTTTGC
Found at i:24299647 original size:21 final size:22
Alignment explanation
Indices: 24299611--24299741 Score: 67
Period size: 21 Copynumber: 6.1 Consensus size: 22
24299601 TGCAAGTGAG
*
24299611 GTTTAAAAAACTTATTTAAACAA
1 GTTT-AAAAACTTATTCAAACAA
*
24299634 GTTTAAAAAC-TATTCAACCAA
1 GTTTAAAAACTTATTCAAACAA
* *
24299655 G-TTCAAAA-TTAATTCAAGCAA
1 GTTTAAAAACTT-ATTCAAACAA
* * *
24299676 -TTTCAAAACTCATTCAAGCAA
1 GTTTAAAAACTTATTCAAACAA
* ** * *
24299697 TTTTGCAAA-TCATTCAAATAA
1 GTTTAAAAACTTATTCAAACAA
* * *
24299718 GTTCAAAGAC-CATTCAAACAA
1 GTTTAAAAACTTATTCAAACAA
24299739 GTT
1 GTT
24299742 CAAAGATCAT
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
20 7 0.08
21 63 0.72
22 13 0.15
23 4 0.05
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.31
Consensus pattern (22 bp):
GTTTAAAAACTTATTCAAACAA
Found at i:24299742 original size:21 final size:21
Alignment explanation
Indices: 24299707--24299752 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
24299697 TTTTGCAAAT
*
24299707 CATTCAAATAAGTTCAAAGAC
1 CATTCAAACAAGTTCAAAGAC
*
24299728 CATTCAAACAAGTTCAAAGAT
1 CATTCAAACAAGTTCAAAGAC
24299749 CATT
1 CATT
24299753 GAAGTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (21 bp):
CATTCAAACAAGTTCAAAGAC
Found at i:24301874 original size:36 final size:36
Alignment explanation
Indices: 24301827--24301955 Score: 152
Period size: 36 Copynumber: 3.6 Consensus size: 36
24301817 TCTTACACCG
* *
24301827 ATAACCCTTACACTTTCTTTTTAATGGGATCAAGTA
1 ATAACCCTTACACTTACTTTTTAATGGGATCAAGCA
* *
24301863 ATAACCCTTACACTTGCTTTTTAATGGGATCAAGCG
1 ATAACCCTTACACTTACTTTTTAATGGGATCAAGCA
*** * *
24301899 ATAATATTTACA-TAGACTTTTTAACGGGATCAAGCA
1 ATAACCCTTACACT-TACTTTTTAATGGGATCAAGCA
*
24301935 ATAACCCTTACACTAACTTTT
1 ATAACCCTTACACTTACTTTT
24301956 GAAGGTTTAG
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
35 1 0.01
36 75 0.97
37 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (36 bp):
ATAACCCTTACACTTACTTTTTAATGGGATCAAGCA
Found at i:24307467 original size:60 final size:60
Alignment explanation
Indices: 24307394--24307519 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
24307384 AGATTCAATC
* * * *
24307394 TCGCTGCAGCGAAATTGTAA-CCTGAAAACAAAAAGTTTCTCGCTGCAGCGAGAATGAATT
1 TCGCTGTAACGAAATTGTAACCCAG-AAACAAAAAGTTTCTCGCTACAGCGAGAATGAATT
* * * *
24307454 TTGCTGTAACGAAATTGTAACCCAGAAACAGAAAGTTTTTGGCTACAGCGAGAATGAATT
1 TCGCTGTAACGAAATTGTAACCCAGAAACAAAAAGTTTCTCGCTACAGCGAGAATGAATT
24307514 TCGCTG
1 TCGCTG
24307520 CAGCGAGAAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 53 0.95
61 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (60 bp):
TCGCTGTAACGAAATTGTAACCCAGAAACAAAAAGTTTCTCGCTACAGCGAGAATGAATT
Found at i:24307966 original size:43 final size:43
Alignment explanation
Indices: 24307891--24308000 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
24307881 TCACCAGCTC
** ** *
24307891 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCATC-GAGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCTG-CTT
* * *
24307934 TTGTGCACTCCCTACTCGCACATAACCAGGTCATCCTCTGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCTGCTT
24307977 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
24308001 GCCTAGTCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 55 0.98
44 1 0.02
ACGTcount: A:0.20, C:0.36, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCATCTGCTT
Found at i:24308794 original size:16 final size:15
Alignment explanation
Indices: 24308768--24308797 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24308758 AGCAACATGA
24308768 AAGAAAAGAAGAAGG
1 AAGAAAAGAAGAAGG
24308783 AAGAAGAAGAAGAAG
1 AAGAA-AAGAAGAAG
24308798 CTGCTGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAAGAAGG
Found at i:24310272 original size:25 final size:25
Alignment explanation
Indices: 24310244--24310299 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
24310234 TCGCAACCAT
*
24310244 GTATATCAACTAGTGGCCTAGCCAC
1 GTATATCAACCAGTGGCCTAGCCAC
* * * *
24310269 GTATATCATCCCGTGGCCTTGCCAT
1 GTATATCAACCAGTGGCCTAGCCAC
24310294 GTATAT
1 GTATAT
24310300 ATATATCACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (25 bp):
GTATATCAACCAGTGGCCTAGCCAC
Found at i:24313606 original size:21 final size:21
Alignment explanation
Indices: 24313581--24313637 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
24313571 CTCCTTCTAG
24313581 CTTTTCTTCATTCTTCTCTCT
1 CTTTTCTTCATTCTTCTCTCT
* *
24313602 CTTTTC-TCTTTCCTTCTTTCT
1 CTTTTCTTCATT-CTTCTCTCT
* *
24313623 CCTTTCTTCCTTCTT
1 CTTTTCTTCATTCTT
24313638 TTTGCTTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (21 bp):
CTTTTCTTCATTCTTCTCTCT
Found at i:24314137 original size:21 final size:21
Alignment explanation
Indices: 24314113--24314160 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
24314103 AATAGTGAAT
24314113 CCACATGCACATTTCATTATC
1 CCACATGCACATTTCATTATC
24314134 CCACATGCACATTTCATTATC
1 CCACATGCACATTTCATTATC
24314155 CCACAT
1 CCACAT
24314161 ATCATCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.35, G:0.04, T:0.31
Consensus pattern (21 bp):
CCACATGCACATTTCATTATC
Found at i:24315989 original size:19 final size:19
Alignment explanation
Indices: 24315965--24316003 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24315955 CTATAAAATA
*
24315965 TCTTGAATTTCTAGCAGCT
1 TCTTGAATTTCCAGCAGCT
24315984 TCTTGAATTTCCAGCAGCT
1 TCTTGAATTTCCAGCAGCT
24316003 T
1 T
24316004 GTCTTCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (19 bp):
TCTTGAATTTCCAGCAGCT
Found at i:24320497 original size:17 final size:19
Alignment explanation
Indices: 24320472--24320506 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
24320462 ATCCTAAATC
24320472 AACTAAAATTAAA-AAAAA
1 AACTAAAATTAAATAAAAA
24320490 AACT-AAATTAAATAAAA
1 AACTAAAATTAAATAAAA
24320507 TAGAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (19 bp):
AACTAAAATTAAATAAAAA
Found at i:24321299 original size:36 final size:36
Alignment explanation
Indices: 24321252--24321364 Score: 147
Period size: 36 Copynumber: 3.1 Consensus size: 36
24321242 AGGATTCTTG
* *
24321252 CTTTTTAATGGGATCAAGTGATAACCTTTACACTTA
1 CTTTTTAATGGGATCAAGCGATAACCCTTACACTTA
* *
24321288 CTTTTTAATGGGATTAAGCGATAACCCTTACACTTG
1 CTTTTTAATGGGATCAAGCGATAACCCTTACACTTA
* * *
24321324 CTTCTTAATGAGATCAAGCGATAACCCTCACA-TTAA
1 CTTTTTAATGGGATCAAGCGATAACCCTTACACTT-A
24321360 CTTTT
1 CTTTT
24321365 CAAGGTTAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
35 2 0.03
36 64 0.97
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (36 bp):
CTTTTTAATGGGATCAAGCGATAACCCTTACACTTA
Found at i:24323476 original size:19 final size:19
Alignment explanation
Indices: 24323452--24323491 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24323442 GAACCTTATT
24323452 TAATTGATTACTATAGACA
1 TAATTGATTACTATAGACA
24323471 TAATTGATTACTATAGACA
1 TAATTGATTACTATAGACA
24323490 TA
1 TA
24323492 TACTAACCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (19 bp):
TAATTGATTACTATAGACA
Found at i:24330124 original size:2 final size:2
Alignment explanation
Indices: 24330117--24330219 Score: 136
Period size: 2 Copynumber: 51.5 Consensus size: 2
24330107 CATGCTATGG
24330117 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** ** **
24330159 TA TA TA NN NN NN TA TCA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
24330201 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
24330220 TATCATATGT
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.01
2 93 0.98
3 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:24338468 original size:23 final size:23
Alignment explanation
Indices: 24338442--24338485 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
24338432 TACTATAATT
*
24338442 ATTTTTTA-ATTGAATTATATATG
1 ATTTATTATATTGAA-TATATATG
*
24338465 ATTTATTATATTTAATATATA
1 ATTTATTATATTGAATATATA
24338486 ATTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
ATTTATTATATTGAATATATATG
Found at i:24342505 original size:18 final size:18
Alignment explanation
Indices: 24342482--24342517 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24342472 CATAGTCTTC
24342482 TTTCCCTTGGTTGGTGGT
1 TTTCCCTTGGTTGGTGGT
*
24342500 TTTCCCTTTGTTGGTGGT
1 TTTCCCTTGGTTGGTGGT
24342518 GTTGTAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.31, T:0.53
Consensus pattern (18 bp):
TTTCCCTTGGTTGGTGGT
Found at i:24359011 original size:28 final size:29
Alignment explanation
Indices: 24358971--24359035 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 29
24358961 TGGCAGCTTT
* *
24358971 AACATCTTTGTCTTAATTTAGACAAGA-A
1 AACATATTTGTCTCAATTTAGACAAGATA
24358999 AACATATTTGTCTCAATTTAGACAAGATA
1 AACATATTTGTCTCAATTTAGACAAGATA
24359028 AA-ATATTT
1 AACATATTT
24359036 TTTTGTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (29 bp):
AACATATTTGTCTCAATTTAGACAAGATA
Found at i:24359222 original size:17 final size:17
Alignment explanation
Indices: 24359200--24359232 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24359190 ATAATAATAA
24359200 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
24359217 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
24359233 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:24359272 original size:111 final size:110
Alignment explanation
Indices: 24359132--24359356 Score: 414
Period size: 111 Copynumber: 2.0 Consensus size: 110
24359122 ATAAAATGAG
* * *
24359132 ACTCTATGTTTGATTGTTACTCTTTTATTTATTATTAATTCTTTTTAAATAAAGATGGATAATAA
1 ACTCCATGTTTGACTATTACTCTTTTATTTATTATTAATTCTTTTTAAATAAAGATGGATAATAA
24359197 TAAAATAAGAGTTATTATTCAATAAGGAGTTTTATTTTATCAAGA
66 TAAAATAAGAGTTATTATTCAATAAGGAGTTTTATTTTATCAAGA
24359242 ANCTCCATGTTTGACTATTACTCTTTTATTTATTATTAATTCTTTTTAAATAAAGATGGATAATA
1 A-CTCCATGTTTGACTATTACTCTTTTATTTATTATTAATTCTTTTTAAATAAAGATGGATAATA
24359307 ATAAAATAAGAGTTATTATTCAATAAGGAGTTTTATTTTATCAAGA
65 ATAAAATAAGAGTTATTATTCAATAAGGAGTTTTATTTTATCAAGA
24359353 ACTC
1 ACTC
24359357 TAAATGATAA
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
110 4 0.04
111 107 0.96
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.45
Consensus pattern (110 bp):
ACTCCATGTTTGACTATTACTCTTTTATTTATTATTAATTCTTTTTAAATAAAGATGGATAATAA
TAAAATAAGAGTTATTATTCAATAAGGAGTTTTATTTTATCAAGA
Found at i:24359333 original size:17 final size:17
Alignment explanation
Indices: 24359311--24359343 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24359301 ATAATAATAA
24359311 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
24359328 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
24359344 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:24359400 original size:111 final size:111
Alignment explanation
Indices: 24359160--24359384 Score: 296
Period size: 111 Copynumber: 2.0 Consensus size: 111
24359150 ACTCTTTTAT
*
24359160 TTATTATTAATTCTTTTTAAATAAAGATGGATAATAATAAAATAAGAGTTATTATTCAATAAGGA
1 TTATTATTAATTATTTTTAAATAAAGATGGATAATAATAAAATAAGAGTTATTATTCAATAAGGA
* *** **** * *
24359225 GTTTTATTTTATCAAGAANCTCCATGTTTGACTATTACTCTTTTAT
66 GTTTTATTTTATCAAGAAACTCCATAAATGACTATTAAGAATTAAA
*
24359271 TTATTATTAATTCTTTTTAAATAAAGATGGATAATAATAAAATAAGAGTTATTATTCAATAAGGA
1 TTATTATTAATTATTTTTAAATAAAGATGGATAATAATAAAATAAGAGTTATTATTCAATAAGGA
24359336 GTTTTATTTTATCAAG-AACT-C-TAAATGA-TAATTAAAGAATTAAA
66 GTTTTATTTTATCAAGAAACTCCATAAATGACT-ATT-AAGAATTAAA
24359380 TTATT
1 TTATT
24359385 TATTCTTTAA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
107 1 0.01
108 7 0.07
109 10 0.10
110 3 0.03
111 81 0.79
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (111 bp):
TTATTATTAATTATTTTTAAATAAAGATGGATAATAATAAAATAAGAGTTATTATTCAATAAGGA
GTTTTATTTTATCAAGAAACTCCATAAATGACTATTAAGAATTAAA
Found at i:24370337 original size:31 final size:33
Alignment explanation
Indices: 24370296--24370384 Score: 101
Period size: 36 Copynumber: 2.7 Consensus size: 33
24370286 TGGCAAATAT
* *
24370296 CATGTACACTCCCACACCACATCA-T-CACCAG
1 CATGTGCACTCCCACACCACACCACTACACCAG
*
24370327 CATGTGCACTCCCACACAACACACCACTAGCACCAT
1 CATGTGCACTCCCACAC--CACACCACTA-CACCAG
*
24370363 CACGTGCACTCCCACACCACAC
1 CATGTGCACTCCCACACCACAC
24370385 ATGCACGGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
31 16 0.33
33 6 0.12
34 6 0.12
36 21 0.43
ACGTcount: A:0.31, C:0.47, G:0.08, T:0.13
Consensus pattern (33 bp):
CATGTGCACTCCCACACCACACCACTACACCAG
Found at i:24371216 original size:15 final size:14
Alignment explanation
Indices: 24371177--24371219 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
24371167 GAAGAAGTAA
* *
24371177 GAAAAGAAAGGAAAT
1 GAAAAGAAATG-AAG
24371192 GAAAAGAAATGAAG
1 GAAAAGAAATGAAG
24371206 GAAAAGAAAATGAA
1 GAAAAG-AAATGAA
24371220 AAAATTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (14 bp):
GAAAAGAAATGAAG
Found at i:24377819 original size:2 final size:2
Alignment explanation
Indices: 24377812--24377850 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
24377802 TGACTTTACA
*
24377812 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24377851 CACCACACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24389638 original size:11 final size:10
Alignment explanation
Indices: 24389605--24389651 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
24389595 TTTCCTTTGG
24389605 TTTT-TCTC-
1 TTTTCTCTCT
24389613 TTTTCT-TCT
1 TTTTCTCTCT
24389622 TTTTCTCTCT
1 TTTTCTCTCT
24389632 ATTTTCTCTCT
1 -TTTTCTCTCT
*
24389643 TTTTTTCTC
1 TTTTCTCTC
24389652 CCTATGGCCG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
8 6 0.18
9 7 0.21
10 11 0.32
11 10 0.29
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTCTCTCT
Found at i:24389643 original size:21 final size:20
Alignment explanation
Indices: 24389613--24389651 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24389603 GGTTTTTCTC
24389613 TTTTCTTCTTTTTCTCTCTA
1 TTTTCTTCTTTTTCTCTCTA
*
24389633 TTTTCTCTCTTTTTTTCTC
1 TTTTCT-TCTTTTTCTCTC
24389652 CCTATGGCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTCTTTTTCTCTCTA
Found at i:24391539 original size:36 final size:36
Alignment explanation
Indices: 24391468--24391555 Score: 85
Period size: 36 Copynumber: 2.5 Consensus size: 36
24391458 CTCAACTCAG
**
24391468 CTCATGTGCACTCCCACACAGCACAGAGCTGATATC
1 CTCATGTGCACTCCCACACAGCACAGAGCAAATATC
** *
24391504 CTCATGTGCACTCTTACACTGCACATG-GCAAATA--
1 CTCATGTGCACTCCCACACAGCACA-GAGCAAATATC
*
24391538 -TCATGTACACTCCCACAC
1 CTCATGTGCACTCCCACAC
24391556 CACATCATCA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
33 15 0.35
36 27 0.63
37 1 0.02
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.23
Consensus pattern (36 bp):
CTCATGTGCACTCCCACACAGCACAGAGCAAATATC
Found at i:24392455 original size:14 final size:14
Alignment explanation
Indices: 24392436--24392468 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24392426 GAACGAAAAT
24392436 GAAAAG-AAATGAA
1 GAAAAGAAAATGAA
24392449 GGAAAAGAAAATGAA
1 -GAAAAGAAAATGAA
24392464 GAAAA
1 GAAAA
24392469 TTTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (14 bp):
GAAAAGAAAATGAA
Found at i:24394713 original size:22 final size:22
Alignment explanation
Indices: 24394685--24394728 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
24394675 TTAGATTGTT
*
24394685 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGGTTTAAAG
24394707 ATCAGAGCTTTTGGGTTTAAAG
1 ATCAGAGCTTTTGGGTTTAAAG
24394729 TTGTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (22 bp):
ATCAGAGCTTTTGGGTTTAAAG
Found at i:24403007 original size:13 final size:14
Alignment explanation
Indices: 24402970--24403009 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
24402960 GGTGATGTGT
*
24402970 AGCATGAAAAATCA
1 AGCAAGAAAAATCA
24402984 AGCAAGAAAAATCA
1 AGCAAGAAAAATCA
24402998 AGCAAGAAAAAT
1 AGCAAGAAAAAT
24403010 TCATTTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.62, C:0.12, G:0.15, T:0.10
Consensus pattern (14 bp):
AGCAAGAAAAATCA
Found at i:24406166 original size:3 final size:3
Alignment explanation
Indices: 24406158--24406188 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
24406148 TTGGAGCTTA
24406158 AAG AAG AAG AAG AAG AAG AAG AAG ATAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG
24406189 GGAAGCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:24410838 original size:14 final size:15
Alignment explanation
Indices: 24410803--24410840 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
24410793 AAAAGCCACT
*
24410803 AGAAGAAAGGTCAGA
1 AGAAGAAATGTCAGA
*
24410818 AGCAGAAATGT-AGA
1 AGAAGAAATGTCAGA
24410832 AGAAGAAAT
1 AGAAGAAAT
24410841 AGAAAATTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.29, T:0.11
Consensus pattern (15 bp):
AGAAGAAATGTCAGA
Found at i:24413366 original size:17 final size:17
Alignment explanation
Indices: 24413336--24413372 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
24413326 AGCAAAATAT
24413336 GCACACACTAAGGGGGA
1 GCACACACTAAGGGGGA
* *
24413353 GCACATACTTAGGGGGA
1 GCACACACTAAGGGGGA
24413370 GCA
1 GCA
24413373 ATCCTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.35, T:0.11
Consensus pattern (17 bp):
GCACACACTAAGGGGGA
Found at i:24416683 original size:74 final size:75
Alignment explanation
Indices: 24416589--24416740 Score: 243
Period size: 74 Copynumber: 2.0 Consensus size: 75
24416579 ATTTCCTATA
* * * * *
24416589 AATATCCCAAATTAAAATGCTAACCATAATTTTAGGAATTCACTTTAAGTAGGAAGCAATTTTCT
1 AATAACCCAAATTAAAATGCTAACCATAATTTTAGGAATTCACTTTAAGTAGAAAACAATTTCCA
24416654 ATTCTTTATG
66 ATTCTTTATG
*
24416664 AATAACCC-AATTAAAATGCTAACCATAATTTTAGGAGTTCACTTTAAGTAGAAAACAATTTCCA
1 AATAACCCAAATTAAAATGCTAACCATAATTTTAGGAATTCACTTTAAGTAGAAAACAATTTCCA
24416728 ATTCTTTATG
66 ATTCTTTATG
24416738 AAT
1 AAT
24416741 TTTTCAAAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
74 64 0.90
75 7 0.10
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (75 bp):
AATAACCCAAATTAAAATGCTAACCATAATTTTAGGAATTCACTTTAAGTAGAAAACAATTTCCA
ATTCTTTATG
Found at i:24418159 original size:11 final size:11
Alignment explanation
Indices: 24418136--24418167 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
24418126 AATAAAAATA
24418136 ATATATA-TAT
1 ATATATAGTAT
24418146 ATATATAGTAT
1 ATATATAGTAT
24418157 ATATATAGTAT
1 ATATATAGTAT
24418168 GGGTGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (11 bp):
ATATATAGTAT
Done.