Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 59 of 216
Found at i:17397004 original size:16 final size:15
Alignment explanation
Indices: 17396971--17397023 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
17396961 CCTTTTACCC
17396971 TTTTTATTTATTTATTTA
1 TTTTTA-TTA-TT-TTTA
*
17396989 TTTATTCTTATTTTTA
1 TTT-TTATTATTTTTA
17397005 TATTTTATTATTTTTA
1 T-TTTTATTATTTTTA
17397021 TTT
1 TTT
17397024 GTTTTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 2 0.06
16 17 0.55
17 4 0.13
18 6 0.19
19 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTATTTTTA
Found at i:17397015 original size:10 final size:9
Alignment explanation
Indices: 17396971--17397033 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
17396961 CCTTTTACCC
17396971 TTTTTATT-
1 TTTTTATTA
*
17396979 TATTTATTTA
1 TTTTTA-TTA
*
17396989 TTTATTCTTA
1 TTT-TTATTA
17396999 TTTTTA-TA
1 TTTTTATTA
17397007 -TTTTATTA
1 TTTTTATTA
17397015 TTTTTATT-
1 TTTTTATTA
17397023 TGTTTTATTA
1 T-TTTTATTA
17397033 T
1 T
17397034 GCTTATGCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
7 5 0.11
8 10 0.23
9 18 0.41
10 9 0.20
11 2 0.05
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTTATTA
Found at i:17419577 original size:9 final size:9
Alignment explanation
Indices: 17419563--17419615 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
17419553 ATAAAGTAAG
17419563 TAAAAGAAA
1 TAAAAGAAA
17419572 CT-AAAGAAA
1 -TAAAAGAAA
17419581 TAAAAGAAA
1 TAAAAGAAA
* *
17419590 GAAAAGAAG
1 TAAAAGAAA
17419599 TAAAAGAAA
1 TAAAAGAAA
*
17419608 CAAAAGAA
1 TAAAAGAA
17419616 CAGTAGAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 1 0.03
9 35 0.95
10 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.08
Consensus pattern (9 bp):
TAAAAGAAA
Found at i:17419584 original size:18 final size:18
Alignment explanation
Indices: 17419563--17419615 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
17419553 ATAAAGTAAG
*
17419563 TAAAAGAAACTAAAGAAA
1 TAAAAGAAACAAAAGAAA
* *
17419581 TAAAAGAAAGAAAAGAAG
1 TAAAAGAAACAAAAGAAA
17419599 TAAAAGAAACAAAAGAA
1 TAAAAGAAACAAAAGAA
17419616 CAGTAGAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.08
Consensus pattern (18 bp):
TAAAAGAAACAAAAGAAA
Found at i:17425273 original size:14 final size:14
Alignment explanation
Indices: 17425245--17425273 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17425235 GCTTAGTGGC
17425245 TTTTGACTTGATTT
1 TTTTGACTTGATTT
17425259 TTTTG-CTTGATTT
1 TTTTGACTTGATTT
17425272 TT
1 TT
17425274 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTTTGACTTGATTT
Found at i:17432818 original size:8 final size:8
Alignment explanation
Indices: 17432805--17432829 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17432795 TAATTTGCAC
17432805 TTAAATTA
1 TTAAATTA
17432813 TTAAATTA
1 TTAAATTA
17432821 TTAAATTA
1 TTAAATTA
17432829 T
1 T
17432830 AATTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAAATTA
Found at i:17433409 original size:46 final size:46
Alignment explanation
Indices: 17433342--17433439 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
17433332 GGAGTGGTTG
* *
17433342 CTATTTATTTGCTATTTTTAGTGGCCATTACCACCAATAAATAATC
1 CTATTTATTTGCTATTTTTAGTAGCCATTACCACCAATAAATAACC
* *
17433388 CTATTTATTTTCTATTTTTAGTAGCCATTACCACCAATAAATACCC
1 CTATTTATTTGCTATTTTTAGTAGCCATTACCACCAATAAATAACC
17433434 CTATTT
1 CTATTT
17433440 CCTTCCTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (46 bp):
CTATTTATTTGCTATTTTTAGTAGCCATTACCACCAATAAATAACC
Found at i:17439365 original size:10 final size:10
Alignment explanation
Indices: 17439309--17439333 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17439299 TGCGTCTTTC
17439309 TCTTTTTCTT
1 TCTTTTTCTT
17439319 TCTTTTTCTT
1 TCTTTTTCTT
17439329 TCTTT
1 TCTTT
17439334 CTAATTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:17440530 original size:13 final size:13
Alignment explanation
Indices: 17440512--17440545 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17440502 TAATTTTGTG
17440512 AAAATTTCATTCA
1 AAAATTTCATTCA
**
17440525 AAAATTTTGTTCA
1 AAAATTTCATTCA
17440538 AAAATTTC
1 AAAATTTC
17440546 GACGTTTGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (13 bp):
AAAATTTCATTCA
Found at i:17441486 original size:50 final size:50
Alignment explanation
Indices: 17441422--17441724 Score: 276
Period size: 50 Copynumber: 6.0 Consensus size: 50
17441412 CAAATTTTGT
* * *
17441422 ACCGAGATAAGAGGTCCCATGTAAGACCATGTCTGGGTCATGACGTTGGC
1 ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGC
* * * *
17441472 ACCGAGATAGGAGGTCCCATGTAAGACCATATTTGGGACATGGCGTTGGC
1 ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGC
* *
17441522 ACCGAGATAATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
1 ACCGAG---ATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGC
* ** * * *
17441575 ACCGAGATGGGAGGTCCCCCGTAAGATCATGTCTAGGACAT-AGCATGGGC
1 ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGA-CATTGGC
* * * *
17441625 ACC-A-ATAGGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGC
1 ACCGAGATAGGAG--GTCCCATGTAAGACCATGTCTGGGACATGACATTGGC
* ** * *
17441675 ACTACAAGA-A--ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGC
1 AC--CGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGC
17441724 A
1 A
17441725 TGTTATTATC
Statistics
Matches: 210, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
48 6 0.03
49 35 0.17
50 118 0.56
51 1 0.00
52 1 0.00
53 48 0.23
54 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGC
Found at i:17441614 original size:103 final size:100
Alignment explanation
Indices: 17441428--17441676 Score: 300
Period size: 103 Copynumber: 2.5 Consensus size: 100
17441418 TTGTACCGAG
* * * *
17441428 ATAAGAGGTCCCATGTAAGACCATGTCTGGGTCATGACGTTGGCACCGAGATAGGAGGTCCCATG
1 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAGGAGGTCCCACG
* * * * *
17441493 TAAGACCATATTTGGGACATGGCGTTGGCACCGAGAT
66 TAAGACCATATCTAGGACATAGCATGGGCACC-A-AT
* *
17441530 AATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGGGAGGTCCCCC
1 -ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAGGAGGTCCCAC
* *
17441595 GTAAGATCATGTCTAGGACATAGCATGGGCACCAAT
65 GTAAGACCATATCTAGGACATAGCATGGGCACCAAT
** ** * *
17441631 AGGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAC
1 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
17441677 TACAAGAAAC
Statistics
Matches: 127, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
100 40 0.31
101 2 0.02
102 1 0.01
103 84 0.66
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (100 bp):
ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAGGAGGTCCCACG
TAAGACCATATCTAGGACATAGCATGGGCACCAAT
Found at i:17446386 original size:19 final size:19
Alignment explanation
Indices: 17446362--17446399 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17446352 ATTCATAATG
17446362 GCCATA-ACGCGTACAAAAT
1 GCCATATACG-GTACAAAAT
*
17446381 GCCATATTCGGTACAAAAT
1 GCCATATACGGTACAAAAT
17446400 CAATCTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (19 bp):
GCCATATACGGTACAAAAT
Found at i:17450284 original size:104 final size:104
Alignment explanation
Indices: 17450104--17450370 Score: 455
Period size: 104 Copynumber: 2.6 Consensus size: 104
17450094 TAACCGTTAT
* **
17450104 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17450169 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
17450208 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17450273 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
17450312 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
17450371 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
104 153 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:17450730 original size:29 final size:29
Alignment explanation
Indices: 17450697--17450760 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17450687 TAATCCACCA
17450697 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17450726 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17450756 CCCAA
1 CCCAA
17450761 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17450734 original size:30 final size:30
Alignment explanation
Indices: 17450704--17450760 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17450694 CCACCCAACT
17450704 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17450733 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17450761 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17458465 original size:14 final size:15
Alignment explanation
Indices: 17458446--17458481 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
17458436 TTTAGGTTTA
17458446 GGGGTTTGAT-GGTT
1 GGGGTTTGATAGGTT
*
17458460 GGGGTTTGATAGTTT
1 GGGGTTTGATAGGTT
17458475 GGGGTTT
1 GGGGTTT
17458482 AAAGGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.44
Consensus pattern (15 bp):
GGGGTTTGATAGGTT
Found at i:17458478 original size:15 final size:14
Alignment explanation
Indices: 17458441--17458481 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
17458431 GGATCTTTAG
17458441 GTTTAGGGGTTTGAT
1 GTTT-GGGGTTTGAT
*
17458456 GGTTGGGGTTTGAT
1 GTTTGGGGTTTGAT
17458470 AGTTTGGGGTTT
1 -GTTTGGGGTTT
17458482 AAAGGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (14 bp):
GTTTGGGGTTTGAT
Found at i:17460534 original size:40 final size:43
Alignment explanation
Indices: 17460448--17460534 Score: 144
Period size: 40 Copynumber: 2.1 Consensus size: 43
17460438 CAATGAGGAA
17460448 ATCACATTCGATAAAAGTAGTTCTGATGTTCCCCAATTACAACT
1 ATCACATTCGAT-AAAGTAGTTCTGATGTTCCCCAATTACAACT
17460492 ATCACA-TCGAT-AAGTAGTTCTGATGTT-CCCAATTACAACT
1 ATCACATTCGATAAAGTAGTTCTGATGTTCCCCAATTACAACT
17460532 ATC
1 ATC
17460535 TCGCTGTCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
40 16 0.37
41 16 0.37
43 5 0.12
44 6 0.14
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (43 bp):
ATCACATTCGATAAAGTAGTTCTGATGTTCCCCAATTACAACT
Found at i:17463318 original size:24 final size:24
Alignment explanation
Indices: 17463291--17463336 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17463281 CAAATCCTAC
*
17463291 CCATCCAGCCTTTACACACCATCT
1 CCATCCACCCTTTACACACCATCT
* *
17463315 CCATCTACCCTTTACACTCCAT
1 CCATCCACCCTTTACACACCAT
17463337 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.46, G:0.02, T:0.28
Consensus pattern (24 bp):
CCATCCACCCTTTACACACCATCT
Found at i:17465682 original size:22 final size:22
Alignment explanation
Indices: 17465655--17465696 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17465645 CTAAGGATAT
17465655 TGTTTTGGA-CATGTTTTGAATG
1 TGTTTT-GATCATGTTTTGAATG
*
17465677 TGTTTTGATCGTGTTTTGAA
1 TGTTTTGATCATGTTTTGAA
17465697 CTGGTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.17, C:0.05, G:0.26, T:0.52
Consensus pattern (22 bp):
TGTTTTGATCATGTTTTGAATG
Found at i:17467222 original size:27 final size:27
Alignment explanation
Indices: 17467169--17467221 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
17467159 TGTTTGAAAA
*
17467169 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
17467196 AGGGGTTGTCTAAGTGCTGATTCCCC
1 AGGGGTTG-CTAAGTGCTGATTCCCC
17467222 GGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.30
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:17467349 original size:106 final size:106
Alignment explanation
Indices: 17467088--17467361 Score: 399
Period size: 109 Copynumber: 2.5 Consensus size: 106
17467078 TGTATATAAA
** * *
17467088 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGTGGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGT-GGTGCTAAGTGCGAT-ATCCACCATATCT
17467152 GTTGAAATGTTTGAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
64 GTTGAAATG-TTGAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
*
17467196 AGGGGTTGTCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTG-CTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCATATCT
* *
17467261 TTTGAAATG-TGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 GTTGAAATGTTGAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
* *
17467303 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCA
17467362 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
106 47 0.31
107 40 0.26
108 8 0.05
109 53 0.35
110 4 0.03
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (106 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGATATCCACCATATCTGT
TGAAATGTTGAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:17480927 original size:26 final size:26
Alignment explanation
Indices: 17480897--17480948 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17480887 CACCGCTGAA
*
17480897 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
17480923 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
17480949 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:17481125 original size:104 final size:103
Alignment explanation
Indices: 17480865--17481130 Score: 428
Period size: 103 Copynumber: 2.6 Consensus size: 103
17480855 TAACCGTTAT
* **
17480865 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
17480930 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
17480968 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
17481032 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
64 GAATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
17481073 TGGTGGATCACGCACATAGCACCACCAATGAATC-GGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
17481131 TTATATACAA
Statistics
Matches: 151, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
103 55 0.36
104 47 0.31
105 48 0.32
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:17481507 original size:30 final size:29
Alignment explanation
Indices: 17481461--17481520 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
17481451 TCCACCACCC
17481461 AACTTTTGAAAATTACAATTTTGCCCCCA
1 AACTTTTGAAAATTACAATTTTGCCCCCA
* * *
17481490 AACTTTTGCATAATTACACTTTTGTCCCCA
1 AACTTTTG-AAAATTACAATTTTGCCCCCA
17481520 A
1 A
17481521 GCTCGGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTTGAAAATTACAATTTTGCCCCCA
Found at i:17485378 original size:18 final size:17
Alignment explanation
Indices: 17485357--17485404 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
17485347 AAAATAAAAA
17485357 AACATTTTGAAATTGAAT
1 AACATTTTGAAA-TGAAT
*
17485375 AACAATTTGTAAATGAAT
1 AACATTTTG-AAATGAAT
*
17485393 AATATTTTGAAA
1 AACATTTTGAAA
17485405 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (17 bp):
AACATTTTGAAATGAAT
Found at i:17487580 original size:42 final size:42
Alignment explanation
Indices: 17487521--17487607 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
17487511 AGGACAGCGA
17487521 GATAGTTGTAATTGGGGAACATCAGAACTACTTATCGAATGT
1 GATAGTTGTAATTGGGGAACATCAGAACTACTTATCGAATGT
17487563 GATAGTTGTAATTGGGGAACATCAGAACTACTTATCGAATGT
1 GATAGTTGTAATTGGGGAACATCAGAACTACTTATCGAATGT
17487605 GAT
1 GAT
17487608 TTCTGCATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.31
Consensus pattern (42 bp):
GATAGTTGTAATTGGGGAACATCAGAACTACTTATCGAATGT
Found at i:17493278 original size:18 final size:18
Alignment explanation
Indices: 17493235--17493281 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
17493225 AATAAAAAAG
17493235 ACGTTTTGAAATTGAATA
1 ACGTTTTGAAATTGAATA
*
17493253 ACGATTTGTAAA-TGAATA
1 ACGTTTTG-AAATTGAATA
*
17493271 ATGTTTTGAAA
1 ACGTTTTGAAA
17493282 ACGAACGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (18 bp):
ACGTTTTGAAATTGAATA
Found at i:17511009 original size:44 final size:44
Alignment explanation
Indices: 17510953--17511312 Score: 194
Period size: 44 Copynumber: 7.8 Consensus size: 44
17510943 GGAATTACAG
17510953 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
* ** *
17510997 ATCTTATCTCCCTGAGATTACAGTGGAG-AGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGCGGAGCA-GATTGAAGCT--AGTA
* * *
17511041 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATTGCATCAAATTGAAGCCAG-A
1 ATCTTATCTCCCTGAGA-TTACAGC---G--GA--G---CAGATTGAAGCTAGTA
17511094 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
* * * * ** **
17511139 ATCCTATCTCCATGAGATTACAGTGGAGCGGATT-AAAATAAAA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
** * * * ** *
17511182 GATCTTATCTCTTTGA-AGTTACAACAGAGTAGATCACATCAGATTGAAGTCA
1 -ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGAT-TGA--AG-CT--AGT-A
*
17511234 GGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
* * * *
17511279 ATCCTATCTCCCTGAGATTATAGTGGAGCGGATT
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
17511313 AAAATAAATG
Statistics
Matches: 237, Mismatches: 49, Indels: 60
0.68 0.14 0.17
Matches are distributed among these distances:
43 11 0.05
44 145 0.61
45 4 0.02
46 4 0.02
47 2 0.01
48 2 0.01
49 7 0.03
51 4 0.02
52 27 0.11
53 3 0.01
54 24 0.10
55 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
Found at i:17511304 original size:140 final size:142
Alignment explanation
Indices: 17510951--17511363 Score: 686
Period size: 142 Copynumber: 2.9 Consensus size: 142
17510941 GAGGAATTAC
*
17510951 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* * * *
17511016 ACAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATTGCATCA
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCA
*
17511081 AATTGAAGCCAG
131 GATTGAAGCCAG
*
17511093 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCATGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
17511158 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTTTGAAGTTACAACAGAGTAGATCACATCA
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCA
*
17511223 GATTGAAGTCAG
131 GATTGAAGCCAG
17511235 -G-TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* * * *
17511298 ATAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAATAGAATAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCA
17511363 G
131 G
17511364 GTCTTATCTC
Statistics
Matches: 254, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
140 121 0.48
141 1 0.00
142 132 0.52
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCA
GATTGAAGCCAG
Found at i:17511331 original size:44 final size:44
Alignment explanation
Indices: 17511236--17511337 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
17511226 TGAAGTCAGG
** *
17511236 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAATAA
* * * * *
17511280 TCCTATCTCCCTGAGATTATAGTGGAGCGGATT-AAAATAAATGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAAT-AATAA
*
17511324 TCTTATCTCTCTGA
1 TCTTATCTCCCTGA
17511338 AGTTACAATA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 3 0.06
44 44 0.94
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAATAA
Found at i:17516561 original size:10 final size:10
Alignment explanation
Indices: 17516546--17516578 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
17516536 GGAAAGTGAA
17516546 ATAATAAAAG
1 ATAATAAAAG
*
17516556 ATAATAAATG
1 ATAATAAAAG
17516566 ATAATAAAA-
1 ATAATAAAAG
17516575 ATAA
1 ATAA
17516579 AAATATCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (10 bp):
ATAATAAAAG
Found at i:17516571 original size:20 final size:18
Alignment explanation
Indices: 17516546--17516582 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
17516536 GGAAAGTGAA
17516546 ATAATAAAAGATAATAAATG
1 ATAATAAAA-ATAA-AAATG
17516566 ATAATAAAAATAAAAAT
1 ATAATAAAAATAAAAAT
17516583 ATCATCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
ATAATAAAAATAAAAATG
Found at i:17517696 original size:26 final size:26
Alignment explanation
Indices: 17517657--17517711 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
17517647 CGAAGCTCTA
* *
17517657 GATTAAAGGCTCTTCGTGAGCTTCCT
1 GATTAAAAGCTCTTCGTGAACTTCCT
* *
17517683 GATTAAAAGTTCTTTGTGAACTTCCT
1 GATTAAAAGCTCTTCGTGAACTTCCT
17517709 GAT
1 GAT
17517712 AATGGCTCTT
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:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (26 bp):
GATTAAAAGCTCTTCGTGAACTTCCT
Found at i:17519249 original size:54 final size:54
Alignment explanation
Indices: 17519185--17519538 Score: 354
Period size: 54 Copynumber: 6.6 Consensus size: 54
17519175 ATTCATGAGT
* *
17519185 AAATGATCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
1 AAATTATCAAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* * * * * * *
17519239 AAATAATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACGCTCAAAAGGTA
1 AAATTATCAAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* * * * * * *
17519293 AAATTATCAAAATACCGTCAAAGGGTTAAATTACCAAAATACCCTTGAAGTGTT
1 AAATTATCAAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* ** *
17519347 AAATTACCAAAATACCCTTTAAGGGTAAAATTACTAAAATACCCTCGAAAGGTA
1 AAATTATCAAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* * * ** *
17519401 AAATTA-CTAAAATACCTTCGAAGGATAAAATTACTGAAATACCCTTAAAGGATA
1 AAATTATC-AAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* * ** * **
17519455 AAATTATCGAAATACCCTCGAAGGGTAAAATTGCCGAAATA-CCTCTACTGGTA
1 AAATTATCAAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
* *
17519508 AAATTATCATAATACCC-CTTAAGGGTAAAAT
1 AAATTATCAAAATACCCTC-GAAGGGTAAAAT
17519539 GATCTTTATA
Statistics
Matches: 247, Mismatches: 50, Indels: 7
0.81 0.16 0.02
Matches are distributed among these distances:
52 1 0.00
53 34 0.14
54 211 0.85
55 1 0.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (54 bp):
AAATTATCAAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTA
Found at i:17519492 original size:27 final size:27
Alignment explanation
Indices: 17519194--17519538 Score: 316
Period size: 27 Copynumber: 12.8 Consensus size: 27
17519184 TAAATGATCG
*
17519194 AAATACCCTCGAAGGGTAAAATTACTA
1 AAATACCCTCGAAGGGTAAAATTACCA
* * *
17519221 AAATACCCTCGAAGGGTAAAATAATCG
1 AAATACCCTCGAAGGGTAAAATTACCA
* **
17519248 AAATACCCTCAAAGGGTAAAATTACTG
1 AAATACCCTCGAAGGGTAAAATTACCA
* * * *
17519275 AAATACGCTCAAAAGGTAAAATTATCA
1 AAATACCCTCGAAGGGTAAAATTACCA
* * *
17519302 AAATACCGTCAAAGGGTTAAATTACCA
1 AAATACCCTCGAAGGGTAAAATTACCA
* * *
17519329 AAATACCCTTGAAGTGTTAAATTACCA
1 AAATACCCTCGAAGGGTAAAATTACCA
** *
17519356 AAATACCCTTTAAGGGTAAAATTACTA
1 AAATACCCTCGAAGGGTAAAATTACCA
* *
17519383 AAATACCCTCGAAAGGTAAAATTACTA
1 AAATACCCTCGAAGGGTAAAATTACCA
* * **
17519410 AAATACCTTCGAAGGATAAAATTACTG
1 AAATACCCTCGAAGGGTAAAATTACCA
** * * *
17519437 AAATACCCTTAAAGGATAAAATTATCG
1 AAATACCCTCGAAGGGTAAAATTACCA
* *
17519464 AAATACCCTCGAAGGGTAAAATTGCCG
1 AAATACCCTCGAAGGGTAAAATTACCA
* ** *
17519491 AAATA-CCTCTACTGGTAAAATTATCA
1 AAATACCCTCGAAGGGTAAAATTACCA
* *
17519517 TAATACCC-CTTAAGGGTAAAAT
1 AAATACCCTC-GAAGGGTAAAAT
17519539 GATCTTTATA
Statistics
Matches: 264, Mismatches: 52, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
26 20 0.08
27 244 0.92
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATTACCA
Found at i:17519953 original size:28 final size:27
Alignment explanation
Indices: 17519919--17519971 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
17519909 ACGATACTAT
17519919 ATTGGGTTAAGGCCCACACTGCTACTGA
1 ATTGGGTTAAGGCCCACACTG-TACTGA
*
17519947 ATTGGGTTAAGGCCCTCACTGTACT
1 ATTGGGTTAAGGCCCACACTGTACT
17519972 ATCACTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (27 bp):
ATTGGGTTAAGGCCCACACTGTACTGA
Found at i:17526174 original size:27 final size:26
Alignment explanation
Indices: 17526144--17526231 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 26
17526134 TAAATGACCG
*
17526144 AAATACCCTCGAAGGTTAAAATTACTA
1 AAATACCCTC-AAGGGTAAAATTACTA
17526171 AAATACCCTCAAAGGGTAAAATTACTA
1 AAATACCCTC-AAGGGTAAAATTACTA
*
17526198 AAATACCCAT-AAGGGTAAAATTACTG
1 AAATACCC-TCAAGGGTAAAATTACTA
*
17526224 TAATACCC
1 AAATACCC
17526232 CCTAAATGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 22 0.39
27 33 0.59
28 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.24
Consensus pattern (26 bp):
AAATACCCTCAAGGGTAAAATTACTA
Found at i:17528332 original size:12 final size:12
Alignment explanation
Indices: 17528315--17528340 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17528305 TGTATACTTG
17528315 ATTATATCATGT
1 ATTATATCATGT
17528327 ATTATATCATGT
1 ATTATATCATGT
17528339 AT
1 AT
17528341 AAGACTTGAT
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:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
ATTATATCATGT
Found at i:17530477 original size:10 final size:10
Alignment explanation
Indices: 17530462--17530486 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17530452 TTCTCCTTTC
17530462 TCTTTTTCTT
1 TCTTTTTCTT
17530472 TCTTTTTCTT
1 TCTTTTTCTT
17530482 TCTTT
1 TCTTT
17530487 CTAATTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:17535316 original size:25 final size:25
Alignment explanation
Indices: 17535282--17535331 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
17535272 AAACCTGATT
17535282 CTATGGGTTTAAAATATATACACAA
1 CTATGGGTTTAAAATATATACACAA
17535307 CTATGGGTTTAAAATATATACACAA
1 CTATGGGTTTAAAATATATACACAA
17535332 GGATACCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (25 bp):
CTATGGGTTTAAAATATATACACAA
Found at i:17536469 original size:10 final size:10
Alignment explanation
Indices: 17536454--17536500 Score: 76
Period size: 10 Copynumber: 4.6 Consensus size: 10
17536444 TCCCTAAACT
17536454 TTAAAATTAC
1 TTAAAATTAC
*
17536464 TTAAAATCAC
1 TTAAAATTAC
17536474 TTCAAAATTAC
1 TT-AAAATTAC
17536485 TTAAAATTAC
1 TTAAAATTAC
17536495 TTAAAA
1 TTAAAA
17536501 CCGTACATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (10 bp):
TTAAAATTAC
Found at i:17536475 original size:21 final size:21
Alignment explanation
Indices: 17536451--17536500 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
17536441 TAATCCCTAA
17536451 ACTTTAAAATTACTTAAAATC
1 ACTTTAAAATTACTTAAAATC
* *
17536472 ACTTCAAAATTACTTAAAATT
1 ACTTTAAAATTACTTAAAATC
17536493 AC-TTAAAA
1 ACTTTAAAA
17536501 CCGTACATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
ACTTTAAAATTACTTAAAATC
Found at i:17546631 original size:27 final size:26
Alignment explanation
Indices: 17546579--17547579 Score: 797
Period size: 27 Copynumber: 37.3 Consensus size: 26
17546569 TTAGTAGATG
*
17546579 AAAATGACTAAAATACCCCATAGGGT
1 AAAATGACTGAAATACCCCATAGGGT
*
17546605 AAAATGACTGAAATAACCCCAAAGGGT
1 AAAATGACTGAAAT-ACCCCATAGGGT
* ** *
17546632 AAAATAACCAAAATTCCCTCATAGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
*
17546659 AAAATGACTGAAATACCCCTATAGGGA
1 AAAATGACTGAAATACCCC-ATAGGGT
*
17546686 AAAATGA-TCGAAATACCCTTATAGGGT
1 AAAATGACT-GAAATACCC-CATAGGGT
*
17546713 AAAATGA-TCGAAATACCCTCATAGGAT
1 AAAATGACT-GAAATACCC-CATAGGGT
*
17546740 AAAAT-AATCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATA-CCCCATAGGGT
* * * *
17546767 TAAATGACCGAAACACCCTCATAAGGT
1 AAAATGACTGAAATACCC-CATAGGGT
17546794 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATA-CCCCATAGGGT
* * *
17546821 AAAATGACCGAAGTACCCCTAATA-GAT
1 AAAATGACTGAAATACCCC--ATAGGGT
* ** *
17546848 GAAAATAACCAAAATACCCCTAAAGGGT
1 -AAAATGACTGAAATACCCC-ATAGGGT
* * **
17546876 AAAATGAC-CAAGATACCCTTAATA-CAT
1 AAAATGACTGAA-ATACCC--CATAGGGT
* **
17546903 AAAAATGACTAAAATATTCCATAGGGT
1 -AAAATGACTGAAATACCCCATAGGGT
17546930 AAAATGACTGAAATACCCTCATAGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
* **
17546957 AAAATAACCAAAATACCCCCATAGGGT
1 AAAATGACTGAAATA-CCCCATAGGGT
*
17546984 GAAATGA-TCGAAATACCCCATAGGGT
1 AAAATGACT-GAAATACCCCATAGGGT
* *
17547010 AAAATGACCGAAATAACCCCATAAGGT
1 AAAATGACTGAAAT-ACCCCATAGGGT
* * *
17547037 AAAATGA-TCGAAATACTGCTATAGGGA
1 AAAATGACT-GAAATAC-CCCATAGGGT
17547064 AAAATGA-TCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATA-CCCCATAGGGT
*
17547091 AAAATGATTGAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCC-ATAGGGT
17547118 AAAATGA-TGAAAATACCCCCCATAGGGT
1 AAAATGACTG-AAATA--CCCCATAGGGT
* *
17547146 AAAATGACTGAAATACCCTTAATA-GAT
1 AAAATGACTGAAATACCC--CATAGGGT
*
17547173 GAAAATGACTGGAATACCCCCATAGGGT
1 -AAAATGACTGAAATA-CCCCATAGGGT
*
17547201 AAAATGACTAAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCC-ATAGGGT
17547228 AAAATGA-TCGAAATACCACCATAGGGT
1 AAAATGACT-GAAATACC-CCATAGGGT
* * *
17547255 AAAGTGACTGAAATACCACCATAAGAT
1 AAAATGACTGAAATACC-CCATAGGGT
* *
17547282 AAACTGACTGAAATACCCTCGTAGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
17547309 AAAATGA-TCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATA-CCCCATAGGGT
*
17547336 AAAATGACCGAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCC-ATAGGGT
*
17547363 AAAATGA-TCGAAATACCTCTATAGGGT
1 AAAATGACT-GAAATACC-CCATAGGGT
* ** *
17547390 AAAATAACTGAAATACCCTTGTTGGGT
1 AAAATGACTGAAATACCC-CATAGGGT
*
17547417 AAAATGACTAAAATACCCCCATAGGGT
1 AAAATGACTGAAATA-CCCCATAGGGT
* *
17547444 AGAATGAC-------CCCTATAGGGT
1 AAAATGACTGAAATACCCCATAGGGT
* **
17547463 AGAATGACAAAAATACCCCCATAGGGT
1 AAAATGACTGAAATA-CCCCATAGGGT
*
17547490 AAAATGACTGAAATACCTTCATAGGGT
1 AAAATGACTGAAATACC-CCATAGGGT
* *
17547517 AGAATGA-TCGAAATACCCCTATAGGAT
1 AAAATGACT-GAAATACCCC-ATAGGGT
*
17547544 AGAATGA-TCGAAATACCCCTATAGGGT
1 AAAATGACT-GAAATACCCC-ATAGGGT
17547571 AAAATGACT
1 AAAATGACT
17547580 ATTATAGTCT
Statistics
Matches: 802, Mismatches: 108, Indels: 128
0.77 0.10 0.12
Matches are distributed among these distances:
19 18 0.02
26 95 0.12
27 581 0.72
28 97 0.12
29 11 0.01
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (26 bp):
AAAATGACTGAAATACCCCATAGGGT
Found at i:17546865 original size:28 final size:28
Alignment explanation
Indices: 17546821--17546918 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
17546811 CCCATAGGGT
* *
17546821 AAAATGACCGAAGTACCCCTAATAGATG
1 AAAATGACCAAAATACCCCTAATAGATG
* *
17546849 AAAATAACCAAAATACCCCTAA-AG-GG
1 AAAATGACCAAAATACCCCTAATAGATG
* * * *
17546875 TAAAATGACCAAGATACCCTTAATACATA
1 -AAAATGACCAAAATACCCCTAATAGATG
*
17546904 AAAATGACTAAAATA
1 AAAATGACCAAAATA
17546919 TTCCATAGGG
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
26 1 0.02
27 21 0.38
28 33 0.60
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.18
Consensus pattern (28 bp):
AAAATGACCAAAATACCCCTAATAGATG
Found at i:17547459 original size:19 final size:19
Alignment explanation
Indices: 17547431--17547470 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
17547421 TGACTAAAAT
17547431 ACCCCCATAGGGTAGAATG
1 ACCCCCATAGGGTAGAATG
*
17547450 ACCCCTATAGGGTAGAATG
1 ACCCCCATAGGGTAGAATG
17547469 AC
1 AC
17547471 AAAAATACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (19 bp):
ACCCCCATAGGGTAGAATG
Found at i:17547523 original size:100 final size:100
Alignment explanation
Indices: 17547350--17547550 Score: 255
Period size: 100 Copynumber: 2.0 Consensus size: 100
17547340 TGACCGAAAT
* * * * *
17547350 ACCCCTATAGGGTAAAATGATCGAAATACCTCTATAGGGTAAAATAACTGAAATACCCTTGTTGG
1 ACCCCTATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAATAACTGAAATACCCTTATAGG
*
17547415 GTAAAATGA-CTAAAATACCCCCATAGGGTAGAATG
66 GTAAAATGATC-AAAATACCCCCATAGGATAGAATG
* *
17547450 ACCCCTATAGGGTAGAATGA-CAAAAATACCCCCATAGGGTAAAATGACTGAAATA-CCTTCATA
1 ACCCCTATAGGGTAAAATGATC-AAAATACCCCCATAGGGTAAAATAACTGAAATACCCTT-ATA
* * *
17547513 GGGTAGAATGATCGAAATACCCCTATAGGATAGAATG
64 GGGTAAAATGATCAAAATACCCCCATAGGATAGAATG
17547550 A
1 A
17547551 TCGAAATACC
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
99 5 0.06
100 81 0.93
101 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (100 bp):
ACCCCTATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAATAACTGAAATACCCTTATAGG
GTAAAATGATCAAAATACCCCCATAGGATAGAATG
Found at i:17547550 original size:127 final size:127
Alignment explanation
Indices: 17547319--17547578 Score: 314
Period size: 127 Copynumber: 2.1 Consensus size: 127
17547309 AAAATGATCG
** *
17547319 AAAT-ACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCTCT
1 AAATGACCCCCATAGGGTAAAATGACAAAAATACCCCCATAGGGTAAAATGATCGAAATACCTCT
* * * *
17547383 ATAGGGTAAAATAACTGAAATACCCTTGTTGGGTAAAATGA-CTAAAATACCCCCATAGGGTA
66 ATAGGGTAAAATAACTGAAATACCCCTATAGGATAAAATGATC-AAAATACCCCCATAGGGTA
* * *
17547445 GAATGACCCCTATAGGGTAGAATGACAAAAATACCCCCATAGGGTAAAATGA-CTGAAATACCT-
1 AAATGACCCCCATAGGGTAAAATGACAAAAATACCCCCATAGGGTAAAATGATC-GAAATACCTC
* * * * *
17547508 TCATAGGGTAGAATGA-TCGAAATACCCCTATAGGATAGAATGATCGAAATACCCCTATAGGGTA
65 T-ATAGGGTAAAATAACT-GAAATACCCCTATAGGATAAAATGATCAAAATACCCCCATAGGGTA
17547572 AAATGAC
1 AAATGAC
17547579 TATTATAGTC
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
126 6 0.05
127 106 0.94
128 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (127 bp):
AAATGACCCCCATAGGGTAAAATGACAAAAATACCCCCATAGGGTAAAATGATCGAAATACCTCT
ATAGGGTAAAATAACTGAAATACCCCTATAGGATAAAATGATCAAAATACCCCCATAGGGTA
Found at i:17548014 original size:28 final size:28
Alignment explanation
Indices: 17547978--17548139 Score: 229
Period size: 28 Copynumber: 5.8 Consensus size: 28
17547968 ACTATTACTG
*
17547978 TATTGGGCTAAGGCCTACACTGATTCTA
1 TATTGGGCTAAGGCCCACACTGATTCTA
* *
17548006 TATTAGGCTAAGGCCCACACTG-TTACTG
1 TATTGGGCTAAGGCCCACACTGATT-CTA
17548034 TATTGGGCTAAGGCCCACACTGATTCTA
1 TATTGGGCTAAGGCCCACACTGATTCTA
* * * *
17548062 TATTGGGTTAAGGCCCATACTGATTTTG
1 TATTGGGCTAAGGCCCACACTGATTCTA
17548090 TATTGGGCTAAGGCCCACACTG-TTACTA
1 TATTGGGCTAAGGCCCACACTGATT-CTA
17548118 TATTGGGCTAAGGCCCACACTG
1 TATTGGGCTAAGGCCCACACTG
17548140 TACTGTCACT
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
27 4 0.03
28 112 0.95
29 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACACTGATTCTA
Found at i:17548054 original size:56 final size:56
Alignment explanation
Indices: 17547967--17548145 Score: 265
Period size: 56 Copynumber: 3.2 Consensus size: 56
17547957 TACTGCACTG
* * *
17547967 CACTATTACTGTATTGGGCTAAGGCCTACACTGATTCTATATTAGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTATATTGGGCTAAGGCCCA
*
17548023 CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTATATTGGGTTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTATATTGGGCTAAGGCCCA
* *
17548079 TACTGATT-TTGTATTGGGCTAAGGCCCACACTG-TTACTATATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCACACTGATT-CTATATTGGGCTAAGGCCCA
17548135 CACTG-TACTGT
1 CACTGTTACTGT
17548146 CACTAAATAA
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
54 1 0.01
55 5 0.05
56 103 0.93
57 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (56 bp):
CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTATATTGGGCTAAGGCCCA
Found at i:17548122 original size:84 final size:84
Alignment explanation
Indices: 17547978--17548139 Score: 261
Period size: 84 Copynumber: 1.9 Consensus size: 84
17547968 ACTATTACTG
* *
17547978 TATTGGGCTAAGGCCTACACTGATTCTATATTAGGCTAAGGCCCACACTGTTACTGTATTGGGCT
1 TATTGGGCTAAGGCCCACACTGATTCTATATTAGGCTAAGGCCCACACTGTTACTATATTGGGCT
17548043 AAGGCCCACACTGATTCTA
66 AAGGCCCACACTGATTCTA
* * * * *
17548062 TATTGGGTTAAGGCCCATACTGATTTTGTATTGGGCTAAGGCCCACACTGTTACTATATTGGGCT
1 TATTGGGCTAAGGCCCACACTGATTCTATATTAGGCTAAGGCCCACACTGTTACTATATTGGGCT
17548127 AAGGCCCACACTG
66 AAGGCCCACACTG
17548140 TACTGTCACT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (84 bp):
TATTGGGCTAAGGCCCACACTGATTCTATATTAGGCTAAGGCCCACACTGTTACTATATTGGGCT
AAGGCCCACACTGATTCTA
Found at i:17548165 original size:33 final size:33
Alignment explanation
Indices: 17548123--17548211 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
17548113 TACTATATTG
*
17548123 GGCTAAGGCCCACACTGTACTGTCACTAAATAA
1 GGCTCAGGCCCACACTGTACTGTCACTAAATAA
* *
17548156 GGCTCAGGCCCATACTGTACTGTCATTAAATAA
1 GGCTCAGGCCCACACTGTACTGTCACTAAATAA
*
17548189 GGCTCAGGCCCAGACTGTTACTG
1 GGCTCAGGCCCACACTG-TACTG
17548212 CATGTTGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 46 0.90
34 5 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (33 bp):
GGCTCAGGCCCACACTGTACTGTCACTAAATAA
Found at i:17548871 original size:21 final size:21
Alignment explanation
Indices: 17548838--17548882 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
17548828 AAAGAACCTT
17548838 AAAGTCTTATTTTAGGGCTTAA
1 AAAGTCTTATTTTA-GGCTTAA
*
17548860 AAAGTC-TATTTTAGGCTTGA
1 AAAGTCTTATTTTAGGCTTAA
17548880 AAA
1 AAA
17548883 TCAGTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (21 bp):
AAAGTCTTATTTTAGGCTTAA
Found at i:17548876 original size:20 final size:23
Alignment explanation
Indices: 17548838--17548882 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
17548828 AAAGAACCTT
17548838 AAAGTCTTATTTTAGGGCTT-AA
1 AAAGTCTTATTTTAGGGCTTGAA
17548860 AAAGTC-TATTTTA-GGCTTGAA
1 AAAGTCTTATTTTAGGGCTTGAA
17548881 AA
1 AA
17548883 TCAGTGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.23
21 11 0.50
22 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (23 bp):
AAAGTCTTATTTTAGGGCTTGAA
Found at i:17551372 original size:45 final size:45
Alignment explanation
Indices: 17551280--17551435 Score: 143
Period size: 45 Copynumber: 3.4 Consensus size: 45
17551270 GGAGGACCAG
* * * * * * *
17551280 ACACTTATATATTATATTTGTCGGTTTCTCTGACTAGTGCTGAGC
1 ACACATATATATTATATTTGTCGGTTTCACCGACCAATACTGGGC
* *
17551325 ACACATATATATTGTATTTGTTGGTTTCACCGACCAATACTGGGC
1 ACACATATATATTATATTTGTCGGTTTCACCGACCAATACTGGGC
* * * *
17551370 ACACTTATATATATTATAGTTGTCGATTTCACCAAACAATACATGGG-
1 ACAC--ATATATATTATATTTGTCGGTTTCACCGACCAATAC-TGGGC
* *
17551417 ACACATATAAATAATATTT
1 ACACATATATATTATATTT
17551436 TTGTTGGTAC
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
45 52 0.58
47 34 0.38
48 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (45 bp):
ACACATATATATTATATTTGTCGGTTTCACCGACCAATACTGGGC
Found at i:17553012 original size:22 final size:23
Alignment explanation
Indices: 17552986--17553028 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17552976 CATGTAATGG
17552986 AAACATAG-TATTGAACTTTTGA
1 AAACATAGTTATTGAACTTTTGA
* *
17553008 AAACATCGTTATTGAGCTTTT
1 AAACATAGTTATTGAACTTTT
17553029 TATTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (23 bp):
AAACATAGTTATTGAACTTTTGA
Found at i:17553807 original size:36 final size:34
Alignment explanation
Indices: 17553745--17553812 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 34
17553735 ACAAATTTTC
*
17553745 AATAGGCATGCTTTACATGCAAATCAGAATTTCGT
1 AATAGGCATGCTTAACATGCAAATCAG-ATTTCGT
**
17553780 AATATGGCATGCTTAACATGCGGATCAGATTTC
1 AATA-GGCATGCTTAACATGCAAATCAGATTTC
17553813 ATATATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (34 bp):
AATAGGCATGCTTAACATGCAAATCAGATTTCGT
Found at i:17556982 original size:16 final size:15
Alignment explanation
Indices: 17556957--17556986 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17556947 ATTAAATTAA
17556957 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
17556972 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
17556987 TGCAAGGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:17563806 original size:22 final size:22
Alignment explanation
Indices: 17563765--17563807 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17563755 CACTAAGTCA
*
17563765 ACAGAACGGCTCAACACCATAG
1 ACAGAACGGCTCAAAACCATAG
17563787 ACAGAACGGCT-AAAAGCCATA
1 ACAGAACGGCTCAAAA-CCATA
17563808 AGTACGGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
ACAGAACGGCTCAAAACCATAG
Found at i:17570523 original size:51 final size:51
Alignment explanation
Indices: 17570462--17570615 Score: 285
Period size: 51 Copynumber: 3.1 Consensus size: 51
17570452 CAAGACAGTG
17570462 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17570513 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
17570562 TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17570613 TAT
1 TAT
17570616 GTGACAGGGC
Statistics
Matches: 100, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
49 48 0.48
51 52 0.52
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.32
Consensus pattern (51 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:17570573 original size:100 final size:96
Alignment explanation
Indices: 17570462--17570670 Score: 296
Period size: 100 Copynumber: 2.2 Consensus size: 96
17570452 CAAGACAGTG
*
17570462 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGACAA
* * *
17570527 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
62 GGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
* *
17570562 TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCC
* *
17570627 GAGTGGCCAACGTGATGGATGTGAAAGTGTA
66 GAATGGCCAACGTGATGAATGTGAAAGTGTA
17570658 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
17570671 TCCCGAATGG
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
94 10 0.10
95 1 0.01
96 44 0.44
100 46 0.46
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCC
GAATGGCCAACGTGATGAATGTGAAAGTGTA
Found at i:17570583 original size:49 final size:49
Alignment explanation
Indices: 17570462--17570670 Score: 300
Period size: 49 Copynumber: 4.3 Consensus size: 49
17570452 CAAGACAGTG
17570462 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
17570513 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
17570562 TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * *
17570609 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17570658 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
17570671 TCCCGAATGG
Statistics
Matches: 145, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
47 47 0.32
48 1 0.01
49 50 0.34
51 47 0.32
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:17570839 original size:37 final size:37
Alignment explanation
Indices: 17570789--17570926 Score: 231
Period size: 37 Copynumber: 3.7 Consensus size: 37
17570779 CCGAGCTCTA
* *
17570789 AAGACCCAATGACTACGTGTGGAGATTATGTCCGGGC
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
17570826 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
17570863 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
17570900 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
17570927 CCGTCTGAGC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:17572250 original size:40 final size:40
Alignment explanation
Indices: 17572202--17572402 Score: 258
Period size: 40 Copynumber: 5.0 Consensus size: 40
17572192 GAGAGTGAAA
*
17572202 TATCCGGACTAAGTTCCGAATAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
17572242 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
17572282 TATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* * ** * * *
17572322 TATCCGGGCTAAGTCCCGAAGAGCATTTATGCTGGTGTTA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* * * * * *
17572362 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
17572402 T
1 T
17572403 GTATTCGGGC
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:17572592 original size:25 final size:25
Alignment explanation
Indices: 17572564--17572613 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17572554 TGTAACAACA
*
17572564 AATGAATAGGGGCACTATGTATGTG
1 AATGAATAGAGGCACTATGTATGTG
* * *
17572589 AATGATTAGAGGCACTGTGTGTGTG
1 AATGAATAGAGGCACTATGTATGTG
17572614 CGAATTCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (25 bp):
AATGAATAGAGGCACTATGTATGTG
Found at i:17576623 original size:49 final size:49
Alignment explanation
Indices: 17576563--17576769 Score: 314
Period size: 49 Copynumber: 4.3 Consensus size: 49
17576553 CAAGACAGTG
17576563 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17576612 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
17576661 TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * *
17576708 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17576757 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
17576770 TCCCGAAGGG
Statistics
Matches: 145, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
47 47 0.32
48 1 0.01
49 97 0.67
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:17577026 original size:37 final size:37
Alignment explanation
Indices: 17576888--17577025 Score: 249
Period size: 37 Copynumber: 3.7 Consensus size: 37
17576878 CCGAGCTCTA
17576888 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
17576925 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
17576962 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
17576999 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
17577026 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:17590472 original size:42 final size:42
Alignment explanation
Indices: 17590334--17590560 Score: 203
Period size: 43 Copynumber: 5.4 Consensus size: 42
17590324 CTCGGTGGAT
* * *
17590334 TCAGCACTTAGCTACCACC-TTA-AATTCAGTGATATGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATGATACGGGGAA
* * * *
17590375 TCAACACATAGCAACC-CCTTTCACAATCAAAGATACGATGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACG-GGGAA
* * * *
17590418 TCAGCATTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* *
17590460 TCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATACAGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATC-AATGATAC-GGGGAA
* * * *
17590503 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
*
17590545 TAAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
17590561 CTTCGGGGAA
Statistics
Matches: 149, Mismatches: 27, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.01
41 20 0.13
42 57 0.38
43 60 0.40
44 10 0.07
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
Found at i:17590476 original size:85 final size:85
Alignment explanation
Indices: 17590328--17590561 Score: 312
Period size: 85 Copynumber: 2.8 Consensus size: 85
17590318 CCGTTGCTCG
* * * *
17590328 GTGGATTCAGCACTTAGCTACCACC-TTAAATTCAGTGATATGGGGAATCAACACATAGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCC
17590392 CTTTCACAATCAAAGATAC-
66 CTTTCACAATCAAAGATACA
* *
17590411 GATGGAATCAGCATTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACC
1 G-TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
*
17590476 CCTTTCACAATCAAATATACA
65 CCTTTCACAATCAAAGATACA
* * * * * *
17590497 GTGGAATCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCAGGGAATAAGCACTTAGCAACC
1 GTGGAATCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAATCAGCACATAGCAACC
17590561 C
65 C
17590562 TTCGGGGAAT
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
83 1 0.01
84 21 0.16
85 108 0.82
86 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24
Consensus pattern (85 bp):
GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCC
CTTTCACAATCAAAGATACA
Found at i:17593343 original size:37 final size:37
Alignment explanation
Indices: 17593293--17593371 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17593283 TTATTACGAA
* * *
17593293 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17593330 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17593367 GTCTT
1 GTCTT
17593372 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17593640 original size:47 final size:47
Alignment explanation
Indices: 17593490--17593868 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
17593480 CCCTTCGGGA
* * * * * * *
17593490 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17593537 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17593583 CTTATCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17593630 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17593677 CTTATCACCTATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17593724 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17593771 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17593818 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17593865 CTTA
1 CTTA
17593869 CTATCATTTC
Statistics
Matches: 306, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 39 0.13
47 267 0.87
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17611061 original size:13 final size:13
Alignment explanation
Indices: 17611039--17611068 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17611029 AGATTAAGTT
17611039 AAAA-CGATCTCA
1 AAAACCGATCTCA
17611051 AAAACCGATCTCA
1 AAAACCGATCTCA
17611064 AAAAC
1 AAAAC
17611069 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.53, C:0.27, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAACCGATCTCA
Found at i:17611778 original size:20 final size:20
Alignment explanation
Indices: 17611755--17611802 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
17611745 TTGCACTATA
17611755 GTGTCTCTGTATACACTTCG
1 GTGTCTCTGTATACACTTCG
* * * *
17611775 GTGTCCCTTTTTTCACTTCG
1 GTGTCTCTGTATACACTTCG
*
17611795 GTGCCTCT
1 GTGTCTCT
17611803 TTTATGCATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.08, C:0.29, G:0.19, T:0.44
Consensus pattern (20 bp):
GTGTCTCTGTATACACTTCG
Found at i:17616878 original size:14 final size:15
Alignment explanation
Indices: 17616854--17616884 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
17616844 TCAAGCTATG
17616854 TTTACAAGTTATGTT
1 TTTACAAGTTATGTT
17616869 TTTA-AAGTTATGTT
1 TTTACAAGTTATGTT
17616883 TT
1 TT
17616885 ACGCGTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTACAAGTTATGTT
Found at i:17616884 original size:13 final size:14
Alignment explanation
Indices: 17616841--17616886 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
17616831 TAAGACTCTA
*
17616841 TTTT-CAAGCTATG
1 TTTTACAAGTTATG
17616854 -TTTACAAGTTATG
1 TTTTACAAGTTATG
17616867 TTTTTA-AAGTTATG
1 -TTTTACAAGTTATG
17616881 TTTTAC
1 TTTTAC
17616887 GCGTCCTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 8 0.29
15 4 0.14
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (14 bp):
TTTTACAAGTTATG
Found at i:17620046 original size:38 final size:38
Alignment explanation
Indices: 17619994--17620070 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
17619984 TTTGTGTTTT
17619994 TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
1 TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
*
17620032 TCTTTGCTATTTTCTTAACGCGTCTTTTATAAAATAAC
1 TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
17620070 T
1 T
17620071 AAATTATAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (38 bp):
TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
Found at i:17621242 original size:13 final size:13
Alignment explanation
Indices: 17621224--17621248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17621214 CTACAAATGC
17621224 TTGTTTAGTGAAA
1 TTGTTTAGTGAAA
17621237 TTGTTTAGTGAA
1 TTGTTTAGTGAA
17621249 CTAAGCAATT
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:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (13 bp):
TTGTTTAGTGAAA
Found at i:17622977 original size:28 final size:28
Alignment explanation
Indices: 17622915--17622978 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
17622905 TGATTTCACG
*
17622915 AAAAACGGACCATTCCGGTAAATTATTA
1 AAAAAAGGACCATTCCGGTAAATTATTA
* * * *
17622943 CATAAAGGCCCATTTCGGTAAATT-TTGA
1 AAAAAAGGACCATTCCGGTAAATTATT-A
17622971 AAAAAAGG
1 AAAAAAGG
17622979 GCTTTTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (28 bp):
AAAAAAGGACCATTCCGGTAAATTATTA
Found at i:17623179 original size:17 final size:18
Alignment explanation
Indices: 17623143--17623180 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
17623133 GTCTTTTATG
* *
17623143 TATATTCTTGTATGTTTT
1 TATATTCTTGGATATTTT
17623161 TATATT-TTGGATATTTT
1 TATATTCTTGGATATTTT
17623178 TAT
1 TAT
17623181 GTAAATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.66
Consensus pattern (18 bp):
TATATTCTTGGATATTTT
Found at i:17623188 original size:21 final size:21
Alignment explanation
Indices: 17623164--17623203 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17623154 ATGTTTTTAT
*
17623164 ATTTTGGATATTTTTATGTAA
1 ATTTTGGATAATTTTATGTAA
*
17623185 ATTTTGTATAATTTTATGT
1 ATTTTGGATAATTTTATGT
17623204 GTTTTCCTTG
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (21 bp):
ATTTTGGATAATTTTATGTAA
Found at i:17629515 original size:23 final size:23
Alignment explanation
Indices: 17629489--17629558 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 23
17629479 CCATCAGATC
17629489 CTGTACAT-GTATGCTCACACGAG
1 CTGTA-ATCGTATGCTCACACGAG
*
17629512 CTGTGAATCGATATGCTCACATGAG
1 CTGT-AATCG-TATGCTCACACGAG
17629537 CTGTAAATCAGTATGCTCACAC
1 CTGT-AATC-GTATGCTCACAC
17629559 AAATTGTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 6 0.15
24 2 0.05
25 31 0.77
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (23 bp):
CTGTAATCGTATGCTCACACGAG
Found at i:17629526 original size:25 final size:25
Alignment explanation
Indices: 17629497--17629558 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
17629487 TCCTGTACAT
*
17629497 GTATGCTCACACGAGCTGTGAATC-
1 GTATGCTCACACGAGCTGTAAATCA
*
17629521 GATATGCTCACATGAGCTGTAAATCA
1 G-TATGCTCACACGAGCTGTAAATCA
17629547 GTATGCTCACAC
1 GTATGCTCACAC
17629559 AAATTGTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCA
Found at i:17630068 original size:65 final size:65
Alignment explanation
Indices: 17629964--17630093 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
17629954 GATCTATACG
* * *
17629964 GATAAATTGAACTTAATTCAATATATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAAAT
1 GATAAATTCAACTCAATTCAATAGATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAAAT
*
17630029 GATAAATTCAACTCAATTCAATAGATATTTCATTCAATTTAACCCAAATTAATTTTTGGAAAAAT
1 GATAAATTCAACTCAATTCAATAGATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAAAT
17630094 TATTATTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (65 bp):
GATAAATTCAACTCAATTCAATAGATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAAAT
Found at i:17634746 original size:29 final size:28
Alignment explanation
Indices: 17634714--17634960 Score: 142
Period size: 29 Copynumber: 8.5 Consensus size: 28
17634704 TCGGCTATCG
17634714 ATTATGAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGT-ACGACCATCA
17634743 ATTATTG-AAAGGGATGGTGACGACCATCGA
1 ATTA-TGAAAAGGGATGGT-ACGACCATC-A
* ** * *
17634773 A-TATGAAAAGGGATAGCTTTGGCTATCA
1 ATTATGAAAAGGGAT-GGTACGACCATCA
* * ** ** *
17634801 AATGTGAAAAGGGATAACTTTGGCCATCGA
1 ATTATGAAAAGGGAT-GGTACGACCATC-A
* * * * *
17634831 A-TATGAAAAGGGATAGCTTCGGCTATCG
1 ATTATGAAAAGGGAT-GGTACGACCATCA
*
17634859 ATTATGAAAAGGGATGGAAACGACCATCA
1 ATTATGAAAAGGGATGG-TACGACCATCA
** *
17634888 GCTATGAAAAGGGATGGTGACGACCATCG
1 ATTATGAAAAGGGATGGT-ACGACCATCA
*
17634917 ATTAATGAAAAGGGATGGTTTCGACCATCGA
1 ATT-ATGAAAAGGGATGG-TACGACCATC-A
*
17634948 A-TATGAAAGGGGA
1 ATTATGAAAAGGGA
17634961 CAGTTACAAC
Statistics
Matches: 178, Mismatches: 28, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
28 6 0.03
29 139 0.78
30 31 0.17
31 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (28 bp):
ATTATGAAAAGGGATGGTACGACCATCA
Found at i:17634791 original size:87 final size:85
Alignment explanation
Indices: 17634688--17634960 Score: 237
Period size: 87 Copynumber: 3.1 Consensus size: 85
17634678 ACCTCAAATA
*
17634688 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAATTATTG-AA
1 ATGAAAAGGGATAGCTTCGGCTATC-AATATGAAAAGGGATGGTGACGACCATCAATTA-TGAAA
*
17634752 AGGGATGGTGACGACCATCGAAT
64 AGGGATGGT-TCGACCATCGAAT
* * ** ** *
17634775 ATGAAAAGGGATAGCTTTGGCTATCAAATGTGAAAAGGGATAACT-TTGGCCATCGAA-TATGAA
1 ATGAAAAGGGATAGCTTCGGCTATC-AATATGAAAAGGGAT-GGTGACGACCATC-AATTATGAA
* * * *
17634838 AAGGGATAGCTTCGGCTATCGATT
63 AAGGGAT-GGTTCGACCATCGAAT
* *** * * * *
17634862 ATGAAAAGGGATGGAAACGACCATCAGCTATGAAAAGGGATGGTGACGACCATCGATTAATGAAA
1 ATGAAAAGGGATAGCTTCGGCTATCA-ATATGAAAAGGGATGGTGACGACCATCAATT-ATGAAA
17634927 AGGGATGGTTTCGACCATCGAAT
64 AGGGATGG-TTCGACCATCGAAT
*
17634950 ATGAAAGGGGA
1 ATGAAAAGGGA
17634961 CAGTTACAAC
Statistics
Matches: 143, Mismatches: 34, Indels: 17
0.74 0.18 0.09
Matches are distributed among these distances:
86 5 0.03
87 100 0.70
88 38 0.27
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (85 bp):
ATGAAAAGGGATAGCTTCGGCTATCAATATGAAAAGGGATGGTGACGACCATCAATTATGAAAAG
GGATGGTTCGACCATCGAAT
Found at i:17634973 original size:59 final size:58
Alignment explanation
Indices: 17634710--17634974 Score: 193
Period size: 58 Copynumber: 4.6 Consensus size: 58
17634700 AGCTTCGGCT
* * * * **
17634710 ATCGATTATGAAAAGGGATGGTGACGACCATCAATTATTG-AAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATAGTTACGACCATCGATTA-TGAAAAGGGATGGAAACGACC
* * * * * * *
17634768 ATCGAATATGAAAAGGGATAGCTT-TGGCTATCAAATGTGAAAAGGGAT---AACTTTGGCC
1 ATCGAATATGAAAAGGGATAG-TTACGACCATCGATTATGAAAAGGGATGGAAAC---GACC
* *
17634826 ATCGAATATGAAAAGGGATAGCTT-CGGCTATCGATTATGAAAAGGGATGGAAACGACC
1 ATCGAATATGAAAAGGGATAG-TTACGACCATCGATTATGAAAAGGGATGGAAACGACC
* * * ***
17634884 ATC-AGCTATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTCGACC
1 ATCGA-ATATGAAAAGGGATAGTTACGACCATCGATT-ATGAAAAGGGATGGAAACGACC
* * *
17634943 ATCGAATATGAAAGGGGACAGTTACAACCATC
1 ATCGAATATGAAAAGGGATAGTTACGACCATC
17634975 ATTTAGCACA
Statistics
Matches: 166, Mismatches: 29, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
55 2 0.01
57 4 0.02
58 112 0.67
59 44 0.27
60 1 0.01
61 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATAGTTACGACCATCGATTATGAAAAGGGATGGAAACGACC
Found at i:17641924 original size:50 final size:50
Alignment explanation
Indices: 17641852--17642073 Score: 237
Period size: 50 Copynumber: 4.3 Consensus size: 50
17641842 TATCCTAGAT
** * * *
17641852 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCTCAGAC
* ** *
17641902 ATGGCCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCTCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCTCAGAC
* * * *
17641952 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGTCATGTCTTAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCTCAGAC
* * * *
17642002 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGTCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAACGCCATGTCTCAGAC
17642058 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
17642074 TCTCATTCCC
Statistics
Matches: 143, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
50 109 0.76
53 2 0.01
56 32 0.22
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCTCAGAC
Found at i:17645017 original size:7 final size:7
Alignment explanation
Indices: 17645005--17645037 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
17644995 TACAGCTGCA
17645005 TCTTTGT
1 TCTTTGT
17645012 TCTTTGT
1 TCTTTGT
17645019 TCTTTGT
1 TCTTTGT
*
17645026 TCTTCGT
1 TCTTTGT
17645033 TCTTT
1 TCTTT
17645038 TTTACAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.18, G:0.12, T:0.70
Consensus pattern (7 bp):
TCTTTGT
Found at i:17646233 original size:15 final size:14
Alignment explanation
Indices: 17646205--17646231 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17646195 ATGCATCTTT
17646205 TTTTTTAATATTTA
1 TTTTTTAATATTTA
17646219 TTTTTTAATATTT
1 TTTTTTAATATTT
17646232 TACTATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:17648696 original size:19 final size:19
Alignment explanation
Indices: 17648672--17648710 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17648662 AAAAACAATG
*
17648672 AAAAGAACAAGGAAAAAAT
1 AAAAGAACAAGCAAAAAAT
**
17648691 AAAAGATTAAGCAAAAAAT
1 AAAAGAACAAGCAAAAAAT
17648710 A
1 A
17648711 CCTAATTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.13, T:0.10
Consensus pattern (19 bp):
AAAAGAACAAGCAAAAAAT
Found at i:17651391 original size:21 final size:22
Alignment explanation
Indices: 17651367--17651411 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
17651357 TATTTAAACC
*
17651367 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
17651388 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
17651410 AA
1 AA
17651412 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:17657136 original size:15 final size:15
Alignment explanation
Indices: 17657116--17657147 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17657106 TAAATTAGTT
17657116 CAAACTATAGAAACA
1 CAAACTATAGAAACA
*
17657131 CAAACTGTAGAAACA
1 CAAACTATAGAAACA
17657146 CA
1 CA
17657148 GTTCGGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.09, T:0.12
Consensus pattern (15 bp):
CAAACTATAGAAACA
Found at i:17657164 original size:12 final size:12
Alignment explanation
Indices: 17657147--17657172 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17657137 GTAGAAACAC
17657147 AGTTCGGACTAT
1 AGTTCGGACTAT
17657159 AGTTCGGACTAT
1 AGTTCGGACTAT
17657171 AG
1 AG
17657173 AAACACAAAC
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:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (12 bp):
AGTTCGGACTAT
Found at i:17657293 original size:20 final size:19
Alignment explanation
Indices: 17657265--17657306 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
17657255 TACAGAATAA
17657265 AATAAAC-AACACATTTCATC
1 AATAAACAAACA-ATTTCA-C
*
17657285 AATACACAAACAATTTCAC
1 AATAAACAAACAATTTCAC
17657304 AAT
1 AAT
17657307 CAATTGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAAACAAACAATTTCAC
Found at i:17661760 original size:28 final size:28
Alignment explanation
Indices: 17661718--17661778 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
17661708 CTATTCAGTA
* * *
17661718 ACAGT-ACAGTGTGGGTCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAACCCAAT
17661745 ACAGTAACAATGTGGGCCTTAACCCAAT
1 ACAGTAACAATGTGGGCCTTAACCCAAT
*
17661773 ATAGTA
1 ACAGTA
17661779 TCGGTGCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAACCCAAT
Found at i:17661915 original size:26 final size:26
Alignment explanation
Indices: 17661886--17661966 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
17661876 AACACACCAA
*
17661886 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
17661912 TATCGCAGCGAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
17661938 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
17661964 TAT
1 TAT
17661967 ACTTCTTCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:17662233 original size:27 final size:27
Alignment explanation
Indices: 17662132--17662242 Score: 159
Period size: 27 Copynumber: 4.1 Consensus size: 27
17662122 GTATAACAGC
* *
17662132 CATTTTACCCTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTAATTCGGT
* *
17662159 CATTTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTAATTCGGT
*
17662186 CATTTTACCTTATGGGGGTAATTCGGT
1 CATTTTACCCTATGGGGGTAATTCGGT
* *
17662213 TATTTTACCCTATGGGGGTAATTCAGT
1 CATTTTACCCTATGGGGGTAATTCGGT
17662240 CAT
1 CAT
17662243 ACCAGTGTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.41
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTAATTCGGT
Found at i:17663122 original size:18 final size:18
Alignment explanation
Indices: 17663099--17663140 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
17663089 TTCGGTAATC
*
17663099 AAAGAAG-AGAGAAAGTAA
1 AAAGAAGAAGAAAAAG-AA
17663117 AAAGAAAGAAGAAAAAGAA
1 AAAG-AAGAAGAAAAAGAA
17663136 AAAGA
1 AAAGA
17663141 TGAGGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (18 bp):
AAAGAAGAAGAAAAAGAA
Found at i:17668152 original size:18 final size:19
Alignment explanation
Indices: 17668117--17668154 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
17668107 TCTTGTGTTA
* *
17668117 TCTTTTATTCTTCTGTTGC
1 TCTTTCATTCTTCAGTTGC
17668136 TCTTTCATT-TTCAGTTGC
1 TCTTTCATTCTTCAGTTGC
17668154 T
1 T
17668155 TCCATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.21, G:0.11, T:0.61
Consensus pattern (19 bp):
TCTTTCATTCTTCAGTTGC
Found at i:17669452 original size:28 final size:28
Alignment explanation
Indices: 17669405--17669490 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 28
17669395 AGGAGAGTTA
*
17669405 ACAGCTCGCCTTA-ATAGAGCTCGTATGC
1 ACAGCTCGCC-TACATGGAGCTCGTATGC
*
17669433 ACAGCTCGCCTACATGGAGCAT-GTATATC
1 ACAGCTCGCCTACATGGAGC-TCGTAT-GC
* * *
17669462 ATAGCTCGCCAACATGGAGCTCGCATGC
1 ACAGCTCGCCTACATGGAGCTCGTATGC
17669490 A
1 A
17669491 TTACTCGTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
27 2 0.04
28 23 0.48
29 23 0.48
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (28 bp):
ACAGCTCGCCTACATGGAGCTCGTATGC
Found at i:17674634 original size:29 final size:29
Alignment explanation
Indices: 17674592--17674672 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
17674582 TAAACTATGG
* *
17674592 GAAGCGAAAATCAAAGAACCACTTCAATA
1 GAAGAGAAAATCAAGGAACCACTTCAATA
* **
17674621 GAAGAGGAAATCAAGGAACTTCTTCAATA
1 GAAGAGAAAATCAAGGAACCACTTCAATA
* * *
17674650 TAAGATAAAATCAAGGAATCACT
1 GAAGAGAAAATCAAGGAACCACT
17674673 ACACCTAAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (29 bp):
GAAGAGAAAATCAAGGAACCACTTCAATA
Found at i:17680034 original size:19 final size:19
Alignment explanation
Indices: 17680010--17680046 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17680000 AGTATGGGGT
17680010 ACACAATTAGGGTTAGAAA
1 ACACAATTAGGGTTAGAAA
17680029 ACACAATTAGGGTTAGAA
1 ACACAATTAGGGTTAGAA
17680047 TGCTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
ACACAATTAGGGTTAGAAA
Found at i:17689496 original size:18 final size:18
Alignment explanation
Indices: 17689473--17689511 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
17689463 GTAGAAAAGT
17689473 ATGTAT-AATAAAATTAAA
1 ATGTATAAATAAAA-TAAA
17689491 ATGTATAAAATAAAATAAA
1 ATGTAT-AAATAAAATAAA
17689510 AT
1 AT
17689512 ACAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
ATGTATAAATAAAATAAA
Found at i:17692394 original size:110 final size:109
Alignment explanation
Indices: 17692143--17692421 Score: 366
Period size: 110 Copynumber: 2.6 Consensus size: 109
17692133 ATATTTGGCA
* * * * *
17692143 ATTTGGTTAAACGAG--AAATCGAAACCCAGCATCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* * * *
17692205 TAAAATATTGCCTTATTTTGAAATTTTTGAAAGGATATTTAGCT
66 CAAAACATTGCCATATTTTGAAATTTTTGAAAGGATATTAAGCT
* * * * *
17692249 ATTTGGCTGAGCGAGAAAAATCAACACCCAGCACCTTAGGGTATGTTTTCTCGAATTTTCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
17692314 CAAAACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGTT
66 CAAAACATTGCCATATTTTGAAATTTTTG-AAAGGATATTAAGCT
* * *
17692359 ATTTGGTTGAACGAGAAAAATTGACACCCAGCACCTTAGGGCATGTTTTTTCAAATTTCCAAA
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAA
17692422 TGCCAAATAT
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
106 12 0.08
108 23 0.16
109 43 0.29
110 68 0.47
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCATATTTTGAAATTTTTGAAAGGATATTAAGCT
Found at i:17693039 original size:3 final size:3
Alignment explanation
Indices: 17693031--17693073 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
17693021 AAAACCAATG
17693031 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17693074 AATTGCTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17694541 original size:85 final size:86
Alignment explanation
Indices: 17694446--17694646 Score: 230
Period size: 85 Copynumber: 2.4 Consensus size: 86
17694436 TTCGTTGTTT
* * * * *
17694446 TAATCTGCTCCGCTGCAACTTCAGGGAGATAAGAC-TGGATGCGATCTGCTCTATTGCAACTTCA
1 TAATCCGCTCCACTGCAACTTCAGGGAGATAAGACATGGACGCGATCTACTCTACTGCAACTTCA
*
17694510 GAGAGATAGGATC-TGTGGTTC
66 GAGAGATAAGATCAT-TGGTTC
* * * *
17694531 TAATCCGCTCCACTGCAACTTCAGGAAGAT-AGGCATTGACGCGATCTACTCTACTGTAACTTCA
1 TAATCCGCTCCACTGCAACTTCAGGGAGATAAGACATGGACGCGATCTACTCTACTGCAACTTCA
* *
17694595 GAGAGATAAGATCATTTGTTT
66 GAGAGATAAGATCATTGGTTC
* *
17694616 TAATCCGTTCCACTGTAA-TCTCAGGGAGATA
1 TAATCCGCTCCACTGCAACT-TCAGGGAGATA
17694647 GGATTACTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
84 4 0.04
85 92 0.95
86 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (86 bp):
TAATCCGCTCCACTGCAACTTCAGGGAGATAAGACATGGACGCGATCTACTCTACTGCAACTTCA
GAGAGATAAGATCATTGGTTC
Found at i:17694645 original size:44 final size:44
Alignment explanation
Indices: 17694574--17695303 Score: 254
Period size: 44 Copynumber: 16.8 Consensus size: 44
17694564 CATTGACGCG
* * * * *
17694574 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTTGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCATTTGCTTCA
* * * * *
17694618 ATCCGTTCCACTGTAATCTCAGGGAGATAGGATTACTAT-CTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCA-TTTGCTTCA
* * *
17694662 ATCTGCTCCGCTGTAATCTCAGGGAGATAAG---ATTTGAC-ACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTG-CTTCA
* * ** * ** *
17694703 ATCTACTCTACTGTAA-CTTCAGAAAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCATTTGCTTCA
* * * * * *
17694747 ATCCGCTCCACTGTAATCTCAGGAAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTGCTTCA
** * *
17694791 ATCTGCTCCGTTGTAATCTCAGGGAGATAAGATC---TGAC-ACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTG-CTTCA
* * * * ** *
17694832 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCATTTGCTTCA
* * * * * *
17694876 ATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTGCTTCA
** * *
17694920 ATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGAAATT-CTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC---ATTTGCTTCA
* * * * * * *
17694966 GTCTGTTCCACTGTAATCTCAAGGAAATAAGA-C--CTGAC-GCT
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTG-CTTCA
* ** * * * *** *
17695007 ATCTACTCTGCTATAA-CTTCAGAGAGATAAGATCCTTCATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCATTTGCTTCA
** * * * *
17695051 ATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTGCTTCA
* * * *
17695095 ATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCTAAAATT-CTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC---ATTTGCTTCA
* * * * * * *
17695141 GTCTGTTCCACTGTAATCTCAAGGAAATAAGA-C--CTGAC-GCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTG-CTTCA
* ** * *
17695182 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATC-TTT-CATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCATTTGC--TTCA
* * * * *
17695226 ATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAT-CTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCA-TTTGCTTCA
**
17695270 ATCTGCTCCGTTGTAATCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
17695304 TGACACGATC
Statistics
Matches: 480, Mismatches: 164, Indels: 84
0.66 0.23 0.12
Matches are distributed among these distances:
40 8 0.02
41 102 0.21
42 6 0.01
43 1 0.00
44 288 0.60
45 8 0.02
46 63 0.13
47 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTGCTTCA
Found at i:17694953 original size:129 final size:129
Alignment explanation
Indices: 17694567--17694956 Score: 681
Period size: 129 Copynumber: 3.0 Consensus size: 129
17694557 AGATAGGCAT
* * * *
17694567 TGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTGTTTTAATCCGTTCCACTGT
1 TGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
* *
17694632 AATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
*
17694696 TGACACGATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
1 TGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
* *
17694761 AATCTCAGGAAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATC
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
17694825 TGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
1 TGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
* *
17694890 AATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATC
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
17694954 TGA
1 TGA
17694957 AATTCTTCGG
Statistics
Matches: 247, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 247 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (129 bp):
TGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
Found at i:17695026 original size:175 final size:175
Alignment explanation
Indices: 17694802--17695306 Score: 850
Period size: 175 Copynumber: 2.9 Consensus size: 175
17694792 TCTGCTCCGT
* * * * *
17694802 TGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC
1 TGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCC
* *
17694867 TTTATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCT
66 TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
17694932 GTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCAC
131 GTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCAC
* *
17694977 TGTAATCTCAAGGAAATAAGACCTGACGCTATCTACTCTGCTATAACTTCAGAGAGATAAGATCC
1 TGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCC
* *
17695042 TTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
66 TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
* *
17695107 GTAATCTCAGGGAGATAAAATCTAAAATTCTTCGGTCTGTTCCAC
131 GTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCAC
17695152 TGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGAT-C
1 TGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCC
* * *
17695216 TTTCATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGT
66 TTT-ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGC
17695281 TGTAATCTCAGGGAGATAAGATCTGA
130 TGTAATCTCAGGGAGATAAGATCTGA
17695307 CACGATCTAC
Statistics
Matches: 307, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
174 3 0.01
175 304 0.99
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (175 bp):
TGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCC
TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
GTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCAC
Found at i:17695034 original size:87 final size:86
Alignment explanation
Indices: 17694920--17695216 Score: 291
Period size: 87 Copynumber: 3.4 Consensus size: 86
17694910 ACTAGCTTCA
* *
17694920 ATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
1 ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCT-AAATTCTTCGGTCTGTTCCACTGTAATCT
17694985 CAAGGAAATAAGACCTGACGCT
65 CAAGGAAATAAGACCTGACGCT
* ** ** ***
17695007 ATCTACTCTGCTATAA-CTTCAGAGAGATAAGATCCTTCATT-TT-AATCCACTCCACTGTAATC
1 ATCTACTCTGCTGTAATC-TCAGAGAGATAAGAT-CTAAATTCTTCGGTCTGTTCCACTGTAATC
* * * *
17695069 TCAGGGAGATAGGA--TTACTAGCTT
64 TCAAGGAAATAAGACCTGAC--GC-T
* * * *
17695093 CAATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCTAAAATTCTTCGGTCTGTTCCACTGTAAT
1 --ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCT-AAATTCTTCGGTCTGTTCCACTGTAAT
*
17695158 CTCAAGGAAATAAGACCTGACGCG
63 CTCAAGGAAATAAGACCTGACGCT
17695182 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCT
1 ATCTACTCTGCTGTAATC-TCAGAGAGATAAGATCT
17695217 TTCATTTTAA
Statistics
Matches: 161, Mismatches: 35, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
83 3 0.02
85 27 0.17
86 5 0.03
87 62 0.39
88 31 0.19
89 3 0.02
90 27 0.17
92 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (86 bp):
ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCTAAATTCTTCGGTCTGTTCCACTGTAATCTC
AAGGAAATAAGACCTGACGCT
Found at i:17695464 original size:87 final size:87
Alignment explanation
Indices: 17695350--17695606 Score: 302
Period size: 87 Copynumber: 2.9 Consensus size: 87
17695340 AGATCATTTA
* * * *
17695350 TTCAATCAGCAT-CACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCATTGTTAAT
1 TTCAATCAGC-TCCACTGCAACCGATGGAGACAAAGCTTTGTTTTTGATCTGCTTCACTGTTAAC
17695414 GCAGGAAGGCAAGATCTGCTATC
65 GCAGGAAGGCAAGATCTGCTATC
* * ** *
17695437 TTCAATCAGCTCCACTACAACCGATGGAGACAATGCTTTGTTTTCAATCTGCTTCGCTGTTAACG
1 TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTTGATCTGCTTCACTGTTAACG
* ** *
17695502 TAGGAAGGCCTGATTTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
17695524 ATCAACCAGTTCCACCGCAACCGATGGAGACAAAGC-TTGTATCTTTGATCTGCTTCACTGTCAA
1 TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGT-T-TTTGATCTGCTTCACTGTTAA
*
17695588 GGCAGGAAGGCAAGATCTG
64 CGCAGGAAGGCAAGATCTG
17695607 TTGTCTTTGA
Statistics
Matches: 140, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
86 5 0.04
87 104 0.74
88 31 0.22
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTTGATCTGCTTCACTGTTAACG
CAGGAAGGCAAGATCTGCTATC
Found at i:17695639 original size:45 final size:45
Alignment explanation
Indices: 17695565--17695650 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
17695555 AAAGCTTGTA
* * *
17695565 TCTTTGATCTGCTTCACTGTCAAGGCAGGAAGGCAAGATCTGTTG
1 TCTTTGATCTGCTTCACAGTCAAGACAGGAAAGCAAGATCTGTTG
*
17695610 TCTTTGATCTGCTTCGCAGTC-AGTACAGGAAAGCAAGATCT
1 TCTTTGATCTGCTTCACAGTCAAG-ACAGGAAAGCAAGATCT
17695651 AATGTCTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (45 bp):
TCTTTGATCTGCTTCACAGTCAAGACAGGAAAGCAAGATCTGTTG
Found at i:17696764 original size:21 final size:21
Alignment explanation
Indices: 17696738--17696784 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17696728 GGTATAACAG
*
17696738 GATCACCACATGCCCTAATCT
1 GATCACCACATGCCCCAATCT
** *
17696759 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
17696780 GATCA
1 GATCA
17696785 ATATTTGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:17697786 original size:14 final size:14
Alignment explanation
Indices: 17697769--17697801 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17697759 TTTCCTTTTC
17697769 TTTTTCATTCT-GAT
1 TTTTTCA-TCTAGAT
17697783 TTTTTCATCTAGAT
1 TTTTTCATCTAGAT
17697797 TTTTT
1 TTTTT
17697802 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTTTCATCTAGAT
Found at i:17697800 original size:1 final size:1
Alignment explanation
Indices: 17697796--17697826 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
17697786 TTCATCTAGA
*
17697796 TTTTTTTTTTTTTTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17697827 CATTTTGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:17697832 original size:10 final size:9
Alignment explanation
Indices: 17697796--17697832 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
17697786 TTCATCTAGA
17697796 TTTTTT-TT
1 TTTTTTCTT
17697804 TTTTTT-TT
1 TTTTTTCTT
17697812 TTTTTTCTT
1 TTTTTTCTT
*
17697821 TTTTTTCAT
1 TTTTTTCTT
17697830 TTT
1 TTT
17697833 GATCTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.03, C:0.05, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:17697893 original size:7 final size:6
Alignment explanation
Indices: 17697875--17697935 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
17697865 TTTTGTTTTC
* * * *
17697875 TTTTTA TTTTGA TTTTTGA TTTTTTCA TTTTCA TTTTGA CTTTGA TTTTGA
1 TTTTGA TTTTGA -TTTTGA --TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
17697926 TTTTGA TTTT
1 TTTTGA TTTT
17697936 TCTTTTTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
6 36 0.75
7 6 0.12
8 6 0.12
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:17700184 original size:27 final size:27
Alignment explanation
Indices: 17700154--17700304 Score: 194
Period size: 27 Copynumber: 5.6 Consensus size: 27
17700144 ATATTGAGTC
* * * *
17700154 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17700181 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17700208 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17700236 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
17700263 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17700290 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17700305 GTACAATTTA
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17700246 original size:55 final size:55
Alignment explanation
Indices: 17700154--17700304 Score: 198
Period size: 55 Copynumber: 2.8 Consensus size: 55
17700144 ATATTGAGTC
* * * *
17700154 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
** ** *
17700208 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
*
17700263 CGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCT
17700305 GTACAATTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 35 0.41
55 50 0.59
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAT
Found at i:17708341 original size:27 final size:27
Alignment explanation
Indices: 17708311--17708488 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17708301 ATATTGAGTC
* * * *
17708311 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17708338 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17708365 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17708393 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17708420 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17708447 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17708474 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17708489 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Done.