Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 40 of 91
Found at i:13812141 original size:14 final size:13
Alignment explanation
Indices: 13812123--13812174 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
13812113 AAATTCAAGT
13812123 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
*
13812136 ATAAAAGAAAGAAA
1 A-AAAAAAAAGAAA
*
13812150 CAAAAAAAAAAAAA
1 -AAAAAAAAAGAAA
13812164 AAACAAAAAAG
1 AAA-AAAAAAG
13812175 GAAAGGAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 4 0.12
14 27 0.84
15 1 0.03
ACGTcount: A:0.87, C:0.04, G:0.08, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:13813463 original size:2 final size:2
Alignment explanation
Indices: 13813456--13813489 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13813446 TAGATAGATA
13813456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13813490 GTAGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13815663 original size:15 final size:16
Alignment explanation
Indices: 13815643--13815680 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
13815633 TAAATAACAT
13815643 ATATAAAATAAAA-AA
1 ATATAAAATAAAATAA
13815658 ATATAAAATAAAATAA
1 ATATAAAATAAAATAA
*
13815674 AAATAAA
1 ATATAAA
13815681 GAAGAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
ATATAAAATAAAATAA
Found at i:13818167 original size:15 final size:15
Alignment explanation
Indices: 13818147--13818175 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13818137 AAAATGATAA
13818147 AGTCAATGCATGCTC
1 AGTCAATGCATGCTC
13818162 AGTCAATGCATGCT
1 AGTCAATGCATGCT
13818176 TTAACTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (15 bp):
AGTCAATGCATGCTC
Found at i:13819397 original size:20 final size:20
Alignment explanation
Indices: 13819368--13819411 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13819358 TAATGGTTAC
13819368 TTTTAAGTTAGTTT-TTTTAA
1 TTTTAAGTTA-TTTCTTTTAA
*
13819388 TTTTATGTTATTTCTTTTAA
1 TTTTAAGTTATTTCTTTTAA
13819408 TTTT
1 TTTT
13819412 TTTATTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTAAGTTATTTCTTTTAA
Found at i:13823170 original size:29 final size:29
Alignment explanation
Indices: 13823133--13823192 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
13823123 TCAAACCTAG
13823133 TAAGCTTATAAGAACTTTCTCCATAACCT
1 TAAGCTTATAAGAACTTTCTCCATAACCT
13823162 TAAGCTTATAAGAACTTTCTCCATAACCT
1 TAAGCTTATAAGAACTTTCTCCATAACCT
13823191 TA
1 TA
13823193 GCATCAGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (29 bp):
TAAGCTTATAAGAACTTTCTCCATAACCT
Found at i:13825535 original size:18 final size:18
Alignment explanation
Indices: 13825512--13825550 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13825502 AATAGCTAAG
*
13825512 GAAAATAACAA-GCAATAA
1 GAAAATAA-AATGAAATAA
13825530 GAAAATAAAATGAAATAA
1 GAAAATAAAATGAAATAA
13825548 GAA
1 GAA
13825551 CATGTGCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.69, C:0.05, G:0.13, T:0.13
Consensus pattern (18 bp):
GAAAATAAAATGAAATAA
Found at i:13830020 original size:18 final size:18
Alignment explanation
Indices: 13829983--13830021 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13829973 AATAGCCAAG
*
13829983 GAAAATAAAAAGCAACAA
1 GAAAATAAAAAGAAACAA
* *
13830001 GAAAATAAAATGAAATAA
1 GAAAATAAAAAGAAACAA
13830019 GAA
1 GAA
13830022 CACGTGCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.13, T:0.10
Consensus pattern (18 bp):
GAAAATAAAAAGAAACAA
Found at i:13832317 original size:20 final size:20
Alignment explanation
Indices: 13832292--13832337 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
13832282 TTTTGGCCCC
*
13832292 ATTTGACTTATTGGAGAATA
1 ATTTGACTAATTGGAGAATA
* *
13832312 ATTTGACTAATTGGAGTATG
1 ATTTGACTAATTGGAGAATA
13832332 ATTTGA
1 ATTTGA
13832338 GGTTTAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (20 bp):
ATTTGACTAATTGGAGAATA
Found at i:13833592 original size:172 final size:170
Alignment explanation
Indices: 13833153--13833928 Score: 863
Period size: 171 Copynumber: 4.5 Consensus size: 170
13833143 NNNNNNNNNN
* * *
13833153 GAGGCAAATATTCAATTATAATATGTTCTAACAAAAAATGT-AAAACATTCAACTTAAAATCGTT
1 GAGGCAAATATTCAATTATAATATGTTTTAACAAAAAATGTAAAAAAATTCAACTTAAAATCATT
* * * *
13833217 TGTGAGATTGTAAAGGCATTTAAATCGAGTAATAGGCTTCCGAAGGCATCAATGACTATAAA-CA
66 TGTGAGATTATAAAAGCATTTAAATCGAGTAATAGGCTTCCGAAGGCATGAATGACTATAAATGA
* * *
13833281 GACTTTTCTTTTCCATGGATGGCTTTCT-CTTCACGATTCTC
131 -ACTTTTCTTGTCAATGGATGGCTTT-TGCTTCACGTTTCTC
* * * * * * * *
13833322 AAGGTAAACAATT-AATTATAATTTGTTTTAATCGAAAAATGTAAAAACAATACAAATTAAATTC
1 GAGGCAAA-TATTCAATTATAATATGTTTTAA-CAAAAAATGTAAAAA-AATTCAACTTAAAATC
* * * * * * *
13833386 AATTATGAGATTATAAAACCATTGAGAA-CGAGTAATAAGGCTTTCGTAGGCATGAGTGACTATA
63 ATTTGTGAGATTATAAAAGCATTTA-AATCGAGTAAT-AGGCTTCCGAAGGCATGAATGACTATA
*
13833450 AATGAACTTTT-TCTGTCAATGGATGGCTTTTGCTTCGCGTTTCTC
126 AATGAACTTTTCT-TGTCAATGGATGGCTTTTGCTTCACGTTTCTC
* *
13833495 -AGGGCAAATGTTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAAATTCAACTTAAAATCA
1 GA-GGCAAATATTCAATTATAATATGTTTTAACAAAAAATGT-AAAAAAATTCAACTTAAAATCA
* * *
13833559 TTTGTGAGATTATAAAAGCATTTAAATCGAGTAATAGGCTTCCGAAGGAATGAATGACTACAAAC
64 TTTGTGAGATTATAAAAGCATTTAAATCGAGTAATAGGCTTCCGAAGGCATGAATGACTATAAAT
* * * *
13833624 GGACTTTTCTTATCAATGGATGGCTTTCGCTTCACGTTACTC
129 GAACTTTTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTC
* * * * * * *
13833666 GAGGCAAACAATCAATTATAATCTGTTTTACTCAAAAAATGTAAAAAAATTCAAATTAAATTCAA
1 GAGGCAAATATTCAATTATAATATGTTTTA-ACAAAAAATGTAAAAAAATTCAACTTAAAATCAT
* * ** * * *
13833731 TTATGAGATTATAAAA-CGATTTAAAGCGAGTAATAAGGCTTTTGCAGACAT-AACTGGCTATAA
65 TTGTGAGATTATAAAAGC-ATTTAAATCGAGTAAT-AGGCTTCCGAAGGCATGAA-TGACTATAA
13833794 ATGAAC-TTTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTC
127 ATGAACTTTTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTC
* * *
13833837 GAGGTAAATATTCAATTATAATATGTTCTAACAAAAAATGT-AAAACATTCAACTTAAAATCATT
1 GAGGCAAATATTCAATTATAATATGTTTTAACAAAAAATGTAAAAAAATTCAACTTAAAATCATT
* *
13833901 TGTGATATTATAAAGGCATTTAAATCGA
66 TGTGAGATTATAAAAGCATTTAAATCGA
13833929 AAGTTCATGA
Statistics
Matches: 503, Mismatches: 84, Indels: 40
0.80 0.13 0.06
Matches are distributed among these distances:
169 63 0.13
170 24 0.05
171 201 0.40
172 128 0.25
173 86 0.17
174 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (170 bp):
GAGGCAAATATTCAATTATAATATGTTTTAACAAAAAATGTAAAAAAATTCAACTTAAAATCATT
TGTGAGATTATAAAAGCATTTAAATCGAGTAATAGGCTTCCGAAGGCATGAATGACTATAAATGA
ACTTTTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTC
Found at i:13836470 original size:42 final size:42
Alignment explanation
Indices: 13836439--13836589 Score: 230
Period size: 42 Copynumber: 3.6 Consensus size: 42
13836429 ATTTATGCGT
* *
13836439 ACTCCCACTCACATATAGCCAGGTCAGCAACGGCTTATGTGC
1 ACTCCCACTCACACATAGCCGGGTCAGCAACGGCTTATGTGC
* *
13836481 ACTCCCACTCACACATAGCTGGGTCAGCAATGGCTTATGTGC
1 ACTCCCACTCACACATAGCCGGGTCAGCAACGGCTTATGTGC
* *
13836523 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGC
1 ACTCCCACTCACACATAGCCGGGTCAGCAACGGCTTATGTGC
* *
13836565 ACTCCTACTCGCACATAGCCGGGTC
1 ACTCCCACTCACACATAGCCGGGTC
13836590 CACATCAACA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 101 1.00
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.22
Consensus pattern (42 bp):
ACTCCCACTCACACATAGCCGGGTCAGCAACGGCTTATGTGC
Found at i:13837247 original size:42 final size:42
Alignment explanation
Indices: 13837201--13837281 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
13837191 TTCATAGCCG
13837201 GGTCAACAACGGCTTATGTGCACTCCTACTCGCACATAGTCA
1 GGTCAACAACGGCTTATGTGCACTCCTACTCGCACATAGTCA
**
13837243 GGTCAGTAACGGCTTATGTGCACTCCTACTCGCACATAG
1 GGTCAACAACGGCTTATGTGCACTCCTACTCGCACATAG
13837282 CCGGGTCCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (42 bp):
GGTCAACAACGGCTTATGTGCACTCCTACTCGCACATAGTCA
Found at i:13837853 original size:699 final size:699
Alignment explanation
Indices: 13836494--13837894 Score: 2590
Period size: 699 Copynumber: 2.0 Consensus size: 699
13836484 CCCACTCACA
* * * *
13836494 CATAGCTGGGTCAGCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTT
1 CATAGCCGGGTCAACAACGGCTTATGTGCACTCCTACTCGCACATAGCCAGGTCAGCAACGGCTT
13836559 ATGTGCACTCCTACTCGCACATAGCCGGGTCCACATCAACATGCAAAGAAGCATCCAATGCATAT
66 ATGTGCACTCCTACTCGCACATAGCCGGGTCCACATCAACATGCAAAGAAGCATCCAATGCATAT
* * *
13836624 CATGCATTTTATCATATTGTGATCACCAATAAACCATTGTATAGTACATTTTCACAATATAAAAT
131 CACGCATTTTATCATATTGTGATAACCAATAAACCATTGTATAGCACATTTTCACAATATAAAAT
13836689 CATTTTACTAAAAGCTTGTTCCCAAGGTACATTTTCTAAGACAAGTTGGATAGAATCTTTCATAT
196 CATTTTACTAAAAGCTTGTTCCCAAGGTACATTTTCTAAGACAAGTTGGATAGAATCTTTCATAT
*
13836754 TCCCCAAAACAAGTTTGAAATGCAAGTCCACTCACCGGTATTCATTGAGCCTTTAGCCGACTCTT
261 TCCCCAAAACAAGTTTGAAATGCAAGTCCACTCACCGGTATTCATTGAGCCTTTAACCGACTCTT
* *
13836819 AATTCCCCTAATGATCCACTTGGGGTGATGGGGCTTTGTTAGCACCTACCATCAAATTAACATTT
326 AATTCCCCTAATGATCCAATTGGGGTGATGGGGCTTTGTTAGCACCTACCACCAAATTAACATTT
13836884 CCATAATGTCAATTTACATACTATAAACCCTAAAAGCTATCTTTAAGCTAGCTTTCAATTGCCAT
391 CCATAATGTCAATTTACATACTATAAACCCTAAAAGCTATCTTTAAGCTAGCTTTCAATTGCCAT
13836949 TTAAATGGCCATCCATTTTCACTTTCCTATCACTCCAAAGTGAATTAACAATCTCAATAACAAAA
456 TTAAATGGCCATCCATTTTCACTTTCCTATCACTCCAAAGTGAATTAACAATCTCAATAACAAAA
*
13837014 TATTCACAAATCAAATCTCTAGTCATTCTCAACACTTAAAACCTAATACTAGTTTACTACTCACC
521 TATTCACAAATCAAATCTCTAGTCATTCTCAACACTTAAAACCCAATACTAGTTTACTACTCACC
13837079 TTGATAGCTTTGTAACTTTGAACTTCTTTCCAAAAGCTCTCAAGCTATTAATAAAGCTTCCTCTT
586 TTGATAGCTTTGTAACTTTGAACTTCTTTCCAAAAGCTCTCAAGCTATTAATAAAGCTTCCTCTT
*
13837144 TCTTTCTCTAAAACACCTAACTAGTGAGAGATTATGGAAACAAGATTTT
651 TCTCTCTCTAAAACACCTAACTAGTGAGAGATTATGGAAACAAGATTTT
* *
13837193 CATAGCCGGGTCAACAACGGCTTATGTGCACTCCTACTCGCACATAGTCAGGTCAGTAACGGCTT
1 CATAGCCGGGTCAACAACGGCTTATGTGCACTCCTACTCGCACATAGCCAGGTCAGCAACGGCTT
13837258 ATGTGCACTCCTACTCGCACATAGCCGGGTCCACATCAACATGCAAAGAAGCATCCAATGCATAT
66 ATGTGCACTCCTACTCGCACATAGCCGGGTCCACATCAACATGCAAAGAAGCATCCAATGCATAT
13837323 CACGCATTTTATCATATTGTGATAA-CACATAAACCATTGTATAGCACATTTTCACAATATAAAA
131 CACGCATTTTATCATATTGTGATAACCA-ATAAACCATTGTATAGCACATTTTCACAATATAAAA
* **
13837387 TCATTTTACTAAAAGCTTGTTCCTAAGGTATGTTTTCTAAGACAAGTTGGATAGAATCTTTCATA
195 TCATTTTACTAAAAGCTTGTTCCCAAGGTACATTTTCTAAGACAAGTTGGATAGAATCTTTCATA
*
13837452 TTCCCCAAAACAAGTTTGAAATGCAAGTCCACTCACCGGTATTCGTTGAGCCTTTAACCGACTCT
260 TTCCCCAAAACAAGTTTGAAATGCAAGTCCACTCACCGGTATTCATTGAGCCTTTAACCGACTCT
13837517 TAATTCCCCTAATGATCCAATTGGGGTGATGGGGCTTTGTTAGCACCTACCACCAAATTAACATT
325 TAATTCCCCTAATGATCCAATTGGGGTGATGGGGCTTTGTTAGCACCTACCACCAAATTAACATT
*
13837582 TCCATAATGTCAATTTACATACTATAAACCCTAAAAGCTATCTTTTAGCTAGCTTTCAATTGCCA
390 TCCATAATGTCAATTTACATACTATAAACCCTAAAAGCTATCTTTAAGCTAGCTTTCAATTGCCA
*
13837647 TTTAAATGGCCATCCATTTTCACTTTCCTATCACTCCAAAGTGAATTAATAATCTCAACT-ACAA
455 TTTAAATGGCCATCCATTTTCACTTTCCTATCACTCCAAAGTGAATTAACAATCTCAA-TAACAA
13837711 AATATTCACAAATCAAATCTCTAGTCATTCTCAACACTTAAAACCCAATACTAGTTTACTACTCA
519 AATATTCACAAATCAAATCTCTAGTCATTCTCAACACTTAAAACCCAATACTAGTTTACTACTCA
13837776 CCTTGATAGCTTTGTAACTTTGAACTTCTTTCCAAAAGCTCTCAAGCTATTAATAAAGCTTCCTC
584 CCTTGATAGCTTTGTAACTTTGAACTTCTTTCCAAAAGCTCTCAAGCTATTAATAAAGCTTCCTC
13837841 TTTCTCTCTCTAAAACACCTAACTAGTGAGAGATTATGGAAACAAGATTTT
649 TTTCTCTCTCTAAAACACCTAACTAGTGAGAGATTATGGAAACAAGATTTT
13837892 CAT
1 CAT
13837895 CATTTTTAAG
Statistics
Matches: 680, Mismatches: 20, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
698 2 0.00
699 677 1.00
700 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (699 bp):
CATAGCCGGGTCAACAACGGCTTATGTGCACTCCTACTCGCACATAGCCAGGTCAGCAACGGCTT
ATGTGCACTCCTACTCGCACATAGCCGGGTCCACATCAACATGCAAAGAAGCATCCAATGCATAT
CACGCATTTTATCATATTGTGATAACCAATAAACCATTGTATAGCACATTTTCACAATATAAAAT
CATTTTACTAAAAGCTTGTTCCCAAGGTACATTTTCTAAGACAAGTTGGATAGAATCTTTCATAT
TCCCCAAAACAAGTTTGAAATGCAAGTCCACTCACCGGTATTCATTGAGCCTTTAACCGACTCTT
AATTCCCCTAATGATCCAATTGGGGTGATGGGGCTTTGTTAGCACCTACCACCAAATTAACATTT
CCATAATGTCAATTTACATACTATAAACCCTAAAAGCTATCTTTAAGCTAGCTTTCAATTGCCAT
TTAAATGGCCATCCATTTTCACTTTCCTATCACTCCAAAGTGAATTAACAATCTCAATAACAAAA
TATTCACAAATCAAATCTCTAGTCATTCTCAACACTTAAAACCCAATACTAGTTTACTACTCACC
TTGATAGCTTTGTAACTTTGAACTTCTTTCCAAAAGCTCTCAAGCTATTAATAAAGCTTCCTCTT
TCTCTCTCTAAAACACCTAACTAGTGAGAGATTATGGAAACAAGATTTT
Found at i:13839804 original size:20 final size:20
Alignment explanation
Indices: 13839747--13839809 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
13839737 TATATACCCA
*
13839747 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
13839766 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
13839786 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
13839806 TCAT
1 TCAT
13839810 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:13839856 original size:43 final size:43
Alignment explanation
Indices: 13839808--13839926 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
13839798 TCACCAGCTC
** * *
13839808 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
13839851 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
13839894 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
13839927 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:13842746 original size:41 final size:42
Alignment explanation
Indices: 13842669--13842798 Score: 181
Period size: 42 Copynumber: 3.1 Consensus size: 42
13842659 CACATGGCTA
*
13842669 GGTCATCATCGGCTTATGCGCACTCCCATTCGCACATAGCCG
1 GGTCATCATCGGCTTATGCGCACTCCCACTCGCACATAGCCG
* * * *
13842711 GGTCATCATTGGCTTAT-CGCACTCCCACTCTCACATAGTCT
1 GGTCATCATCGGCTTATGCGCACTCCCACTCGCACATAGCCG
* *
13842752 GGTCATCATCGACTTATGCGCACTCCTACTCGCACATAGCCG
1 GGTCATCATCGGCTTATGCGCACTCCCACTCGCACATAGCCG
*
13842794 TGTCA
1 GGTCA
13842799 ATATCATTAC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
41 35 0.47
42 40 0.53
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCATCATCGGCTTATGCGCACTCCCACTCGCACATAGCCG
Found at i:13844795 original size:181 final size:180
Alignment explanation
Indices: 13844239--13845878 Score: 1489
Period size: 181 Copynumber: 9.1 Consensus size: 180
13844229 ATTTTGATAG
* *
13844239 ATAATCATTTATAAGATTATAAATGAATTAATACATCATTTAAAGTGAGCAACAAAGCTTT-TGA
1 ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCT-A
* * * * * * *
13844303 TGGCATCATTAACTCAAAT-TTTTCTTTGTTGTCAATGGATAGCATCCACTTAACGTTTCTCGAT
65 TGGCATGATTAACTTAAATGGTCT-TTTCTTGTCAAT-GATAGCATCCACTTAACGTTTCCCAAT
* * * ** * *
13844367 GCAAACATCCAATTATCATAGGATTTAAACATA-AAGTACAAATATTTCGATTT
128 GCAAACATCCAATTATGATAGG-TTTTAACAAACAACAACAAAGATTTCAATTT
* * * * * *
13844420 ACAGTCATTTATAATATTGTAAGTGAATTAATATATCATTTAAATTGAGTAACAAAGCTTT-TAA
1 ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCT-A
* * * * * * * * *
13844484 TGTCATGATTAACATAAAATGGTCTTTTCTTCTCAATGGAGAGCATCAACTTCACATTTCCTAAA
65 TGGCATGATTAAC-TTAAATGGTCTTTTCTTGTCAAT-GATAGCATCCACTTAACGTTTCCCAAT
* * * * * *** **
13844549 GCAAACATCCAACTATGATAGGTTTGAACCAAGAAAAACTTTGATTTTGATTT
128 GCAAACATCCAATTATGATAGGTTTTAACAAACAACAACAAAGATTTCAATTT
* * * *
13844602 ATAACCATTTATAAGATTATAAATGAACTAATATATCATTTGAAGTGAGAAACAAAGCTTTCTAT
1 ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCTAT
* * * *
13844667 GGGATGATTAACTTAAATGGTCTTTTCTTGTCAATAGTTGGCATCCACTTAACGTTTCACAATGC
66 GGCATGATTAACTTAAATGGTCTTTTCTTGTCAAT-GATAGCATCCACTTAACGTTTCCCAATGC
* * * * *
13844732 AAACATCTAATTCTGATAGGTTTTAACAAACAACAGCAAAAATTAT-AACTT
130 AAACATCCAATTATGATAGGTTTTAACAAACAACAACAAAGATT-TCAATTT
* * **
13844783 ACAATCATTTATAAGATTATAAATGAATTAATATATCAGTTAAAGCAAGTAACAAAGCTTT-TGA
1 ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCT-A
** * * * * *
13844847 TCTCATCATTAACTGAAAATGGTCTTTTCTTATCAATGGAGAGCATCCACTTTA-GTTTCCCAAT
65 TGGCATGATTAACT-TAAATGGTCTTTTCTTGTCAAT-GATAGCATCCACTTAACGTTTCCCAAT
* ** * * * *
13844911 GCAAACATCCAATTATGATAGGTTTTATCCTACAACCACAAATATTTTAGTTT
128 GCAAACATCCAATTATGATAGGTTTTAACAAACAACAACAAAGATTTCAATTT
* ** * * *
13844964 ATAACCATTTATAAGATTATAAATTCATTAATATTTCATTTATAA-TAAGTAACAAAGCTTTCAA
1 ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTA-AAGTGAGTAACAAAGCTTTCTA
* * * * ***
13845028 T-GCATGATTAACTTAAAATGATCTTTTCTTGTCAATATATAGCATCCACTTCACATTTTTGAAT
65 TGGCATGATTAACTT-AAATGGTCTTTTCTTGTCAAT-GATAGCATCCACTTAACGTTTCCCAAT
* ** **
13845092 GCAAACTTCCAATTATGATAGGTTTTAAACAAGGAA-AACATTGATTTCAATTT
128 GCAAACATCCAATTATGATAGGTTTT-AACAAACAACAACAAAGATTTCAATTT
** * ** * * *
13845145 ATAA-CTATTTATAAGATTATAAATGAACCAATATAACATTTAAAGCAAGCAATAAAGATTTCTA
1 ATAATC-ATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCTA
* * * * * * **
13845209 TGGCATGTTTAACTTAAATTGTCTTTTCTTGTCATTGGATAGCACCCACTTCATGTTTCTGAAAT
65 TGGCATGATTAACTTAAATGGTCTTTTCTTGTCAAT-GATAGCATCCACTTAACGTTTC-CCAAT
* * * **
13845274 -CGAGCATCCAATTATGATAGGTTTTAACTAACAACAACAAAGATTTTGATTT
128 GCAAACATCCAATTATGATAGGTTTTAACAAACAACAACAAAGATTTCAATTT
* * * * * *
13845326 ATAATCATTTATAAGATTATAAATGAATTAGTACATCATGTCAAGCGACTAACAAAGCTTTC-AT
1 ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCTAT
* * *
13845390 GGCATGATTGACTTAAAATGGTCTTTTCTTATCAATGGATAGCATCCACTTCAA-ATTTCCCAAT
66 GGCATGATTAACTT-AAATGGTCTTTTCTTGTCAAT-GATAGCATCCACTT-AACGTTTCCCAAT
* * * * * **
13845454 GCAATCATCCGATTATGATAGGTTTTAACCAAGAAAAACATTGATTTCAATTT
128 GCAAACATCCAATTATGATAGGTTTTAACAAACAACAACAAAGATTTCAATTT
* * * ** * *
13845507 ATAACCATTTGTAAGATTATAAATGAA-TAATATAACATTTAAAGCAAGCAATAAAGCTTTCTAT
1 ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCTAT
* * * * * * **
13845571 GGCATGTTTAACTTAAATTGTCTTTTCTTGTCATTAAATAGCATCCACTTAATGTTTCCTAAACC
66 GGCATGATTAACTTAAATGGTCTTTTCTTGTCAAT-GATAGCATCCACTTAACGTTTCCCAATGC
* *
13845636 AAACATCCAA-TATGATAGGTTTTAACTAACAACAACAAAGATTTCGATTT
130 AAACATCCAATTATGATAGGTTTTAACAAACAACAACAAAGATTTCAATTT
* * * *
13845686 ATAATAATTTATAAGATTATAAATGAATTAGTATATCATTTAAA-TGACTAACAAAGCTTTCGAT
1 ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCTAT
* * *
13845750 GGCATGATTAACTTAGAATGGTTTTTTATTGTCAATGAATAGCATCCACTTTACGTTTCCCAATG
66 GGCATGATTAACTTA-AATGGTCTTTTCTTGTCAATG-ATAGCATCCACTTAACGTTTCCCAATG
* * * * * ***
13845815 CAATCATCCAATTATGATAGATTTTAACTAAGAAAAACATTCATTTCAATTT
129 CAAACATCCAATTATGATAGGTTTTAACAAACAACAACAAAGATTTCAATTT
13845867 ATAA-CTATTTAT
1 ATAATC-ATTTAT
13845879 GTCAAGCTCG
Statistics
Matches: 1167, Mismatches: 263, Indels: 58
0.78 0.18 0.04
Matches are distributed among these distances:
179 88 0.08
180 204 0.17
181 685 0.59
182 187 0.16
183 3 0.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (180 bp):
ATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAAGTGAGTAACAAAGCTTTCTAT
GGCATGATTAACTTAAATGGTCTTTTCTTGTCAATGATAGCATCCACTTAACGTTTCCCAATGCA
AACATCCAATTATGATAGGTTTTAACAAACAACAACAAAGATTTCAATTT
Found at i:13845095 original size:362 final size:361
Alignment explanation
Indices: 13844163--13845850 Score: 1699
Period size: 362 Copynumber: 4.7 Consensus size: 361
13844153 GGGTACTACA
* * *
13844163 ATCCACTTCATGTTT-CTGAATGGCAAAACATCCAATTATGATTGGTTTTAAACATAA-AGTC--
1 ATCCACTTCATGTTTCCT-AA-AGC-AAACATCCAATTATGATAGGTTTT-AAC-TAACA-ACAA
* ** * *
13844224 CTAAGATTTTGATAGATAATCATTTATAAGATTATAAATGAATTAATACATCATTTAAAGTGAGC
60 CAAAGATTTTGATTTATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAA-TGAGT
* * * * ** * *
13844289 AACAAAGCTTTTGATGGCATCATTAACTCAAATTTTTC-TTTGTTGTCAATGGATAGCATCCACT
124 AACAAAGCTTTCGATGGCATGATTAACTTAAAATGGTCTTTTCTTGTCAATAGATAGCATCCACT
* * * * ** * *
13844353 TAACGTTTCTCGATGCAAACATCCAATTATCATAGGATTTAAACATAA-AGTACAAATATTTCGA
189 TAACGTTTCCCAATGCAAACATCCAATTATGATAGG-TTTTAACA-AAGAAAACAAAGATTTCAA
* * * * * *** *
13844417 TTTACAGTCATTTATAATATTGTAAGTGAATTAATATATCATTTAAATTGAGTAACAAAGCTTT-
252 TTTACAATCATTTATAAGATTATAAATGAATTAATATAACATTTAAAGCAAGCAACAAAGCTTTC
* *
13844481 TAATGTCATGATTAACATAAAATGGTCTTTTCTTCTCAATGGAGAGC
317 T-ATGGCATGATTAAC-TAAAATGGTCTTTTCTTGTCAATGGAGAGC
* ** * * * * * ***
13844528 ATCAACTTCACATTTCCTAAAGCAAACATCCAACTATGATAGGTTTGAACCAAGAAAAACTTTGA
1 ATCCACTTCATGTTTCCTAAAGCAAACATCCAATTATGATAGGTTTTAACTAACAACAACAAAGA
* * * *
13844593 TTTTGATTTATAACCATTTATAAGATTATAAATGAACTAATATATCATTTGAAGTGAGAAACAAA
66 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTAATATATCATTT-AAATGAGTAACAAA
* * * *
13844658 GCTTTCTATGGGATGATTAACTT-AAATGGTCTTTTCTTGTCAATAGTTGGCATCCACTTAACGT
130 GCTTTCGATGGCATGATTAACTTAAAATGGTCTTTTCTTGTCAATAGATAGCATCCACTTAACGT
* * * * * * *
13844722 TTCACAATGCAAACATCTAATTCTGATAGGTTTTAACAAACAACAGCAAAAATTAT-AACTTACA
195 TTCCCAATGCAAACATCCAATTATGATAGGTTTTAACAAAGAA-AACAAAGATT-TCAATTTACA
* * * **
13844786 ATCATTTATAAGATTATAAATGAATTAATATATCAGTTAAAGCAAGTAACAAAGCTTT-TGATCT
258 ATCATTTATAAGATTATAAATGAATTAATATAACATTTAAAGCAAGCAACAAAGCTTTCT-ATGG
* *
13844850 CATCATTAACTGAAAATGGTCTTTTCTTATCAATGGAGAGC
322 CATGATTAACT-AAAATGGTCTTTTCTTGTCAATGGAGAGC
* * * * * *
13844891 ATCCACTTTA-GTTTCCCAATGCAAACATCCAATTATGATAGGTTTTATCCT-ACAACCACAAAT
1 ATCCACTTCATGTTTCCTAAAGCAAACATCCAATTATGATAGGTTTTA-ACTAACAACAACAAAG
* ** * *
13844954 ATTTT-AGTTTATAACCATTTATAAGATTATAAATTCATTAATATTTCATTTATAATAAGTAACA
65 ATTTTGA-TTTATAATCATTTATAAGATTATAAATGAATTAATATATCATTTA-AATGAGTAACA
* * * *
13845018 AAGCTTTCAAT-GCATGATTAACTTAAAATGATCTTTTCTTGTCAATATATAGCATCCACTTCAC
128 AAGCTTTCGATGGCATGATTAACTTAAAATGGTCTTTTCTTGTCAATAGATAGCATCCACTTAAC
* *** * * ** *
13845082 ATTTTTGAATGCAAACTTCCAATTATGATAGGTTTTAAACAAGGAAAACATTGATTTCAATTTAT
193 GTTTCCCAATGCAAACATCCAATTATGATAGGTTTT-AACAAAGAAAACAAAGATTTCAATTTAC
** * *
13845147 AA-CTATTTATAAGATTATAAATGAACCAATATAACATTTAAAGCAAGCAATAAAGATTTCTATG
257 AATC-ATTTATAAGATTATAAATGAATTAATATAACATTTAAAGCAAGCAACAAAGCTTTCTATG
* * * * *
13845211 GCATGTTTAACTTAAATTGTCTTTTCTTGTCATTGGATAGC
321 GCATGATTAACTAAAATGGTCTTTTCTTGTCAATGGAGAGC
* * * *
13845252 ACCCACTTCATGTTT-CTGAAATCGAGCATCCAATTATGATAGGTTTTAACTAACAACAACAAAG
1 ATCCACTTCATGTTTCCT-AAAGCAAACATCCAATTATGATAGGTTTTAACTAACAACAACAAAG
* * * ** *
13845316 ATTTTGATTTATAATCATTTATAAGATTATAAATGAATTAGTACATCATGTCAAGCGACTAACAA
65 ATTTTGATTTATAATCATTTATAAGATTATAAATGAATTAATATATCAT-TTAAATGAGTAACAA
* * *
13845381 AGCTTTC-ATGGCATGATTGACTTAAAATGGTCTTTTCTTATCAATGGATAGCATCCACTTCAA-
129 AGCTTTCGATGGCATGATTAACTTAAAATGGTCTTTTCTTGTCAATAGATAGCATCCACTT-AAC
* * * * ** *
13845444 ATTTCCCAATGCAATCATCCGATTATGATAGGTTTTAACCAAGAAAAACATTGATTTCAATTTAT
193 GTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAACAAAG-AAAACAAAGATTTCAATTTAC
* * *
13845509 AACCATTTGTAAGATTATAAATGAA-TAATATAACATTTAAAGCAAGCAATAAAGCTTTCTATGG
257 AATCATTTATAAGATTATAAATGAATTAATATAACATTTAAAGCAAGCAACAAAGCTTTCTATGG
* * * * ** *
13845573 CATGTTTAACTTAAATTGTCTTTTCTTGTCATTAAATAGC
322 CATGATTAACTAAAATGGTCTTTTCTTGTCAATGGAGAGC
* *
13845613 ATCCACTTAATGTTTCCTAAACCAAACATCCAA-TATGATAGGTTTTAACTAACAACAACAAAGA
1 ATCCACTTCATGTTTCCTAAAGCAAACATCCAATTATGATAGGTTTTAACTAACAACAACAAAGA
* * * *
13845677 TTTCGATTTATAATAATTTATAAGATTATAAATGAATTAGTATATCATTTAAATGACTAACAAAG
66 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAATGAGTAACAAAG
* * * *
13845742 CTTTCGATGGCATGATTAACTTAGAATGGTTTTTTATTGTCAAT-GAATAGCATCCACTTTACGT
131 CTTTCGATGGCATGATTAACTTAAAATGGTCTTTTCTTGTCAATAG-ATAGCATCCACTTAACGT
* * *
13845806 TTCCCAATGCAATCATCCAATTATGATAGATTTTAACTAAGAAAA
195 TTCCCAATGCAAACATCCAATTATGATAGGTTTTAACAAAGAAAA
13845851 ACATTCATTT
Statistics
Matches: 1115, Mismatches: 177, Indels: 68
0.82 0.13 0.05
Matches are distributed among these distances:
359 25 0.02
360 161 0.14
361 162 0.15
362 469 0.42
363 277 0.25
364 5 0.00
365 14 0.01
366 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (361 bp):
ATCCACTTCATGTTTCCTAAAGCAAACATCCAATTATGATAGGTTTTAACTAACAACAACAAAGA
TTTTGATTTATAATCATTTATAAGATTATAAATGAATTAATATATCATTTAAATGAGTAACAAAG
CTTTCGATGGCATGATTAACTTAAAATGGTCTTTTCTTGTCAATAGATAGCATCCACTTAACGTT
TCCCAATGCAAACATCCAATTATGATAGGTTTTAACAAAGAAAACAAAGATTTCAATTTACAATC
ATTTATAAGATTATAAATGAATTAATATAACATTTAAAGCAAGCAACAAAGCTTTCTATGGCATG
ATTAACTAAAATGGTCTTTTCTTGTCAATGGAGAGC
Found at i:13845297 original size:543 final size:535
Alignment explanation
Indices: 13844241--13845842 Score: 1725
Period size: 543 Copynumber: 3.0 Consensus size: 535
13844231 TTTGATAGAT
* *
13844241 AATCATTTATAAGATTATAAATGAATTAATACATCATTTAAAGTGAGCAACAAAGCTTTTGATGG
1 AATCATTTATAAGATTATAAATGAATTAATACATCA-TTAAAGCGAGTAACAAAGCTTTTGATGG
* ** * * * *
13844306 CATCATTAACTCAAATTTTTC-TTTGTTGTCAATGGATAGCATCCACTTAACGTTTCTCGATGCA
65 CATCATTAACTCAAAATGGTCTTTTCTTATCAATGGATAGCATCCACTTAA-GTTTCCCAATGCA
* * * ** * * **
13844370 AACATCCAATTATCATAGGATTTAAACATAAAGTACAAATA-TTTCGATTTACAGTCATTTATAA
129 AACATCCAATTATGATAGG-TTTTAACCTAAAAAACAAATATTTTAG-TTTATAACCATTTATAA
* * * * * * * *
13844434 TATTGTAAGTGAATTAATATATCATTTAAATTGAGTAACAAAGCTTTTAATGTCATGATTAACAT
192 GATTATAAATTAATTAATATATCATTTAAAGTAAGTAACAAAGCTTTCAATG-CATGATTAACTT
* ** * * *
13844499 AAAATGGTCTTTTCTTCTCAATGGAGAGCATCAACTTCACATTTCCTAAAGCAAACATCCAACTA
256 AAAAT-GTCTTTTCTTGTCAATAAATAGCATCCACTTCACATTT-TTAAAGCAAACATCCAA-TA
* * * * *
13844564 TGATAGGTTTGAACCAAGAAAAACTTTGATTTTGATTTATAACCATTTATAAGATTATAAATGAA
318 TGATAGGTTTTAAACAAGAAAAACATTGATTTCGATTTATAACTATTTATAAGATTATAAATGAA
* * *
13844629 CTAATATATCATTTGAAGTGAGAAACAAAGCTTTCTATGGGATGATTAACTTAAATGGTCTTTTC
383 CTAATATATCATTT-AA-AGAGCAACAAAGCTTTCTATGGCATGATTAACTTAAATGGTCTTTTC
* * * * *
13844694 TTGTCAATAGTTGGCATCCACTTAACGTTTCACAATGCAAACATCTAATTCTGATAGGTTTTAAC
446 TTGTCAATGGATAGCATCCACTTAACGTTTCA-AATGCAAACATCCAATTATGATAGGTTTTAAC
*
13844759 AAACAACAGCAAAAATTATAACTTAC
510 AAACAACAACAAAAATTATAACTTAC
* * **
13844785 AATCATTTATAAGATTATAAATGAATTAATATATCAGTTAAAGCAAGTAACAAAGCTTTTGATCT
1 AATCATTTATAAGATTATAAATGAATTAATACATCA-TTAAAGCGAGTAACAAAGCTTTTGATGG
* * *
13844850 CATCATTAACTGAAAATGGTCTTTTCTTATCAATGGAGAGCATCCACTTTAGTTTCCCAATGCAA
65 CATCATTAACTCAAAATGGTCTTTTCTTATCAATGGATAGCATCCACTTAAGTTTCCCAATGCAA
* **
13844915 ACATCCAATTATGATAGGTTTTATCCTACAACCACAAATATTTTAGTTTATAACCATTTATAAGA
130 ACATCCAATTATGATAGGTTTTAACCTA-AAAAACAAATATTTTAGTTTATAACCATTTATAAGA
* *
13844980 TTATAAATTCATTAATATTTCATTTATAA-TAAGTAACAAAGCTTTCAATGCATGATTAACTTAA
194 TTATAAATTAATTAATATATCATTTA-AAGTAAGTAACAAAGCTTTCAATGCATGATTAACTTAA
* * *
13845044 AATGATCTTTTCTTGTCAATATATAGCATCCACTTCACATTTTTGAATGCAAACTTCCAATTATG
258 AATG-TCTTTTCTTGTCAATAAATAGCATCCACTTCACATTTTT-AAAGCAAACATCCAA-TATG
* * *
13845109 ATAGGTTTTAAACAAGGAAAACATTGATTTCAATTTATAACTATTTATAAGATTATAAATGAACC
320 ATAGGTTTTAAACAAGAAAAACATTGATTTCGATTTATAACTATTTATAAGATTATAAATGAACT
* * * * *
13845174 AATATAACATTTAAAGCAAGCAATAAAGATTTCTATGGCATGTTTAACTTAAATTGTCTTTTCTT
385 AATATATCATTTAAAG--AGCAACAAAGCTTTCTATGGCATGATTAACTTAAATGGTCTTTTCTT
* * * * * * *
13845239 GTCATTGGATAGCACCCACTTCATGTTTCTGAAAT-CGAGCATCCAATTATGATAGGTTTTAACT
448 GTCAATGGATAGCATCCACTTAACGTTTC--AAATGCAAACATCCAATTATGATAGGTTTTAACA
* * * * *
13845303 AACAACAACAAAGATTTTGATTTAT
511 AACAACAACAAAAATTATAACTTAC
* * * *
13845328 AATCATTTATAAGATTATAAATGAATTAGTACATCATGTCAAGCGACTAACAAAGC-TTTCATGG
1 AATCATTTATAAGATTATAAATGAATTAATACATCAT-TAAAGCGAGTAACAAAGCTTTTGATGG
* * * *
13845392 CATGATTGACTTAAAATGGTCTTTTCTTATCAATGGATAGCATCCACTTCAAATTTCCCAATGCA
65 CATCATTAACTCAAAATGGTCTTTTCTTATCAATGGATAGCATCCACTT-AAGTTTCCCAATGCA
* * * * * * *
13845457 ATCATCCGATTATGATAGGTTTTAACCAAGAAAAAC-ATTGATTTCAATTTATAACCATTTGTAA
129 AACATCCAATTATGATAGGTTTTAACCTA-AAAAACAAAT-ATTTTAGTTTATAACCATTTATAA
* * * * * * *
13845521 GATTATAAATGAA-TAATATAACATTTAAAGCAAGCAATAAAGCTTTCTATGGCATGTTTAACTT
192 GATTATAAATTAATTAATATATCATTTAAAGTAAGTAACAAAGCTTTCAAT-GCATGATTAACTT
* * *
13845585 AAATTGTCTTTTCTTGTCATTAAATAGCATCCACTT-A-ATGTTTCCTAAACCAAACATCCAATA
256 AAAATGTCTTTTCTTGTCAATAAATAGCATCCACTTCACAT-TTT--TAAAGCAAACATCCAATA
* * **
13845648 TGATAGGTTTT-AACTAACAACAACAAAGATTTCGATTTATAA-TAATTTATAAGATTATAAATG
318 TGATAGGTTTTAAAC-AAGAAAAACATTGATTTCGATTTATAACT-ATTTATAAGATTATAAATG
* * * *
13845711 AATTAGTATATCATTTAAATGA-CTAACAAAGCTTTCGATGGCATGATTAACTTAGAATGGTTTT
381 AACTAATATATCATTTAAA-GAGC-AACAAAGCTTTCTATGGCATGATTAACTTA-AATGGTCTT
* * * * * *
13845775 TTATTGTCAATGAATAGCATCCACTTTACGTTTCCCAATGCAATCATCCAATTATGATAGATTTT
443 TTCTTGTCAATGGATAGCATCCACTTAACGTTT-CAAATGCAAACATCCAATTATGATAGGTTTT
13845840 AAC
507 AAC
13845843 TAAGAAAAAC
Statistics
Matches: 888, Mismatches: 145, Indels: 53
0.82 0.13 0.05
Matches are distributed among these distances:
539 1 0.00
540 36 0.04
541 134 0.15
542 127 0.14
543 387 0.44
544 171 0.19
545 32 0.04
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (535 bp):
AATCATTTATAAGATTATAAATGAATTAATACATCATTAAAGCGAGTAACAAAGCTTTTGATGGC
ATCATTAACTCAAAATGGTCTTTTCTTATCAATGGATAGCATCCACTTAAGTTTCCCAATGCAAA
CATCCAATTATGATAGGTTTTAACCTAAAAAACAAATATTTTAGTTTATAACCATTTATAAGATT
ATAAATTAATTAATATATCATTTAAAGTAAGTAACAAAGCTTTCAATGCATGATTAACTTAAAAT
GTCTTTTCTTGTCAATAAATAGCATCCACTTCACATTTTTAAAGCAAACATCCAATATGATAGGT
TTTAAACAAGAAAAACATTGATTTCGATTTATAACTATTTATAAGATTATAAATGAACTAATATA
TCATTTAAAGAGCAACAAAGCTTTCTATGGCATGATTAACTTAAATGGTCTTTTCTTGTCAATGG
ATAGCATCCACTTAACGTTTCAAATGCAAACATCCAATTATGATAGGTTTTAACAAACAACAACA
AAAATTATAACTTAC
Found at i:13846274 original size:182 final size:182
Alignment explanation
Indices: 13845959--13847150 Score: 1137
Period size: 182 Copynumber: 6.6 Consensus size: 182
13845949 GGTTGTAGGA
** * *
13845959 TAAAACCTATCATAATTGGAAATTTGCATTGGGAAAC-TAAAGTGGATACTCTCCATTGACAAGA
1 TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTAAAGTGGATGCTATCCATTGACAAGA
* * * * *
13846023 AAAGACCATTTGAAGTTAATGATGCCATCAAAAGCTTTGTTACTCACTTTAAATGATAGATTGAT
66 AAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTACTTTAAATGATATATTAAT
* *
13846088 TCATTTATAATCTTATAAGTGATTATAAATCGAAATCTTGGGATATTATGCT
131 TCATTTATAATCTTATAAATGATTATAAATCGAAATCTTGGGATATTATGGT
* * * * * ** *
13846140 TAAAACCTATCATAATTGGATTTTTTCTATT-CGAAATGTAAAGTTGATGCTATCCATTGGTAAC
1 TAAAACCTATCATAATTGGATGTTTGC-ATTGGGAAACGTAAAGTGGATGCTATCCATTGACAAG
* * * ** * *
13846204 AAAAGACCATTTTAAGTTTATCATTCCATCAAAAGCTTTGTCACTTGTTTTAACTAATATATTAA
65 AAAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTACTTTAAATGATATATTAA
* * * * * * * * *
13846269 TTCATTTATAATTTTATAATTGCTTACAAATTGAAATCTT-TGTTGTTGTTGGT
130 TTCATTTATAATCTTATAAATGATTATAAATCGAAATCTTGGGATATT-ATGGT
* * ** * * * * * *
13846322 TAAAACCTTTCATAATTAGATGTTAACTTTGGGAAACATGAAGTGAATTCTATCCATTGATAAGA
1 TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTAAAGTGGATGCTATCCATTGACAAGA
* * * * * * * * *
13846387 ACATAACATTTTAAGTTAATAACGTCATCGAAAGCTCTGTTACTTGCTTTAAATGATATATTAAT
66 AAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTACTTTAAATGATATATTAAT
* * * * * *
13846452 TCAATTATAATATTATAAATGATTGTAAATCAAAATCTTTGGACT-TTATGTT
131 TCATTTATAATCTTATAAATGATTATAAATCGAAATCTTGGGA-TATTATGGT
* * * * * * * *
13846504 TAGAACCTCTCATACTT-GATGATTGCATTGGGAAACGTTAAGTGGATACTATCCATTCACAACA
1 TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTAAAGTGGATGCTATCCATTGACAAGA
* * * * ** * * *
13846568 GAAGACAATTATAAGTTAATGATGCCATTGAAAGCTTTGTTACTTCCTATAAATTATATATTAAT
66 AAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTACTTTAAATGATATATTAAT
* * * * *** *
13846633 TCATTTATACTCTTGTAAAT-AGTTATAAATCAAAATCAATGTTTTATTTTGGT
131 TCATTTATAATCTTATAAATGA-TTATAAATCGAAATC-TTGGGATATTATGGT
* * *
13846686 TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACATTAAGTGGATGGTATCCATTGACAAGA
1 TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTAAAGTGGATGCTATCCATTGACAAGA
* * * *
13846751 AAATACCATTTTAAGTTGATCATGCCAT-TAAAGCTTTGTTACTCT-TTTTAAATGATATATTAA
66 AAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACT-TACTTTAAATGATATATTAA
** * * *
13846814 TTCATTTATAATCTTATAAATGATTGCAAATTGAAATCTTTGGACT-TTATGTT
130 TTCATTTATAATCTTATAAATGATTATAAATCGAAATCTTGGGA-TATTATGGT
* ** * * *
13846867 TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACATGTAGTGGATGCCATCCATTAACAAAA
1 TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTAAAGTGGATGCTATCCATTGACAAGA
** * * * *
13846932 AAAGATAAATTTAAGTTAACCATGCCATCAAAAGCTTTGTTACTCACTTTAAATGACATATTAAT
66 AAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTACTTTAAATGATATATTAAT
* * *
13846997 TCATTTATAACCTTATAAATGAGTATAAAT-GAAAATCTTGGGACATTATGGT
131 TCATTTATAATCTTATAAATGATTATAAATCG-AAATCTTGGGATATTATGGT
* * * * * *
13847049 TAAAACCTATCATAATTAGATGTTTGTATTCGAAAATGTGAAGTGGAT-CTTATCCATTGACAAG
1 TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTAAAGTGGATGC-TATCCATTGACAAG
* * *
13847113 AAAATACCATTTTAAGTTAATCATTCCATCGAAAGCTT
65 AAAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTT
13847151 GTTGGCTCCA
Statistics
Matches: 807, Mismatches: 186, Indels: 35
0.79 0.18 0.03
Matches are distributed among these distances:
180 1 0.00
181 241 0.30
182 496 0.61
183 68 0.08
184 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.38
Consensus pattern (182 bp):
TAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTAAAGTGGATGCTATCCATTGACAAGA
AAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTACTTTAAATGATATATTAAT
TCATTTATAATCTTATAAATGATTATAAATCGAAATCTTGGGATATTATGGT
Found at i:13846947 original size:545 final size:545
Alignment explanation
Indices: 13845959--13847150 Score: 1346
Period size: 545 Copynumber: 2.2 Consensus size: 545
13845949 GGTTGTAGGA
* * *
13845959 TAAAACCTATCATAATTGGA-AATTTGCATTGGGAAAC-TAAAGTGGATACTCTCCATTGACAAG
1 TAAAACCTATCATAATTAGATGA-TTGCATTGGGAAACGTAAAGTGGATACTATCCATTGACAAG
* * *
13846022 AAAAGACCATTTGAAGTTAATGATGCCATCAAAAGCTTTGTTACTCACTTTAAATGATAGATTGA
65 AAAAGACCATTT-AAGTTAATGATGCCATCGAAAGCTTTGTTACTCACTATAAATGATAGATTAA
* * *
13846087 TTCATTTATAATCTTATAAGTGATTATAAATCGAAATCTTGGGATATTATGCTTAAAACCTATCA
129 TTCATTTATAATCTTATAAATGATTATAAATCAAAATCATGGGATATTATGCTTAAAACCTATCA
* * ** * **
13846152 TAATTGGATTTTTTCTATTCGAAATGTAAAGTTGATGCTATCCATTGGTAACAAAAGACCATTTT
194 TAATTGGATGTTTGCTATTCGAAACATAAAGTGGATGCTATCCATTGACAACAAAAGACCATTTT
* * * *
13846217 AAGTTTATCATTCCATCAAAAGCTTTGTCACTTGTTTTAACTAATATATTAATTCATTTATAATT
259 AAGTTGATCATGCCATCAAAAGCTTTGTCACTTGTTTTAAATAATATATTAATTCATTTATAATC
* * *** *
13846282 TTATAATTGCTTACAAATTGAAATCTTTGTTGTTGTTGGTTAAAACCTTTCATAATTAGATGTTA
324 TTATAAATGATTACAAATTGAAATCTTTGGACTTGTTGGTTAAAACCTATCATAATTAGATGTTA
* * * * * * * *
13846347 ACTTTGGGAAACATGAAGTGAATTCTATCCATTGATAAGAACATAACATTTTAAGTTAATAACGT
389 ACATTGGGAAACATGAAGTGAATGCCATCCATTCAAAAAAACATAACATTTTAAGTTAACAACGC
* ** * * * *
13846412 CATCGAAAGCTCTGTTACTTGCTTTAAATGATATATTAATTCAATTATAATATTATAAATGATTG
454 CATCAAAAGCTCTGTTACTCACTTTAAATGACATATTAATTCAATTATAACATTATAAATGAGTA
* * *
13846477 TAAATCAAAATCTTTGGACTTTATGTT
519 TAAATCAAAATCTTGGGACATTATGGT
* * * * * *
13846504 TAGAACCTCTCATACTT-GATGATTGCATTGGGAAACGTTAAGTGGATACTATCCATTCACAACA
1 TAAAACCTATCATAATTAGATGATTGCATTGGGAAACGTAAAGTGGATACTATCCATTGACAAGA
* * * * *
13846568 GAAGACAATTATAAGTTAATGATGCCATTGAAAGCTTTGTTACTTC-CTATAAATTATATATTAA
66 AAAGACCATT-TAAGTTAATGATGCCATCGAAAGCTTTGTTAC-TCACTATAAATGATAGATTAA
* * *** * *
13846632 TTCATTTATACTCTTGTAAAT-AGTTATAAATCAAAATCAATGTTTTATTTTGGTTAAAACCTAT
129 TTCATTTATAATCTTATAAATGA-TTATAAATCAAAATC-ATGGGATATTATGCTTAAAACCTAT
* * * * *
13846696 CATAATTGGATGTTTGC-ATTGGGAAACATTAAGTGGATGGTATCCATTGACAAGAAAATACCAT
192 CATAATTGGATGTTTGCTATT-CGAAACATAAAGTGGATGCTATCCATTGACAACAAAAGACCAT
* * *
13846760 TTTAAGTTGATCATGCCAT-TAAAGCTTTGTTACTCT-TTTTAAATGATATATTAATTCATTTAT
256 TTTAAGTTGATCATGCCATCAAAAGCTTTGTCACT-TGTTTTAAATAATATATTAATTCATTTAT
* * *
13846823 AATCTTATAAATGATTGCAAATTGAAATCTTTGGACTT-TATGTTTAAAACCTATCATAATTGGA
320 AATCTTATAAATGATTACAAATTGAAATCTTTGGACTTGT-TGGTTAAAACCTATCATAATTAGA
** * * *
13846887 TGTTTGCATTGGGAAACATGTAGTGGATGCCATCCATTAACAAAAAAAGATAA-A-TTTAAGTTA
384 TGTTAACATTGGGAAACATGAAGTGAATGCCATCCATT--CAAAAAAACATAACATTTTAAGTTA
* * * * *
13846950 ACCATGCCATCAAAAGCTTTGTTACTCACTTTAAATGACATATTAATTCATTTATAACCTTATAA
447 ACAACGCCATCAAAAGCTCTGTTACTCACTTTAAATGACATATTAATTCAATTATAACATTATAA
*
13847015 ATGAGTATAAATGAAAATCTTGGGACATTATGGT
512 ATGAGTATAAATCAAAATCTTGGGACATTATGGT
* * * * * *
13847049 TAAAACCTATCATAATTAGATGTTTGTATTCGAAAATGTGAAGTGGAT-CTTATCCATTGACAAG
1 TAAAACCTATCATAATTAGATGATTGCATTGGGAAACGTAAAGTGGATAC-TATCCATTGACAAG
* * *
13847113 AAAATACCATTTTAAGTTAATCATTCCATCGAAAGCTT
65 AAAAGACCA-TTTAAGTTAATGATGCCATCGAAAGCTT
13847151 GTTGGCTCCA
Statistics
Matches: 533, Mismatches: 100, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
544 18 0.03
545 350 0.66
546 154 0.29
547 11 0.02
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.38
Consensus pattern (545 bp):
TAAAACCTATCATAATTAGATGATTGCATTGGGAAACGTAAAGTGGATACTATCCATTGACAAGA
AAAGACCATTTAAGTTAATGATGCCATCGAAAGCTTTGTTACTCACTATAAATGATAGATTAATT
CATTTATAATCTTATAAATGATTATAAATCAAAATCATGGGATATTATGCTTAAAACCTATCATA
ATTGGATGTTTGCTATTCGAAACATAAAGTGGATGCTATCCATTGACAACAAAAGACCATTTTAA
GTTGATCATGCCATCAAAAGCTTTGTCACTTGTTTTAAATAATATATTAATTCATTTATAATCTT
ATAAATGATTACAAATTGAAATCTTTGGACTTGTTGGTTAAAACCTATCATAATTAGATGTTAAC
ATTGGGAAACATGAAGTGAATGCCATCCATTCAAAAAAACATAACATTTTAAGTTAACAACGCCA
TCAAAAGCTCTGTTACTCACTTTAAATGACATATTAATTCAATTATAACATTATAAATGAGTATA
AATCAAAATCTTGGGACATTATGGT
Found at i:13852912 original size:77 final size:77
Alignment explanation
Indices: 13852782--13852938 Score: 271
Period size: 77 Copynumber: 2.0 Consensus size: 77
13852772 ATTATGTGAT
13852782 AAAGGATTTAAAGTATACTTTGATTCAACTAAGTGTGAAGTGATTGACATGAGTACAAATAAAAT
1 AAAGGATTTAAAGTATACTTTGATTCAACTAAGTGTGAAGTGATTGACATGAGTACAAATAAAAT
13852847 CTCA-TTATAGG
66 CTCATTTATAGG
* * *
13852858 AAANGGATTTAGAGTGTGCTTTGATTCAACTAAGTGTGAAGTGATTGACATGAGTACAAATAAAA
1 AAA-GGATTTAAAGTATACTTTGATTCAACTAAGTGTGAAGTGATTGACATGAGTACAAATAAAA
13852923 TCTCATTTATAGG
65 TCTCATTTATAGG
13852936 AAA
1 AAA
13852939 TAGATTGAAG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 3 0.04
77 63 0.83
78 10 0.13
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (77 bp):
AAAGGATTTAAAGTATACTTTGATTCAACTAAGTGTGAAGTGATTGACATGAGTACAAATAAAAT
CTCATTTATAGG
Found at i:13856402 original size:61 final size:61
Alignment explanation
Indices: 13856313--13856765 Score: 651
Period size: 61 Copynumber: 7.4 Consensus size: 61
13856303 GTGACAAATG
* * **
13856313 CAACTGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTTGTGATAATTA
1 CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* *
13856374 CAACCATGCATGTACGGAGTGGGTAGTGCACATGCCGGTAATGATG-TGGTCATGATAATTA
1 CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGCT-GTCATGATAATTA
*
13856435 CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCTGGTAATGATG-TGGTCATGATAATTA
1 CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGCT-GTCATGATAATTA
* * * *
13856496 CAACCGTGCATATACGAAGTGGGCAGTACACATGCC-ATAATGATGCTGTCATGATAATTA
1 CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* * *
13856556 CAATCGTGCATGTGCGGAGTGGGCAATGCACATGCCGGTAATGATGCTGTCATGATAATTA
1 CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* * *
13856617 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATAATTA
1 CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* * * * *
13856678 CAACTGTGCATGTATGAAGTGGGCAGTGCACATGCCTGTAATGATGCTGTCGTGATAATTA
1 CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* *
13856739 CAACCATGCATGTGCGGAGTGGGCAGT
1 CAACCGTGCATGTACGGAGTGGGCAGT
13856766 TGTCAAGACC
Statistics
Matches: 353, Mismatches: 36, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
60 52 0.15
61 301 0.85
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (61 bp):
CAACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
Found at i:13856762 original size:243 final size:243
Alignment explanation
Indices: 13856318--13856765 Score: 713
Period size: 243 Copynumber: 1.8 Consensus size: 243
13856308 AAATGCAACT
* **
13856318 GTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTTGTGATAATTACAACCATGC
1 GTGCATGTGCGGAGTGGGCAATGCACATGCCGGTAATGATGCTGTCATGATAATTACAACCATGC
*
13856383 ATGTACGGAGTGGGTAGTGCACATGCCGGTAATGATGTGGTCATGATAATTACAACCGTGCATGT
66 ATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGTGGTCATGATAATTACAACCGTGCATGT
* *
13856448 ACGGAGTGGGCAGTGCACATGCTGGTAATGATGTGGTCATGATAATTACAACCGTGCATATACGA
131 ACGAAGTGGGCAGTGCACATGCTGGTAATGATGTGGTCATGATAATTACAACCATGCATATACGA
13856513 AGTGGGCAGTACACATGCCATAATGATGCTGTCATGATAATTACAATC
196 AGTGGGCAGTACACATGCCATAATGATGCTGTCATGATAATTACAATC
*
13856561 GTGCATGTGCGGAGTGGGCAATGCACATGCCGGTAATGATGCTGTCATGATAATTACAACCGTGC
1 GTGCATGTGCGGAGTGGGCAATGCACATGCCGGTAATGATGCTGTCATGATAATTACAACCATGC
* * *
13856626 ATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGAT-GTCGTGATAATTACAACTGTGCATG
66 ATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATG-TGGTCATGATAATTACAACCGTGCATG
* * * *
13856690 TATGAAGTGGGCAGTGCACATGCCT-GTAATGATGCT-GTCGTGATAATTACAACCATGCATGTG
130 TACGAAGTGGGCAGTGCACATG-CTGGTAATGATG-TGGTCATGATAATTACAACCATGCATATA
*
13856753 CGGAGTGGGCAGT
193 CGAAGTGGGCAGT
13856766 TGTCAAGACC
Statistics
Matches: 187, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
243 183 0.98
244 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (243 bp):
GTGCATGTGCGGAGTGGGCAATGCACATGCCGGTAATGATGCTGTCATGATAATTACAACCATGC
ATGTACGGAGTGGGCAGTGCACATGCCGGTAATGATGTGGTCATGATAATTACAACCGTGCATGT
ACGAAGTGGGCAGTGCACATGCTGGTAATGATGTGGTCATGATAATTACAACCATGCATATACGA
AGTGGGCAGTACACATGCCATAATGATGCTGTCATGATAATTACAATC
Found at i:13857746 original size:21 final size:21
Alignment explanation
Indices: 13857717--13857778 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
13857707 ACCCGAGAGT
* *
13857717 TTCTCGCTGTAGCGAAAATGA
1 TTCTAGCTGCAGCGAAAATGA
13857738 TTCTAGCTGCAGCGAAAATGA
1 TTCTAGCTGCAGCGAAAATGA
**
13857759 TTCTATTTGCAGCGAGAAAT
1 TTCTAGCTGCAGCGA-AAAT
13857779 AGGGCACCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 32 0.89
22 4 0.11
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (21 bp):
TTCTAGCTGCAGCGAAAATGA
Found at i:13858032 original size:26 final size:23
Alignment explanation
Indices: 13857971--13858030 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
13857961 TATACGTATA
*
13857971 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATACACACCAT
13857994 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
13858017 CACATCATCATCAT
1 CCCATCATCATCAT
13858031 CACCAGCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:13868888 original size:43 final size:43
Alignment explanation
Indices: 13868840--13868949 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
13868830 TCACCAGCTC
** *
13868840 ATGCGCACTCCCTACTCGCACAT-GGCTAGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAATC-AGGTCATC-CTCGGCTT
* *
13868883 ATGCGCACTCCCTACTCACACATAATCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAATCAGGTCATCCTCGGCTT
13868926 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
13868950 GCCGAGTCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
42 1 0.02
43 57 0.97
44 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCAGGTCATCCTCGGCTT
Found at i:13872256 original size:42 final size:41
Alignment explanation
Indices: 13872209--13872365 Score: 197
Period size: 42 Copynumber: 3.7 Consensus size: 41
13872199 GTCTCAGCTT
* ** *
13872209 ATGTGCACTACCACACCGCACATAGCCAGGTCAGGATAACTC
1 ATGTGCACT-CCACACCGCACATGGCTGGGTCAGCATAACTC
* *
13872251 ATGTGCACTCATACACCGCACATGGCTGGGTCAGCACAACTC
1 ATGTGCACTC-CACACCGCACATGGCTGGGTCAGCATAACTC
*
13872293 ATGTGCACTCCTACACCGCACATGGCTGGGTCAGCATAGCTC
1 ATGTGCACTCC-ACACCGCACATGGCTGGGTCAGCATAACTC
* *
13872335 ATGTGCACTCCTACACAGAACATGGCTGGGT
1 ATGTGCACTCC-ACACCGCACATGGCTGGGT
13872366 TATAATTATC
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
41 1 0.01
42 101 0.99
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (41 bp):
ATGTGCACTCCACACCGCACATGGCTGGGTCAGCATAACTC
Found at i:13872350 original size:84 final size:84
Alignment explanation
Indices: 13872209--13872365 Score: 226
Period size: 84 Copynumber: 1.9 Consensus size: 84
13872199 GTCTCAGCTT
* * *
13872209 ATGTGCACTACCACACCGCACATAGCCAGGTCAGGATAACTCATGTGCACTCATACACCGCACAT
1 ATGTGCACTACCACACCGCACATAGCCAGGTCAGCATAACTCATGTGCACTCATACACAGAACAT
13872274 GGCTGGGTCAGCACAACTC
66 GGCTGGGTCAGCACAACTC
* ** * *
13872293 ATGTGCACT-CCTACACCGCACATGGCTGGGTCAGCATAGCTCATGTGCACTCCTACACAGAACA
1 ATGTGCACTACC-ACACCGCACATAGCCAGGTCAGCATAACTCATGTGCACTCATACACAGAACA
13872357 TGGCTGGGT
65 TGGCTGGGT
13872366 TATAATTATC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 2 0.03
84 62 0.97
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (84 bp):
ATGTGCACTACCACACCGCACATAGCCAGGTCAGCATAACTCATGTGCACTCATACACAGAACAT
GGCTGGGTCAGCACAACTC
Found at i:13881998 original size:43 final size:43
Alignment explanation
Indices: 13881950--13882059 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
13881940 TCACCAGCTC
** **
13881950 ATGCGCACTCCCTACTCGCACAT-GGCTGGGTCATCATCGGGTT
1 ATGCGCACTCCCTACTCGCACATAATC-GGGTCATCATCGACTT
* *
13881993 ATGCGCACTCCCTACTCGGACATAATCGGGTCATCCTCGACTT
1 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCATCGACTT
*
13882036 ATGCGCACTCCTTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
13882060 GCCGAGTCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 57 0.98
44 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCGGGTCATCATCGACTT
Found at i:13882699 original size:19 final size:21
Alignment explanation
Indices: 13882657--13882700 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
13882647 AGGCAAGAAG
13882657 AAGACAGCTGCTGGAAATTTC
1 AAGACAGCTGCTGGAAATTTC
*
13882678 AAGA-AGCTGTTGGAAA-TTC
1 AAGACAGCTGCTGGAAATTTC
13882697 AAGA
1 AAGA
13882701 TATTTATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 11 0.50
21 4 0.18
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (21 bp):
AAGACAGCTGCTGGAAATTTC
Found at i:13891047 original size:2 final size:2
Alignment explanation
Indices: 13891040--13891087 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
13891030 CATTTTGTTG
13891040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13891082 AT AT AT
1 AT AT AT
13891088 GCGAGTGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13891150 original size:42 final size:42
Alignment explanation
Indices: 13891091--13891172 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
13891081 TATATATGCG
* *
13891091 AGTGTGAGTGCACATAAGTCGATGCTGACCCGGCTATGTGCA
1 AGTGTGAATGCACATAAGCCGATGCTGACCCGGCTATGTGCA
13891133 AGTGTGAATGCACATAAGCCGATGCTGACCCGGCTATGTG
1 AGTGTGAATGCACATAAGCCGATGCTGACCCGGCTATGTG
13891173 TGAGTAGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (42 bp):
AGTGTGAATGCACATAAGCCGATGCTGACCCGGCTATGTGCA
Found at i:13891241 original size:43 final size:43
Alignment explanation
Indices: 13891087--13891242 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
13891077 TATATATATA
*
13891087 TGCGAGT-GTGAGTGCACATAAG-TCGATGCTGACCCGGCTATG
1 TGCGAGTAGGGAGTGCACATAAGCT-GATGCTGACCCGGCTATG
* * * *
13891129 TGCAAGT-GTGAATGCACATAAGCCGATGCTGACCCGGCTATG
1 TGCGAGTAGGGAGTGCACATAAGCTGATGCTGACCCGGCTATG
* * * * *
13891171 TGTGAGTAGGGAGTGCGCATAAACTGATGCTAACCCAGCTATG
1 TGCGAGTAGGGAGTGCACATAAGCTGATGCTGACCCGGCTATG
* *
13891214 TCCGAGTAGGGAGTGCACATGAGCTGATG
1 TGCGAGTAGGGAGTGCACATAAGCTGATG
13891243 ATGATGAGGT
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
42 43 0.45
43 52 0.55
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (43 bp):
TGCGAGTAGGGAGTGCACATAAGCTGATGCTGACCCGGCTATG
Found at i:13895261 original size:19 final size:18
Alignment explanation
Indices: 13895226--13895261 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13895216 CTGCTGGTGG
*
13895226 CATGCTGATATTGATTTA
1 CATGCTGATAATGATTTA
13895244 CATGCTGATAAATGATTT
1 CATGCTGAT-AATGATTT
13895262 TTGTTATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (18 bp):
CATGCTGATAATGATTTA
Found at i:13897004 original size:182 final size:181
Alignment explanation
Indices: 13896758--13897908 Score: 1007
Period size: 182 Copynumber: 6.4 Consensus size: 181
13896748 AGGGACCAAC
* * * * *
13896758 AAAGCTTTGTTACTCGCTTTAACTGATATATTGATTCATTTATAATTTTATAATTGATTATAAAT
1 AAAGCTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAAT
* * *
13896823 TGAAATCTTTATTGTTGTTTGTTAAAACCTATCATAATTAGATGTTTCCTTAGGGAAACGTGAAG
66 TGAAATCTTTATTGTTGTTTGTTAAAACCTATCATAATTGGATGTTTCATTAGGGAAACATGAAG
* * * * *
13896888 TGAATGCTATCCATTGACAAGAACACACAATTTTAAGTTAATCATTGCATTG
131 TGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCA-TGCATAG
* * *
13896940 AATGCTTTGTTACTCACTTTAAAAGATACATTAATTCATTTATAATCTTATAAATGATTATAAAT
1 AAAGCTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAAT
** * *** *** *
13897005 CAAAATC--TATAGACATTATGGTTAAAACCTATCATAATTGGATGTTTGCATT-CTCAAACGTG
66 TGAAATCTTTATTGTTGTT-T-GTTAAAACCTATCATAATTGGATGTTT-CATTAGGGAAACATG
** *
13897067 AAGTGGATGCTATCCATTGACAAGAAAAGAGAATTTTAAGTTAATCTTGCAATCA-
128 AAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC-AT-AG
* * * *
13897122 AAGGCTTTGTTACTCACTTTAACTGATATATTAATTCATTTATAAAT-TTATAATTGATGATAAA
1 AAAGCTTTGTTACTCACTTTAAATGATATATTAATTCATTTAT-AATCTTATAAATGATTATAAA
* *
13897186 TTGAAATCTTTATTGTTGTTTGTTAAAACCTATCATAATTGGATGGTTGC-TTTGGGAAACATGA
65 TTGAAATCTTTATTGTTGTTTGTTAAAACCTATCATAATTGGAT-GTTTCATTAGGGAAACATGA
* * * **
13897250 AGTGGATGGTATCCATTTACAAGAAAAGATCA-TTTAAACTAATCATGCCATAG
129 AGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATG-CATAG
* * * * *
13897303 AAAGCTTTGTTACTCAATTTAAATGATATATTAGTTCCTTTCA-AACCTTAT-AA--ATCA-AAA
1 AAAGCTTTGTTACTCACTTTAAATGATATATTAATTCATTT-ATAATCTTATAAATGATTATAAA
* * *
13897363 TT--AAT-GTTA-TGCTTG---GTTACAACATATCATAATTGGATGTTTTCATT--GGAAACATG
65 TTGAAATCTTTATTG-TTGTTTGTTAAAACCTATCATAATTGGATG-TTTCATTAGGGAAACATG
* ** * ** * *
13897419 AAGTGGATGGTATTTATTGATAAGAAAAGACCA-TTTAAGAGCAATCAAGGTATAG
128 AAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAG-TTAATC-ATGCATAG
* * * * * * * **
13897474 AAATCTTTATTACTCACTTTAAATGATATATTAGTTCCTTTCTAATGTTATAAATGAGTACGAAT
1 AAAGCTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAAT
** * * * * *
13897539 CAAAATC-TAAGTTTTTCTTGGTTAAAACCTACCATAATTGGATGTTTGCATTA--GAAA-ATG-
66 TGAAATCTTTA-TTGTTGTTTGTTAAAACCTATCATAATTGGATGTTT-CATTAGGGAAACATGA
* * * * * *
13897599 TGTGGATGCTATCCTTTGATAAGAAAAGTCCATTTTCAGTTAATTATGCCATCA-
129 AGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATG-CAT-AG
* * * *
13897653 AAAGCTTTGTTACTCACTTTAACTTATATATGAATTCATTTATAAT-TCTATAATTGATTATAAA
1 AAAGCTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCT-TATAAATGATTATAAA
* * * * * *
13897717 TTGAAATCATTATTGTTGTTTACTT-AAACCTTTCATAATTAGATGTTTGC-TTAGAGTAACATG
65 TTGAAATCTTTATTGTTGTTT-GTTAAAACCTATCATAATTGGATGTTT-CATTAGGGAAACATG
* * * * *
13897780 AAGTGAATGATATCCATTGACAAGAAAACACCATTTTAAGTTAATCACGGCATTTG
128 AAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCA-TGCA-TAG
*
13897836 AAAGCTTTATTACT-AGCTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAA
1 AAAGCTTTGTTACTCA-CTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAA
*
13897900 TCGAAATCT
65 TTGAAATCT
13897909 ATGCACATTA
Statistics
Matches: 780, Mismatches: 140, Indels: 97
0.77 0.14 0.10
Matches are distributed among these distances:
170 43 0.06
171 76 0.10
172 6 0.01
173 2 0.00
174 8 0.01
175 6 0.01
177 10 0.01
178 11 0.01
179 116 0.15
180 29 0.04
181 92 0.12
182 300 0.38
183 74 0.09
184 7 0.01
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (181 bp):
AAAGCTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAAT
TGAAATCTTTATTGTTGTTTGTTAAAACCTATCATAATTGGATGTTTCATTAGGGAAACATGAAG
TGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCATAG
Found at i:13897528 original size:171 final size:171
Alignment explanation
Indices: 13897023--13897515 Score: 447
Period size: 171 Copynumber: 2.8 Consensus size: 171
13897013 ATAGACATTA
* * *** * *
13897023 TGGTTAAAACCTATCATAATTGGATGTTTGCATTCTCAAACGTGAAGTGGATGCTATCCATTGAC
1 TGGTTAAAACATATCATAATTGGATGGTTGCATTGGGAAACATGAAGTGGATGGTATCCATTGAC
** ** ** * * * * *
13897088 AAGAAAAGAGAATTTTAAGTTAATCTTGCAATCA-AAGGCTTTGTTACTCACTTTAACTGATATA
66 AAGAAAAGACCA-TTTAAACTAATCAAGCCAT-AGAAAGCTTTATTACTCAATTTAAATGATATA
* * ** * *
13897152 TTAATTCATTT-ATAAATTTATAATTGATGATAAATTGAAATCTTTATTG-T
129 TTAGTTCCTTTCA-AACCTTATAA---ATCA-AAATT--AAT-GTTA-TGCT
* *
13897202 TGTTTGTTAAAACCTATCATAATTGGATGGTTGCTTTGGGAAACATGAAGTGGATGGTATCCATT
1 TG---GTTAAAACATATCATAATTGGATGGTTGCATTGGGAAACATGAAGTGGATGGTATCCATT
* * * *
13897267 TACAAGAAAAGATCATTTAAACTAATCATGCCATAGAAAGCTTTGTTACTCAATTTAAATGATAT
63 GACAAGAAAAGACCATTTAAACTAATCAAGCCATAGAAAGCTTTATTACTCAATTTAAATGATAT
13897332 ATTAGTTCCTTTCAAACCTTATAAATCAAAATTAATGTTATGCT
128 ATTAGTTCCTTTCAAACCTTATAAATCAAAATTAATGTTATGCT
* * * ** *
13897376 TGGTTACAACATATCATAATTGGATGTTTTCATT-GGAAACATGAAGTGGATGGTATTTATTGAT
1 TGGTTAAAACATATCATAATTGGATGGTTGCATTGGGAAACATGAAGTGGATGGTATCCATTGAC
** * *
13897440 AAGAAAAGACCATTTAAGAGC-AATCAAGGTATAGAAATCTTTATTACTCACTTTAAATGATATA
66 AAGAAAAGACCATTTAA-A-CTAATCAAGCCATAGAAAGCTTTATTACTCAATTTAAATGATATA
13897504 TTAGTTCCTTTC
129 TTAGTTCCTTTC
13897516 TAATGTTATA
Statistics
Matches: 267, Mismatches: 39, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
170 42 0.16
171 77 0.29
172 1 0.00
173 2 0.01
174 6 0.02
175 3 0.01
177 5 0.02
178 3 0.01
179 2 0.01
180 1 0.00
181 59 0.22
182 66 0.25
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (171 bp):
TGGTTAAAACATATCATAATTGGATGGTTGCATTGGGAAACATGAAGTGGATGGTATCCATTGAC
AAGAAAAGACCATTTAAACTAATCAAGCCATAGAAAGCTTTATTACTCAATTTAAATGATATATT
AGTTCCTTTCAAACCTTATAAATCAAAATTAATGTTATGCT
Found at i:13897962 original size:31 final size:31
Alignment explanation
Indices: 13897924--13897982 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
13897914 CATTATGGTT
13897924 AAACCTATCATAATTGGATATTTGCATTTAG
1 AAACCTATCATAATTGGATATTTGCATTTAG
*
13897955 AAACCTATCATAATTGGATGTTTGCATT
1 AAACCTATCATAATTGGATATTTGCATT
13897983 CATAAACGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (31 bp):
AAACCTATCATAATTGGATATTTGCATTTAG
Found at i:13899348 original size:35 final size:35
Alignment explanation
Indices: 13899277--13899350 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
13899267 CTCCCCCAAT
* *
13899277 TCATGTGCACTCCCACACCGCACATAGCTAGGTCA
1 TCATGTGCACTCCCACACCGCACATAGCAAGATCA
*
13899312 TCATGTGCACTCCCACACCGCACATTA-CAATATCA
1 TCATGTGCACTCCCACACCGCACA-TAGCAAGATCA
13899347 TCAT
1 TCAT
13899351 CAGCATCATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.28, C:0.36, G:0.12, T:0.23
Consensus pattern (35 bp):
TCATGTGCACTCCCACACCGCACATAGCAAGATCA
Found at i:13901481 original size:182 final size:183
Alignment explanation
Indices: 13901174--13903219 Score: 1910
Period size: 182 Copynumber: 11.3 Consensus size: 183
13901164 TGTTTCATAC
* * ** * *** * *
13901174 TATTAATTCATTTATAATCTTAGAAATTATTATAAATCAAAATCTATGGACATT-ATGGTCAAAA
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCT-TTGTTGTTGTTGGTTAAAA
* *
13901238 CCTATCATAATTAGATGTTTGCATTTGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGA
65 CCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGA
* * * * *
13901303 CTATTATAAGTTAATCATACCATCAAAAGCTTTGTTA-TGCACTTTAACTAATA
130 CCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTGCACTTTAAATGATA
* * * **
13901356 TATTAATTCATTTATTATTTTAT-AATAGATTATAAATTGAAATCTTTATTGTTGTTCATTAAAA
1 TATTAATTCATTTATAATCTTATAAAT-GATTATAAATTGAAATCTTTGTTGTTGTTGGTTAAAA
* * * * *
13901420 CCTATCATAATTAGATGTTTGCTTTGGGAAATGTGAAGTGGATGCAATCCATTGACAAGAAAGGA
65 CCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGA
* * *
13901485 CCA-TTTAAATTAATGATGTCAT-AGAAAGCTTTGTTACT--AGCTTTAAATGATA
130 CCATTTTAAGTTAATCATGCCATCA-AAAGCTTTGTTACTGCA-CTTTAAATGATA
* * * * ** * *
13901537 TATTATTTCCTTTACAACCTTATAAATGATTATAAATTGAAA-CACATGTT-TATCTTGATTAAA
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATC-TTTGTTGT-TGTTGGTTAAA
*
13901600 ACCTATCATAATTGGATGTTTGCATTGTGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAG
64 ACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAG
* * * * *
13901665 TCCATTTTAGGTTAATCATGCCTTCAAAAGCTTTGTTAGT-CGCTTTAAATGATA
129 ACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTGCACTTTAAATGATA
* * * * ** * * *
13901719 TATTAATTCACTTATACTCTTATAAATGATTGTAAATGGAAATCTTTGGACGTT-ATGTTTGAAA
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCTTT-GTTGTTGTTGGTTAAAA
* * * * * * * ** *
13901783 CCTATCATAATTGGTTGTTTTCATTGGTAAAGGTTATGTGGATGTTATCCATTGATGACAAAAGA
65 CCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGA
* * * *
13901848 CAATTTTAAGTTAATGAGGCCATCAAAAGCTTTGTTAC-G-AGCTATAAATGATA
130 CCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTGCA-CTTTAAATGATA
* * * *
13901901 TATTAATTCATTTAGAAACTTATAAATGATTATAAATCGAAATCTTTGTTGCTT-TTGGTTAAAC
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCTTTGTTG-TTGTTGGTTAAAA
* * * *
13901965 CCTATCATAATTGGTTGTTTGCATTGCGAAAACATGAAGTGGACGCTATCCATTGGA-AA-AAAA
65 CCTATCATAATTGGATGTTTGCATTG-GGAAACGTGAAGTGGATGCTATCCATT-GACAAGAAAA
* *
13902028 GACCATTTTATGTTAATCATGCCATCGAAAGCTTTGTTACTTG--CTTTAAATGATA
128 GACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTAC-TGCACTTTAAATGATA
* * * * * *
13902083 CATTAATTCATTTAAAATTTTTTAATTTATTATAAATTGAAATCTTTGTTGTTGTTGGTTAAAAC
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCTTTGTTGTTGTTGGTTAAAAC
* * * * * * *
13902148 CTTTCATAGTTGGATGTTTGCATTGTGAAAACGTGAAGTGGATGTTATCTAGTGGA-AACAAAAG
66 CTATCATAATTGGATGTTTGCATTG-GGAAACGTGAAGTGGATGCTATCCA-TTGACAAGAAAAG
* *
13902212 ACTATTTTAAGTTAATCATGCCATCGAAAGCTTTTGTTACT-CACTTTAAATGATA
129 ACCATTTTAAGTTAATCATGCCATCAAAAGC-TTTGTTACTGCACTTTAAATGATA
* ** * *
13902267 TATTAATTCTTTTATAATCTTATAAATGATTATAAATCAAAATC-TTGTGGCTT-TATGGTTAGA
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCTTTGTTG-TTGT-TGGTTAAA
* * * * * *
13902330 ACCTATTATAATTGGATGATTACATTGGGAAACATGAAGTGGATGCTATCTATTGATAA-AAAAG
64 ACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAA-
* * ** * * *
13902394 GACCATTTCT-AGTCAATCATGCAATTGAAAGCCTTGTTAGT-CACTCTAAATGATA
128 GACCATTT-TAAGTTAATCATGCCATCAAAAGCTTTGTTACTGCACTTTAAATGATA
* * * * * * * *
13902449 TATTAGTTCCTTTATAATCGTATAAATGATTATTAATTGAAATCTTGGTTATTGGTGGTTAAAGC
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCTTTGTTGTTGTTGGTTAAAAC
* *** * * * * * ** * *
13902514 CTATCATAATTAGATGTACACTTTGGTAAATGTGAAATGAATTTTATCCAATGAAAAG-AAAGAC
66 CTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGAC
13902578 CA-TTTAAGTTAATCATGCCAT-AGAAAGCTTTGTTACT-CACTTTAAATGATA
131 CATTTTAAGTTAATCATGCCATCA-AAAGCTTTGTTACTGCACTTTAAATGATA
* * * * * *
13902629 TTTTAGTTCATTTATAAACTTATAAATGATTATAAATTGAAATCTATT-TTTTTCTTTGTTAAAA
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCT-TTGTTGTTGTTGGTTAAAA
* * * *
13902693 CCTATCATAATTGGATGTTTGCATCGGAAAACATCAAGTGGATGCTATCCATTGACAAGAAAAGA
65 CCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGA
* *
13902758 CCATTTTAAGTTAATCATGCCATCGAAAGCTTTGTTACT-CACTATAACA-GATA
130 CCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTGCACTTTAA-ATGATA
* * * * * * * *
13902811 TATTAATTCGTTTATAATTTTATAATTGATTATAAACTAAAATCTTTATTGCTGTTTGTTAAAAC
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCTTTGTTGTTGTTGGTTAAAAC
* ** *
13902876 CTATCATAATTGGATGTTTGCTTTTAGAAACGTGAAGTGGATGCGATCCATTGACAAGAAAAGAC
66 CTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGAC
* ** * * *
13902941 CA-TTGAAAATAAGCAAGCCAT-AGAAAGCTTTGTTACTTG--CTTTACATGATA
131 CATTTTAAGTTAATCATGCCATCA-AAAGCTTTGTTAC-TGCACTTTAAATGATA
* * * * *
13902992 TATTAGTTCCTTTACT--TCCTTATAAATGATTATAAATCGAAAT-TTATGTTTTTCTTGGTTAA
1 TATTAATTCATTTA-TAAT-CTTATAAATGATTATAAATTGAAATCTT-TGTTGTTGTTGGTTAA
* * * * *
13903054 AACCTATCATTACTAGATGTTTGCATT-GGAAATGTGGAGTGGATGCTATCCATTGACAAGACAA
63 AACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGA-AA
* * * * *
13903118 AAACCATTTTAAGTTAATCATGACATTGAAAGGC-TTGCTACT-CA-TTTAAAATGATA
127 AGACCATTTTAAGTTAATCATGCCA-TCAAAAGCTTTGTTACTGCACTTT-AAATGATA
* **
13903174 TATTAATTCATTTATAATCTTATAAATGATTGTAAATCAAAATCTT
1 TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCTT
13903220 AGGACTCAAT
Statistics
Matches: 1518, Mismatches: 286, Indels: 119
0.79 0.15 0.06
Matches are distributed among these distances:
179 1 0.00
180 172 0.11
181 281 0.19
182 843 0.56
183 129 0.08
184 92 0.06
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (183 bp):
TATTAATTCATTTATAATCTTATAAATGATTATAAATTGAAATCTTTGTTGTTGTTGGTTAAAAC
CTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGAC
CATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTGCACTTTAAATGATA
Found at i:13901694 original size:363 final size:363
Alignment explanation
Indices: 13900726--13903198 Score: 2271
Period size: 363 Copynumber: 6.8 Consensus size: 363
13900716 AGGTTTCACA
* * *
13900726 GCATTGTGAAACGTGAAGTGGATGCTATCCATTGGCAAGAAAAGACCATTTTAAGTTAATCATGT
1 GCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
** * * * * * *
13900791 TGTTGAAAGCTTTGTTTCTTGCTTTAAATGATATATTAAGTCATTTAT-AATTTAATAATTGATT
66 CATAGAAAGCTTTGTTACTAGCTTTAAATGATATATTAATTCATTTATAAACTT-ATAAATGATT
* * *
13900855 ATAAATT-AAAATCTTTGTTGT-TGTTGGTTAAAACCTACCATAATTGGAT-TTTGCATTGGGAA
130 ATAAATTGAAAA-C-ATGTT-TATCTTGGTTAAAACCTATCATAATTGGATGTTTGCATT-GGAA
* * * * * * *
13900917 ACATGAAGTCGATGCCATCCATTGACAAGAAAAGTCCA-TTGAATTTAATCAAGCCAAT-GAAAT
191 ACATGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCC-ATCGAAAG
* * * * *
13900980 CTTTGTTACT-CACTTTAAATGATGTATTAGTTCCTTTATAACCTTTTA-AATA-ATTGTAAATC
255 CTTTGTTACTGCACTTTAAATGATATATTAATTCATTTATAA--TTTTATAATAGATTATAAATT
* * *
13901042 GAAATCTATGATT-TTCTTGGTTAAAACCTATCATAATTAGATGGTT
318 GAAATCT-TTATTGTTGTTGGTTAAAACCTATCATAATTAGATGTTT
* * *
13901088 GCATTGGGAAACATGAAGTGGATGCTAT--ATATGAAAAGAAAAGACCATTTTAAATTAATCATG
1 GCATTGGGAAACGTGAAGTGGATGCTATCCAT-TGACAAGAAAAGACCATTTTAAGTTAATCATG
* * * * *
13901151 CCATCGAAAGCTTTGTT--T--C-----AT-A-CTATTAATTCATTTATAATCTTAGAAATTATT
65 CCATAGAAAGCTTTGTTACTAGCTTTAAATGATATATTAATTCATTTATAAACTTATAAATGATT
* *** * *
13901205 ATAAA-TCAAAATCTATGGACAT-TATGGTCAAAACCTATCATAATTAGATGTTTGCATTTGGAA
130 ATAAATTGAAAA-C-ATGTTTATCT-TGGTTAAAACCTATCATAATTGGATGTTTGCA-TTGGAA
* * * * *
13901268 ACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACTATTATAAGTTAATCATACCATCAAAAGC
191 ACATGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGC
* * *
13901333 TTTGTTA-TGCACTTTAACTAATATATTAATTCATTTATTATTTTATAATAGATTATAAATTGAA
256 TTTGTTACTGCACTTTAAATGATATATTAATTCATTTATAATTTTATAATAGATTATAAATTGAA
**
13901397 ATCTTTATTGTTGTTCATTAAAACCTATCATAATTAGATGTTT
321 ATCTTTATTGTTGTTGGTTAAAACCTATCATAATTAGATGTTT
* * * * * * *
13901440 GCTTTGGGAAATGTGAAGTGGATGCAATCCATTGACAAGAAAGGACCA-TTTAAATTAATGATGT
1 GCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
* * * *
13901504 CATAGAAAGCTTTGTTACTAGCTTTAAATGATATATTATTTCCTTTACAACCTTATAAATGATTA
66 CATAGAAAGCTTTGTTACTAGCTTTAAATGATATATTAATTCATTTATAAACTTATAAATGATTA
* *
13901569 TAAATTGAAACACATGTTTATCTTGATTAAAACCTATCATAATTGGATGTTTGCATTGTGAAACG
131 TAAATTGAAA-ACATGTTTATCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTG-GAAACA
* * * *
13901634 TGAAGTGGATGCTATCCATTGACAAGAAAAGTCCATTTTAGGTTAATCATGCCTTCAAAAGCTTT
194 TGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTTT
* * * * * * *
13901699 GTTAGT-CGCTTTAAATGATATATTAATTCACTTATACTCTTATAA-ATGATTGTAAATGGAAAT
259 GTTACTGCACTTTAAATGATATATTAATTCATTTATAATTTTATAATA-GATTATAAATTGAAAT
* * * * * *
13901762 CTTTGGA-CGTT-ATGTTTGAAACCTATCATAATTGGTTGTTT
323 CTTT--ATTGTTGTTGGTTAAAACCTATCATAATTAGATGTTT
* * * * * * ** * * * *
13901803 TCATTGGTAAAGGTTATGTGGATGTTATCCATTGATGACAAAAGACAATTTTAAGTTAATGAGGC
1 GCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
* * *
13901868 CATCA-AAAGCTTTGTTACGAGCTATAAATGATATATTAATTCATTTAGAAACTTATAAATGATT
66 CAT-AGAAAGCTTTGTTACTAGCTTTAAATGATATATTAATTCATTTATAAACTTATAAATGATT
* * * ** * * *
13901932 ATAAATCGAAATCTTTGTTGCTTTTGGTTAAACCCTATCATAATTGGTTGTTTGCATTGCGAAAA
130 ATAAATTGAAAAC-ATGTTTATCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTG-G-AAA
* *
13901997 CATGAAGTGGACGCTATCCATTGGA-AA-AAAAGACCATTTTATGTTAATCATGCCATCGAAAGC
192 CATGAAGTGGATGCTATCCATT-GACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGC
* * * **
13902060 TTTGTTACTTG--CTTTAAATGATACATTAATTCATTTAAAATTTTTTAATTTATTATAAATTGA
256 TTTGTTAC-TGCACTTTAAATGATATATTAATTCATTTATAATTTTATAATAGATTATAAATTGA
* * * *
13902123 AATCTTTGTTGTTGTTGGTTAAAACCTTTCATAGTTGGATGTTT
320 AATCTTTATTGTTGTTGGTTAAAACCTATCATAATTAGATGTTT
* * * * * *
13902167 GCATTGTGAAAACGTGAAGTGGATGTTATCTAGTGGA-AACAAAAGACTATTTTAAGTTAATCAT
1 GCATTG-GGAAACGTGAAGTGGATGCTATCCA-TTGACAAGAAAAGACCATTTTAAGTTAATCAT
* * *
13902231 GCCATCGAAAGCTTTTGTTACTCA-CTTTAAATGATATATTAATTCTTTTATAATCTTATAAATG
64 GCCATAGAAAGC-TTTGTTACT-AGCTTTAAATGATATATTAATTCATTTATAAACTTATAAATG
* * *** * * * * *
13902295 ATTATAAA-TCAAAATCTTGTGGCTTTATGGTTAGAACCTATTATAATTGGATGATTACATTGGG
127 ATTATAAATTGAAAA-CATGTTTATCT-TGGTTAAAACCTATCATAATTGGATGTTTGCATT-GG
* * * * *
13902359 AAACATGAAGTGGATGCTATCTATTGATAA-AAAAGGACCATTTCT-AGTCAATCATGCAATTGA
189 AAACATGAAGTGGATGCTATCCATTGACAAGAAAA-GACCATTT-TAAGTTAATCATGCCATCGA
* * * * * ** *
13902422 AAGCCTTGTTAGT-CACTCTAAATGATATATTAGTTCCTTTATAATCGTATAA-ATGATTATTAA
252 AAGCTTTGTTACTGCACTTTAAATGATATATTAATTCATTTATAATTTTATAATA-GATTATAAA
** * * * **
13902485 TTGAAATCTTGGTTATTGGTGGTTAAAGCCTATCATAATTAGATGTAC
316 TTGAAATCTTTATTGTTGTTGGTTAAAACCTATCATAATTAGATGTTT
* * * * * * ** * *
13902533 ACTTTGGTAAATGTGAAATGAATTTTATCCAATGAAAAG-AAAGACCA-TTTAAGTTAATCATGC
1 GCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
* *
13902596 CATAGAAAGCTTTGTTACTCA-CTTTAAATGATATTTTAGTTCATTTATAAACTTATAAATGATT
66 CATAGAAAGCTTTGTTACT-AGCTTTAAATGATATATTAATTCATTTATAAACTTATAAATGATT
* * * * *
13902660 ATAAATTGAAATCTATTTTTTTCTTTGTTAAAACCTATCATAATTGGATGTTTGCATCGGAAAAC
130 ATAAATTGAAAAC-ATGTTTATCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTGG-AAAC
*
13902725 ATCAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTT
193 ATGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTT
* * * * *
13902790 TGTTACT-CACTATAACA-GATATATTAATTCGTTTATAATTTTATAATTGATTATAAACTAAAA
258 TGTTACTGCACTTTAA-ATGATATATTAATTCATTTATAATTTTATAATAGATTATAAATTGAAA
* * *
13902853 TCTTTATTGCTGTTTGTTAAAACCTATCATAATTGGATGTTT
322 TCTTTATTGTTGTTGGTTAAAACCTATCATAATTAGATGTTT
* ** * * ** * *
13902895 GCTTTTAGAAACGTGAAGTGGATGCGATCCATTGACAAGAAAAGACCA-TTGAAAATAAGCAAGC
1 GCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
* * * * **
13902959 CATAGAAAGCTTTGTTACTTGCTTTACATGATATATTAGTTCCTTTACT-TCCTTATAAATGATT
66 CATAGAAAGCTTTGTTACTAGCTTTAAATGATATATTAATTCATTTA-TAAACTTATAAATGATT
* ** * * * * **
13903023 ATAAATCGAAATTTATGTTTTTCTTGGTTAAAACCTATCATTACTAGATGTTTGCATTGGAAATG
130 ATAAATTGAAA-ACATGTTTATCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTGGAAACA
* * * *
13903088 TGGAGTGGATGCTATCCATTGACAAGACAAAAACCATTTTAAGTTAATCATGACATTGAAAGGC-
194 TGAAGTGGATGCTATCCATTGACAAGA-AAAGACCATTTTAAGTTAATCATGCCATCGAAA-GCT
* *
13903152 TTGCTACT-CA-TTTAAAATGATATATTAATTCATTTATAATCTTATAA
257 TTGTTACTGCACTTT-AAATGATATATTAATTCATTTATAATTTTATAA
13903199 ATGATTGTAA
Statistics
Matches: 1732, Mismatches: 305, Indels: 147
0.79 0.14 0.07
Matches are distributed among these distances:
349 2 0.00
350 63 0.04
351 58 0.03
352 149 0.09
353 14 0.01
354 3 0.00
356 1 0.00
357 1 0.00
359 1 0.00
360 2 0.00
361 47 0.03
362 310 0.18
363 476 0.27
364 259 0.15
365 145 0.08
366 198 0.11
367 3 0.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (363 bp):
GCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
CATAGAAAGCTTTGTTACTAGCTTTAAATGATATATTAATTCATTTATAAACTTATAAATGATTA
TAAATTGAAAACATGTTTATCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTGGAAACATG
AAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTTTGT
TACTGCACTTTAAATGATATATTAATTCATTTATAATTTTATAATAGATTATAAATTGAAATCTT
TATTGTTGTTGGTTAAAACCTATCATAATTAGATGTTT
Found at i:13901934 original size:545 final size:543
Alignment explanation
Indices: 13900726--13903210 Score: 2513
Period size: 545 Copynumber: 4.6 Consensus size: 543
13900716 AGGTTTCACA
* *
13900726 GCATTGTGAAACGTGAAGTGGATGCTATCCATTGGCAAGAAAAGACCATTTTAAGTTAATCATGT
1 GCATTG-GAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
** ** * ** * * *
13900791 TGTTGAAAGCTTTGTTTCTTGCTTTAAATGATATATTAAGTCATTTA-TAATTTAATAATTGATT
65 CATCAAAAGCTTTGTTACGAGCTTTAAATGATATATTAATTCATTTATTAACTT-ATAAATGATT
* * * *
13900855 ATAAATTAAAATCTTTGTTGTTGTTGGTTAAAACCTACCATAATTGGAT-TTTGCATTGGGAAAC
129 ATAAATTGAAATCTTTGTTGTTGTTGGTTAAAACCTATCATAATTAGATGTTTGCATTGGGAAAT
* * * * * * * *
13900919 ATGAAGTCGATGCCATCCATTGACAAGAAAAGTCCATTGAATTTAATCAAGCCA-ATGAAATCTT
194 GTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTAAGTTAATCATGCCATA-GAAAGCTT
* * * * * * *
13900983 TGTTACTCACTTTAAATGATGTATTAGTTCCTTTATAACCTTTTAAATAATTGTAAATCGAAATC
258 TGTTACT-ACTTTAAATGATATATTAATTCATTTATAACCTTATAAATGATTATAAATTGAAATC
* * *
13901048 TATGATTTTCTTGGTTAAAACCTATCATAATTAGATGGTTGCATTG-GGAAACATGAAGTGGATG
322 TATG-TTTTCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTGTGAAAACATGAAGTGGATG
* *
13901112 CTAT--ATATGAAAAGAAAAGACCATTTTAAATTAATCATGCCATCGAAAGCTTTGTT--T--C-
386 CTATCCAT-TGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTTTGTTACTCACT
* * * *
13901170 ----AT-A-CTATTAATTCATTTATAATCTTAGAAATTATTATAAATCAAAATC-TATGGACATT
450 TTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTTATGG-CGTT
* *
13901228 ATGGTCAAAACCTATCATAATTAGATGTTT
514 ATGGTTAAAACCTATCATAATTGGATGTTT
* * *
13901258 GCATTTGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACTATTATAAGTTAATCATAC
1 GCA-TTGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
* * * **
13901323 CATCAAAAGCTTTGTTATGCA-CTTTAACTAATATATTAATTCATTTATTATTTTAT-AATAGAT
65 CATCAAAAGCTTTGTTACG-AGCTTTAAATGATATATTAATTCATTTATTAACTTATAAAT-GAT
* ** *
13901386 TATAAATTGAAATCTTTATTGTTGTTCATTAAAACCTATCATAATTAGATGTTTGCTTTGGGAAA
128 TATAAATTGAAATCTTTGTTGTTGTTGGTTAAAACCTATCATAATTAGATGTTTGCATTGGGAAA
* * * * *
13901451 TGTGAAGTGGATGCAATCCATTGACAAGAAAGGACCATTTAAATTAATGATGTCATAGAAAGCTT
193 TGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTAAGTTAATCATGCCATAGAAAGCTT
* * *
13901516 TGTTACTAGCTTTAAATGATATATTATTTCCTTTACAACCTTATAAATGATTATAAATTGAAA-C
258 TGTTACTA-CTTTAAATGATATATTAATTCATTTATAACCTTATAAATGATTATAAATTGAAATC
* * *
13901580 ACATGTTTATCTTGATTAAAACCTATCATAATTGGATGTTTGCATTGTG-AAACGTGAAGTGGAT
322 -TATGTTT-TCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTGTGAAAACATGAAGTGGAT
* * * * * *
13901644 GCTATCCATTGACAAGAAAAGTCCATTTTAGGTTAATCATGCCTTCAAAAGCTTTGTTAGTCGCT
385 GCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTTTGTTACTCACT
* * * **
13901709 TTAAATGATATATTAATTCACTTATACTCTTATAAATGATTGTAAATGGAAATCTT-TGGACGTT
450 TTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTTATGG-CGTT
* * *
13901773 ATGTTTGAAACCTATCATAATTGGTTGTTT
514 ATGGTTAAAACCTATCATAATTGGATGTTT
* * * * * ** * * * *
13901803 TCATTGGTAAAGGTTATGTGGATGTTATCCATTGATGACAAAAGACAATTTTAAGTTAATGAGGC
1 GCATTGG-AAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
* **
13901868 CATCAAAAGCTTTGTTACGAGCTATAAATGATATATTAATTCATTTAGAAACTTATAAATGATTA
65 CATCAAAAGCTTTGTTACGAGCTTTAAATGATATATTAATTCATTTATTAACTTATAAATGATTA
* * * * *
13901933 TAAATCGAAATCTTTGTTGCTT-TTGGTTAAACCCTATCATAATTGGTTGTTTGCATTGCGAAAA
130 TAAATTGAAATCTTTGTTG-TTGTTGGTTAAAACCTATCATAATTAGATGTTTGCATTG-GGAAA
** * * *
13901997 CATGAAGTGGACGCTATCCATTGGA-AA-AAAAGACCATTTTATGTTAATCATGCCATCGAAAGC
193 TGTGAAGTGGATGCTATCCATT-GACAAGAAAAGACCA-TTTAAGTTAATCATGCCATAGAAAGC
* * * ** * * *
13902060 TTTGTTACTTGCTTTAAATGATACATTAATTCATTTAAAATTTTTTAATTTATTATAAATTGAAA
256 TTTGTTAC-TACTTTAAATGATATATTAATTCATTTATAACCTTATAAATGATTATAAATTGAAA
* * * * *
13902125 TCTTTGTTGTTGTTGGTTAAAACCTTTCATAGTTGGATGTTTGCATTGTGAAAACGTGAAGTGGA
320 TCTATGTT-TTCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTGTGAAAACATGAAGTGGA
* * * * *
13902190 TGTTATCTAGTGGA-AACAAAAGACTATTTTAAGTTAATCATGCCATCGAAAGCTTTTGTTACTC
384 TGCTATCCA-TTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGC-TTTGTTACTC
* * *
13902254 ACTTTAAATGATATATTAATTCTTTTATAATCTTATAAATGATTATAAATCAAAATCTTGTGGCT
447 ACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTTATGGCG
* * *
13902319 TTATGGTTAGAACCTATTATAATTGGATGATT
512 TTATGGTTAAAACCTATCATAATTGGATGTTT
* * * * *
13902351 ACATTGGGAAACATGAAGTGGATGCTATCTATTGATAA-AAAAGGACCATTTCT-AGTCAATCAT
1 GCATT-GGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAA-GACCATTT-TAAGTTAATCAT
* ** * * * * *
13902414 GCAATTGAAAGCCTTGTTA-GTCA-CTCTAAATGATATATTAGTTCCTTTA-TAATCGTATAAAT
63 GCCATCAAAAGCTTTGTTACG--AGCTTTAAATGATATATTAATTCATTTATTAA-CTTATAAAT
* * * * * *** * *
13902476 GATTATTAATTGAAATCTTGGTTATTGGTGGTTAAAGCCTATCATAATTAGATGTACACTTTGGT
125 GATTATAAATTGAAATCTTTGTTGTTGTTGGTTAAAACCTATCATAATTAGATGTTTGCATTGGG
* * ** * *
13902541 AAATGTGAAATGAATTTTATCCAATGAAAAG-AAAGACCATTTAAGTTAATCATGCCATAGAAAG
190 AAATGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTAAGTTAATCATGCCATAGAAAG
* * *
13902605 CTTTGTTACTCACTTTAAATGATATTTTAGTTCATTTATAAACTTATAAATGATTATAAATTGAA
255 CTTTGTTACT-ACTTTAAATGATATATTAATTCATTTATAACCTTATAAATGATTATAAATTGAA
* * * *
13902670 ATCTATTTTTTTCTTTGTTAAAACCTATCATAATTGGATGTTTGCATCG-GAAAACATCAAGTGG
319 ATCTA-TGTTTTCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTGTGAAAACATGAAGTGG
13902734 ATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTTTGTTACTCA
383 ATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTTTGTTACTCA
* * * * *
13902799 CTATAACA-GATATATTAATTCGTTTATAATTTTATAATTGATTATAAA-CTAAAATCTTTATTG
448 CTTTAA-ATGATATATTAATTCATTTATAATCTTATAAATGATTATAAATC-AAAATC-TTATGG
13902862 CTGTT-T-GTTAAAACCTATCATAATTGGATGTTT
510 C-GTTATGGTTAAAACCTATCATAATTGGATGTTT
* * * * ** * *
13902895 GCTTTTAGAAACGTGAAGTGGATGCGATCCATTGACAAGAAAAGACCA-TTGAAAATAAGCAAGC
1 GC-ATTGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGC
** * * * *
13902959 CAT-AGAAAGCTTTGTTACTTGCTTTACATGATATATTAGTTCCTTTACTT-CCTTATAAATGAT
65 CATCA-AAAGCTTTGTTACGAGCTTTAAATGATATATTAATTCATTTA-TTAACTTATAAATGAT
* * * * *
13903022 TATAAATCGAAAT-TTATGTTTTTCTTGGTTAAAACCTATCATTACTAGATGTTTGCATT-GGAA
128 TATAAATTGAAATCTT-TGTTGTTGTTGGTTAAAACCTATCATAATTAGATGTTTGCATTGGGAA
* * * *
13903085 ATGTGGAGTGGATGCTATCCATTGACAAGACAAAAACCATTTTAAGTTAATCATGACATTGAAAG
192 ATGTGAAGTGGATGCTATCCATTGACAAGA-AAAGACCA-TTTAAGTTAATCATGCCATAGAAA-
* * *
13903150 GC-TTGCTACT-CATTTAAAATGATATATTAATTCATTTATAATCTTATAAATGATTGTAAAT
254 GCTTTGTTACTAC-TTT-AAATGATATATTAATTCATTTATAACCTTATAAATGATTATAAAT
13903211 CAAAATCTTA
Statistics
Matches: 1606, Mismatches: 278, Indels: 125
0.80 0.14 0.06
Matches are distributed among these distances:
531 2 0.00
532 145 0.09
533 183 0.11
534 45 0.03
535 2 0.00
536 1 0.00
538 1 0.00
542 27 0.02
543 104 0.06
544 135 0.08
545 365 0.23
546 264 0.16
547 99 0.06
548 226 0.14
549 7 0.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (543 bp):
GCATTGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTTAATCATGCC
ATCAAAAGCTTTGTTACGAGCTTTAAATGATATATTAATTCATTTATTAACTTATAAATGATTAT
AAATTGAAATCTTTGTTGTTGTTGGTTAAAACCTATCATAATTAGATGTTTGCATTGGGAAATGT
GAAGTGGATGCTATCCATTGACAAGAAAAGACCATTTAAGTTAATCATGCCATAGAAAGCTTTGT
TACTACTTTAAATGATATATTAATTCATTTATAACCTTATAAATGATTATAAATTGAAATCTATG
TTTTCTTGGTTAAAACCTATCATAATTGGATGTTTGCATTGTGAAAACATGAAGTGGATGCTATC
CATTGACAAGAAAAGACCATTTTAAGTTAATCATGCCATCGAAAGCTTTGTTACTCACTTTAAAT
GATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTTATGGCGTTATGGTTA
AAACCTATCATAATTGGATGTTT
Found at i:13906456 original size:39 final size:39
Alignment explanation
Indices: 13906386--13906479 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 39
13906376 CGAGATTGAA
*
13906386 TCTCGCTGCAGCAAAATTGTAGCCCAAAAACAG-AATGTT
1 TCTCGCTGCAGCGAAATTGTAGCCCAAAAACAGAAAT-TT
* *
13906425 TCTCACTGCAGCGAAATTGCTA-CCCATAAACAGAAATTT
1 TCTCGCTGCAGCGAAATTG-TAGCCCAAAAACAGAAATTT
13906464 TCTCGCTGCAGCGAAA
1 TCTCGCTGCAGCGAAA
13906480 ATGCATCCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 44 0.90
40 5 0.10
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (39 bp):
TCTCGCTGCAGCGAAATTGTAGCCCAAAAACAGAAATTT
Found at i:13913179 original size:28 final size:27
Alignment explanation
Indices: 13913143--13913195 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
13913133 AATACTCTAG
13913143 GGGTGCAAAATTACCAATTTGCCCCTA
1 GGGTGCAAAATTACCAATTTGCCCCTA
*
13913170 GGGTGGCAAAATTACCATTTTGCCCC
1 GGGT-GCAAAATTACCAATTTGCCCC
13913196 AGTACTCCAA
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:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (27 bp):
GGGTGCAAAATTACCAATTTGCCCCTA
Found at i:13916672 original size:20 final size:20
Alignment explanation
Indices: 13916644--13916681 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13916634 ACCTAGCTTG
13916644 TTTCCTTG-ATTTCTTCACTT
1 TTTCCTTGAATTT-TTCACTT
*
13916664 TTTCTTTGAATTTTTCAC
1 TTTCCTTGAATTTTTCAC
13916682 CTAGGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.13, C:0.21, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTCCTTGAATTTTTCACTT
Found at i:13920526 original size:27 final size:27
Alignment explanation
Indices: 13920475--13920526 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
13920465 ATGTCCTGGT
*
13920475 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTGACCCTAG
*
13920502 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
13920527 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTAG
Found at i:13920597 original size:20 final size:20
Alignment explanation
Indices: 13920572--13920617 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
13920562 CTTCTAAACC
*
13920572 TCAAATCCTACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
13920592 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
13920612 TCAAAT
1 TCAAAT
13920618 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:13924743 original size:5 final size:5
Alignment explanation
Indices: 13924736--13924775 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
13924726 CTATTCAATC
* *
13924736 TAACC TAACT TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
13924776 GGACTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:13926274 original size:13 final size:13
Alignment explanation
Indices: 13926258--13926283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13926248 TTCCAAAAAA
13926258 TTTATAAAATCAT
1 TTTATAAAATCAT
13926271 TTTATAAAATCAT
1 TTTATAAAATCAT
13926284 AATTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13927143 original size:20 final size:20
Alignment explanation
Indices: 13927115--13927152 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13927105 ACCTAGCTTG
13927115 TTTCCTTG-ATTTCTTCACTT
1 TTTCCTTGAATTT-TTCACTT
*
13927135 TTTCTTTGAATTTTTCAC
1 TTTCCTTGAATTTTTCAC
13927153 CTAGGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.13, C:0.21, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTCCTTGAATTTTTCACTT
Found at i:13927450 original size:28 final size:27
Alignment explanation
Indices: 13927411--13927463 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
13927401 ATGTCCTGGT
*
13927411 GGTGGAAAATTACAATTTTGCCCTTGG
1 GGTGGAAAATTACAATTTTACCCTTGG
*
13927438 GGTGGCAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
13927464 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTGG
Found at i:13927533 original size:20 final size:20
Alignment explanation
Indices: 13927508--13927553 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
13927498 CTTCTAAACC
*
13927508 TCAAATCCTACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
13927528 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
13927548 TCAAAT
1 TCAAAT
13927554 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:13933694 original size:183 final size:177
Alignment explanation
Indices: 13933269--13934114 Score: 680
Period size: 183 Copynumber: 4.7 Consensus size: 177
13933259 TTGACATAAA
* ** * *
13933269 TGGATGCTATCCATTAACAACCAAAGACAATTTTAAGTTAATGATGCGATCAAAAGCTTTGTTAC
1 TGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTAC
* ** * * * ** * * ** **
13933334 TT-ATGACAAATGATATATTAATTAATTTAGACTCTTATAAATGGTTATAAATTGAAATGAATGT
66 TTGCT-TTAAATGATATATTAACTCATTTATAAACTCATAAATGATTATAAATCAAAATCTATG-
* * * **
13933398 CTTTTTTGCTT-AAAACTATCGTAATTGGATGTTTGCATT-AGGAAACAAT-AAG
129 CTTTCTTGGTTAAAAACTATCAT-ATT--A-GTTTGCATTGA-GAAA-TGTGAAG
* * * * * *
13933450 TGGATGCCATCCATTGATAAGAAAATACCATTTTAGGTTAATCATGCCATCAAAAGCTTTGTTAG
1 TGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTAC
* *
13933515 ATGCTTTAAATGATATTTTATA-TCATTTATAAACTCATAAATGATTATAAATCAAAATCTATGC
66 TTGCTTTAAATGATATATTA-ACTCATTTATAAACTCATAAATGATTATAAATCAAAATCTATGC
*
13933579 TTTCCTTGGTTAAAAACATATCATAATTTAAGGTTTCCATTGAGAAATGTGAAG
130 TTT-CTTGGTTAAAAAC-TATCAT-A-TT-A-GTTTGCATTGAGAAATGTGAAG
* * * * **
13933633 TGGATGCTTTCCATTGTCAGGAAAAGACAATTTTAACTTAATCATGCCATTGAAAGCTTTGTTAC
1 TGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTAC
* * * * ** ** * *
13933698 TTGCTTTAAATGATATATCAATTCATTTATAATCTTATAAATGATGGTAAATTGAAATCTTTGGT
66 TTGCTTTAAATGATATATTAACTCATTTATAAACTCATAAATGATTATAAATCAAAATCTATGCT
* * * *
13933763 CTCTATGTTTAAAAGCTATC-----AGTTTGCATTGGGAAGCAT-T-AAG
131 TTCT-TGGTTAAAAACTATCATATTAGTTTGCATTGAGAA--ATGTGAAG
*** * * **
13933806 TGGACATTATCAATTGACAACAAAAGACAATTTTAAGTTAAAGATGCCATCAAAAGCTTTGTTAC
1 TGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTAC
* * * * *
13933871 TTGCTATAAATGATATTTTAGA-TTATTTATAAACAT-ATAAATGATTCTCAATCAAAATCTATG
66 TTGCTTTAAATGATATATTA-ACTCATTTATAAAC-TCATAAATGATTATAAATCAAAATCTATG
* * *
13933934 TTTTTCTTGGTTAAAATCTATCATACTTGGATGTTTGCATTAAGAAATGTGAAG
129 -CTTTCTTGGTTAAAAACTATCATA-TT--A-GTTTGCATTGAGAAATGTGAAG
* * *
13933988 TGGATGCTATCCATTGACAAGAAAAGACCATTTTAAGTCAATCATGCCATCGAAAGCTTTGTTAC
1 TGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTAC
** *
13934053 TCACTTTAAATGATATATTAACTCATTTAT-AAC-CCTAAAATGATTATAAATCAAAATCTATG
66 TTGCTTTAAATGATATATTAACTCATTTATAAACTCAT-AAATGATTATAAATCAAAATCTATG
13934115 TTTTTCTTAA
Statistics
Matches: 526, Mismatches: 110, Indels: 58
0.76 0.16 0.08
Matches are distributed among these distances:
173 128 0.24
174 8 0.02
175 2 0.00
180 7 0.01
181 132 0.25
182 108 0.21
183 138 0.26
184 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (177 bp):
TGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTAC
TTGCTTTAAATGATATATTAACTCATTTATAAACTCATAAATGATTATAAATCAAAATCTATGCT
TTCTTGGTTAAAAACTATCATATTAGTTTGCATTGAGAAATGTGAAG
Found at i:13935501 original size:20 final size:20
Alignment explanation
Indices: 13935453--13935501 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
13935443 AATGGCATAA
*
13935453 GAGCATAAAAATGGCGTTGG
1 GAGCATGAAAATGGCGTTGG
* ** *
13935473 GTGGGTGAAAATGGTGTTGG
1 GAGCATGAAAATGGCGTTGG
13935493 GAGCATGAA
1 GAGCATGAA
13935502 GGTGGAGGAG
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.41, T:0.22
Consensus pattern (20 bp):
GAGCATGAAAATGGCGTTGG
Found at i:13936860 original size:365 final size:364
Alignment explanation
Indices: 13936272--13937010 Score: 870
Period size: 365 Copynumber: 2.0 Consensus size: 364
13936262 AAAGGCTATC
* * * * * * *
13936272 TGTTCGCATTGGGAAACGTTAAGTGGATGCTATCCATTGACAATAAAGGACAATTTTAAGTTAAT
1 TGTTTGCATTAGGAAACATGAAATGGATGCTATCCATTGAAAATAAAAGACAATTTTAAGTTAAT
* * ** * ** * *
13936337 GATGCCGTCGAAAGCTTTGTTACTTGCCATAAATGATATTTTAGTTTATTTATAAACTTATAAAT
66 GATGCCATCAAAAGCTTTGTTACTCACCATAAATGATATATTAACTCATTTACAAACTTATAAAT
* * *** * * *
13936402 TATTCTAAATCAAAATCTATGTTTTTTTTGGATAAAACCTATCATACTTGGATGTTTTCATCGAC
131 GATTCTAAATCAAAATATATGGACTTTATGGATAAAACCTATCATAATTGGATGTTTGCATCGAC
* * * * * * * *
13936467 ATACGTGATGTGGATGTTATCGATTGACAATAAAAGGCCATTTTAAGTTAAGCATGCCATTGAAA
196 AAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAAGCATG-CATTCAAA
13936532 A-CTTTGATACTCACTTTAAATGATATATTAATTCATTTATA-ATCCTATAAATGATTATAAATC
260 AGCTTTGATACTCACTTTAAATGATATATTAATTCATTTATAGA-CCTATAAATGATTATAAATC
* *
13936595 AAAATATATGCTTTTCTTGTTTAAAACCTATTAGAATTGGA
324 AAAATATATGCTTTTCTTGTTTAAAACCAATCAGAATTGGA
*
13936636 TGTTTGCATTAGGAAACATGAAATGGATGCTATCCATTGAAAATAAAAGACCATTTTTAAGTTAA
1 TGTTTGCATTAGGAAACATGAAATGGATGCTATCCATTGAAAATAAAAGA-CAATTTTAAGTTAA
* ** *
13936701 TTATGCCATCAAAAGCTTTGTTACTCACTTTAAATGATATATTAACTCATTTACAATCTTATAAA
65 TGATGCCATCAAAAGCTTTGTTACTCACCATAAATGATATATTAACTCATTTACAAACTTATAAA
* * * ** ** * * *
13936766 TGATTGTAAATCGAAATATTTGGACTTTATGTCTAAAAGTTATTATAATTGGATGTTTGCATTGG
130 TGATTCTAAATCAAAATATATGGACTTTATGGATAAAACCTATCATAATTGGATGTTTGCATCGA
* * *
13936831 GAAACGTTAAGTGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAATCATGCATTCAAA
195 CAAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAAGCATGCATTCAAA
* ** * * * * *
13936896 AGCTTTGTTACTTGCTTTAAATGATATATTAATTTATTTATAGACTTATAAATGTTTCTCAATCA
260 AGCTTTGATACTCACTTTAAATGATATATTAATTCATTTATAGACCTATAAATGATTATAAATCA
* * *
13936961 AAATCTATGTTTTTCTTGTTTAAAACCAATCATAATTGGA
325 AAATATATGCTTTTCTTGTTTAAAACCAATCAGAATTGGA
13937001 TGTTTGCATT
1 TGTTTGCATT
13937011 GAGAAACTTA
Statistics
Matches: 309, Mismatches: 63, Indels: 5
0.82 0.17 0.01
Matches are distributed among these distances:
364 51 0.17
365 257 0.83
366 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (364 bp):
TGTTTGCATTAGGAAACATGAAATGGATGCTATCCATTGAAAATAAAAGACAATTTTAAGTTAAT
GATGCCATCAAAAGCTTTGTTACTCACCATAAATGATATATTAACTCATTTACAAACTTATAAAT
GATTCTAAATCAAAATATATGGACTTTATGGATAAAACCTATCATAATTGGATGTTTGCATCGAC
AAACGTGAAGTGGATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAAGCATGCATTCAAAA
GCTTTGATACTCACTTTAAATGATATATTAATTCATTTATAGACCTATAAATGATTATAAATCAA
AATATATGCTTTTCTTGTTTAAAACCAATCAGAATTGGA
Found at i:13937010 original size:182 final size:183
Alignment explanation
Indices: 13936178--13937017 Score: 848
Period size: 182 Copynumber: 4.7 Consensus size: 183
13936168 AGGTATTACA
** * *
13936178 CTTTGTTACTTGCTTTAAATGATATATCAATTCATTTATAATCTTATAAATGATTGTAAATCAAA
1 CTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTCTAAATCAAA
* * ** ** * *
13936243 ATCTTTG-TACTCTATGTTTAAAGGCTATC---------TGTTCGCATTGGGAAACGTTAAGTGG
66 ATATATGTTTTTCT-TGTTTAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGG
* * * *
13936298 ATGCTATCCATTGACAATAAAGGACAATTTTAAGTTAATGATGCC-GTCGAAAG
130 ATGCTATCCATTGACAATAAAAGACAATTTTAAGTTAATCATGCCATTCAAAAG
** ** * * * * *
13936351 CTTTGTTACTTGCCATAAATGATATTTTAGTTTATTTATAAACTTATAAATTATTCTAAATCAAA
1 CTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTCTAAATCAAA
* * ** * * * ** * *
13936416 ATCTATGTTTTTTTTGGATAAAACCTATCATACTTGGATGTTTTCATCGACATACGTGATGTGGA
66 ATATATGTTTTTCTTGTTTAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGA
* * * * * *
13936481 TGTTATCGATTGACAATAAAAGGCCATTTTAAGTTAAGCATGCCATTGAAAA-
131 TGCTATCCATTGACAATAAAAGACAATTTTAAGTTAATCATGCCATTCAAAAG
* * *
13936533 CTTTGATACTCACTTTAAATGATATATTAATTCATTTATAATCCTATAAATGATTATAAATCAAA
1 CTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTCTAAATCAAA
* * * * * *
13936598 ATATATGCTTTTCTTGTTTAAAACCTATTAGAATTGGATGTTTGCATTAGGAAACATGAAATGGA
66 ATATATGTTTTTCTTGTTTAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGA
* * *
13936663 TGCTATCCATTGAAAATAAAAGACCATTTTTAAGTTAATTATGCCA-TCAAAAG
131 TGCTATCCATTGACAATAAAAGA-CAATTTTAAGTTAATCATGCCATTCAAAAG
* * * *
13936716 CTTTGTTACTCACTTTAAATGATATATTAACTCATTTACAATCTTATAAATGATTGTAAATCGAA
1 CTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTCTAAATCAAA
* ** * * ** * *
13936781 ATATTTGGACTTT-ATGTCTAAAAGTTATTATAATTGGATGTTTGCATTGGGAAACGTTAAGTGG
66 ATATAT-GTTTTTCTTGTTTAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGG
*
13936845 ATGCTATCCATTGACAAGAAAAGACAATTTTAAGTTAATCATG-CATTCAAAAG
130 ATGCTATCCATTGACAATAAAAGACAATTTTAAGTTAATCATGCCATTCAAAAG
** * * *
13936898 CTTTGTTACTTGCTTTAAATGATATATTAATTTATTTATAGA-CTTATAAATGTTTCTCAATCAA
1 CTTTGTTACTCACTTTAAATGATATATTAATTCATTTATA-ATCTTATAAATGATTCTAAATCAA
* * *
13936962 AATCTATGTTTTTCTTGTTTAAAACCAATCATAATTGGATGTTTGCATTGAGAAAC
65 AATATATGTTTTTCTTGTTTAAAACCTATCATAATTGGATGTTTGCATTGGGAAAC
13937018 TTATATCAGT
Statistics
Matches: 535, Mismatches: 115, Indels: 25
0.79 0.17 0.04
Matches are distributed among these distances:
173 73 0.14
174 3 0.01
181 6 0.01
182 298 0.56
183 151 0.28
184 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (183 bp):
CTTTGTTACTCACTTTAAATGATATATTAATTCATTTATAATCTTATAAATGATTCTAAATCAAA
ATATATGTTTTTCTTGTTTAAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGA
TGCTATCCATTGACAATAAAAGACAATTTTAAGTTAATCATGCCATTCAAAAG
Found at i:13939156 original size:21 final size:22
Alignment explanation
Indices: 13939123--13939163 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13939113 TACCTTTTTT
*
13939123 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
*
13939145 CACTT-TTCCCTTGACTTTT
1 CACTTGTTCCCTTGAATTTT
13939164 TTCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.15, C:0.27, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:13949237 original size:20 final size:22
Alignment explanation
Indices: 13949212--13949259 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
13949202 AACATTGATT
*
13949212 TAACAT-ATTTAT-TTTACCAC
1 TAACATCATATATCTTTACCAC
13949232 TAACATTCATATATCTTTACCAC
1 TAACA-TCATATATCTTTACCAC
13949255 -AACAT
1 TAACAT
13949260 TTAGTACGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 2 0.08
22 9 0.38
23 8 0.33
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (22 bp):
TAACATCATATATCTTTACCAC
Found at i:13961209 original size:43 final size:43
Alignment explanation
Indices: 13961156--13961243 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
13961146 ACACATGAAA
*
13961156 ATTCCCAAAGTGCAATGTATCAAATTTCACATATATGTCAATC
1 ATTCCAAAAGTGCAATGTATCAAATTTCACATATATGTCAATC
13961199 ATTCCAAAAGTGCAATGTATCAAATTTCACATATATGTCAATC
1 ATTCCAAAAGTGCAATGTATCAAATTTCACATATATGTCAATC
13961242 AT
1 AT
13961244 GTATCATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (43 bp):
ATTCCAAAAGTGCAATGTATCAAATTTCACATATATGTCAATC
Found at i:13976258 original size:36 final size:35
Alignment explanation
Indices: 13976212--13976477 Score: 306
Period size: 34 Copynumber: 7.6 Consensus size: 35
13976202 TATCAACATC
*
13976212 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTCCTCA
1 AAAATCAACAGCCAAGCTGCTCTA-TTTTTTCCTCA
* *
13976248 AAAATCAGCAGCCAAGCTACTCTA-TTTTTCCTCA
1 AAAATCAACAGCCAAGCTGCTCTATTTTTTCCTCA
**
13976282 AAAATCAACAGCCAAGCTGCTCTATTTTTTTCCTTG
1 AAAATCAACAGCCAAGCTGCTCTA-TTTTTTCCTCA
13976318 AAAATCAACAGCCAAGCTGCTCTA-TTTTTCCTCA
1 AAAATCAACAGCCAAGCTGCTCTATTTTTTCCTCA
*
13976352 AAAATCAACAGCCAAGTTGCTCTATTTTTTCCTCA
1 AAAATCAACAGCCAAGCTGCTCTATTTTTTCCTCA
* * * * *
13976387 AAAATTAACGGTCAAGCTACTCT-TTTTTTCCTAA
1 AAAATCAACAGCCAAGCTGCTCTATTTTTTCCTCA
* * * * * *
13976421 AAAATCAGCAACTAAGTTGCTCTA-TTCTCCCTCAA
1 AAAATCAACAGCCAAGCTGCTCTATTTTTTCCTC-A
* *
13976456 AAAATCAGCAGCTAAGCTGCTC
1 AAAATCAACAGCCAAGCTGCTC
13976478 CTTTCCTCCC
Statistics
Matches: 198, Mismatches: 27, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
34 94 0.47
35 49 0.25
36 55 0.28
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (35 bp):
AAAATCAACAGCCAAGCTGCTCTATTTTTTCCTCA
Found at i:13976473 original size:69 final size:69
Alignment explanation
Indices: 13976212--13976473 Score: 319
Period size: 70 Copynumber: 3.8 Consensus size: 69
13976202 TATCAACATC
* * *
13976212 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTCCTCAAAAATCAGCAGCCAAGCTACTCTATTTTT
1 AAAATCAACAGCCAAGTTGCTCTA-TTTTTTCCTCAAAAATCAACAGCCAAGCTACTCTATTTTT
13976277 CCTCA
65 CCTCA
* ** *
13976282 AAAATCAACAGCCAAGCTGCTCTATTTTTTTCCTTGAAAATCAACAGCCAAGCTGCTCTATTTTT
1 AAAATCAACAGCCAAGTTGCTCTA-TTTTTTCCTCAAAAATCAACAGCCAAGCTACTCTATTTTT
13976347 CCTCA
65 CCTCA
* * * *
13976352 AAAATCAACAGCCAAGTTGCTCTATTTTTTCCTCAAAAATTAACGGTCAAGCTACTCTTTTTTTC
1 AAAATCAACAGCCAAGTTGCTCTATTTTTTCCTCAAAAATCAACAGCCAAGCTACTCTATTTTTC
*
13976417 CTAA
66 CTCA
* * * * * * *
13976421 AAAATCAGCAACTAAGTTGCTCTA-TTCTCCCTCAAAAAATCAGCAGCTAAGCT
1 AAAATCAACAGCCAAGTTGCTCTATTTTTTCCTC-AAAAATCAACAGCCAAGCT
13976474 GCTCCTTTCC
Statistics
Matches: 167, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
68 7 0.04
69 72 0.43
70 88 0.53
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (69 bp):
AAAATCAACAGCCAAGTTGCTCTATTTTTTCCTCAAAAATCAACAGCCAAGCTACTCTATTTTTC
CTCA
Found at i:13976487 original size:36 final size:35
Alignment explanation
Indices: 13976419--13976493 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
13976409 TTTTTTTCCT
*
13976419 AAAAAATCAGCAACTAAGTTGCTCTATTCTCCCTC
1 AAAAAATCAGCAACTAAGCTGCTCTATTCTCCCTC
*
13976454 AAAAAATCAGCAGCTAAGCTGCTCCT-TTCCTCCCTC
1 AAAAAATCAGCAACTAAGCTGCT-CTATT-CTCCCTC
13976490 AAAA
1 AAAA
13976494 CTTGGCAGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.35, C:0.31, G:0.09, T:0.25
Consensus pattern (35 bp):
AAAAAATCAGCAACTAAGCTGCTCTATTCTCCCTC
Found at i:13976562 original size:34 final size:34
Alignment explanation
Indices: 13976508--13976585 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
13976498 GCAGCCAAAG
*
13976508 CTTCAAAGATCAGCAACCAAAACCACACCTTCAGC
1 CTTCAAA-ATCAGCAACCAAAACCACACCTTAAGC
* * *
13976543 CTTCAAAATCAGTAGCCAAAACCTCACCTTAAGC
1 CTTCAAAATCAGCAACCAAAACCACACCTTAAGC
13976577 CTTCAAAAT
1 CTTCAAAAT
13976586 TAGCTCCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 32 0.82
35 7 0.18
ACGTcount: A:0.40, C:0.33, G:0.08, T:0.19
Consensus pattern (34 bp):
CTTCAAAATCAGCAACCAAAACCACACCTTAAGC
Found at i:13976821 original size:25 final size:25
Alignment explanation
Indices: 13976793--13976845 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
13976783 TGTCTTCCAA
13976793 TTTAGCCG-CCCCCCCCCCTCCATC
1 TTTAGCCGCCCCCCCCCCCTCCATC
13976817 NTTTAGCCGCCCCCCCCCCCTCCATC
1 -TTTAGCCGCCCCCCCCCCCTCCATC
13976843 TTT
1 TTT
13976846 CTTTCTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.08, C:0.58, G:0.08, T:0.25
Consensus pattern (25 bp):
TTTAGCCGCCCCCCCCCCCTCCATC
Found at i:13985288 original size:5 final size:5
Alignment explanation
Indices: 13985278--13985316 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
13985268 TATATATATT
*
13985278 TTTTC TTTTC TTTTC TTTTC TTTTC CTTTC TTTCTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT-TC TTT
13985317 CTCCTTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:13985298 original size:15 final size:15
Alignment explanation
Indices: 13985278--13985325 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
13985268 TATATATATT
*
13985278 TTTTCTTTTCTTTTC
1 TTTTCTTTTCCTTTC
13985293 TTTTCTTTTCCTTTC
1 TTTTCTTTTCCTTTC
13985308 TTTCTCTTTCTCCTTTC
1 TTT-TCTTT-TCCTTTC
13985325 T
1 T
13985326 CCCGCCGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 17 0.57
16 5 0.17
17 8 0.27
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTCTTTTCCTTTC
Found at i:13985569 original size:70 final size:69
Alignment explanation
Indices: 13985485--13985714 Score: 286
Period size: 70 Copynumber: 3.3 Consensus size: 69
13985475 GATCAACATC
* *
13985485 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTTCTCAAAAATCAGTAGCCAAGCTGCTCTATTTTT
1 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTCCTCAAAAATCAGCAGCCAAGCTGCTCTA-TTTT
*
13985550 TCTCA
65 CCTCA
13985555 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTCCTCAAAAATCAGCAGCCAAGCTGCTCTATTTTC
1 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTCCTCAAAAATCAGCAGCCAAGCTGCTCTATTTTC
*
13985620 CTTA
66 CTCA
* * * * *
13985624 AAAATCAGCAGCTAAGCTACT-T-TATTTTTCCTTAAAAATCAGCAGCTAAGCTGCAT-TATTCT
1 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTCCTCAAAAATCAGCAGCCAAGCTGC-TCTATT-T
*
13985686 CCCTCCA
64 TCCT-CA
* * *
13985693 AAAATCATCAACTAAGCTGCTC
1 AAAATCAGCAGCCAAGCTGCTC
13985715 CTTTCCTCCC
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
67 33 0.23
68 6 0.04
69 45 0.32
70 58 0.41
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (69 bp):
AAAATCAGCAGCCAAGCTGCTCTATTTTTTTCCTCAAAAATCAGCAGCCAAGCTGCTCTATTTTC
CTCA
Found at i:13985683 original size:34 final size:34
Alignment explanation
Indices: 13985485--13985714 Score: 266
Period size: 34 Copynumber: 6.6 Consensus size: 34
13985475 GATCAACATC
*
13985485 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTTCTCA
1 AAAATCAGCAGCCAAGCTGCTCTA--TTTTTCCTCA
* *
13985521 AAAATCAGTAGCCAAGCTGCTCTATTTTTTCTCA
1 AAAATCAGCAGCCAAGCTGCTCTATTTTTCCTCA
13985555 AAAATCAGCAGCCAAGCTGCTCTATTTTTTTCCTCA
1 AAAATCAGCAGCCAAGCTGCTCTA--TTTTTCCTCA
*
13985591 AAAATCAGCAGCCAAGCTGCTCTA-TTTTCCTTA
1 AAAATCAGCAGCCAAGCTGCTCTATTTTTCCTCA
* * * *
13985624 AAAATCAGCAGCTAAGCTACTTTATTTTTCCTTA
1 AAAATCAGCAGCCAAGCTGCTCTATTTTTCCTCA
* * *
13985658 AAAATCAGCAGCTAAGCTGCAT-TATTCTCCCTCCA
1 AAAATCAGCAGCCAAGCTGC-TCTATTTTTCCT-CA
* * *
13985693 AAAATCATCAACTAAGCTGCTC
1 AAAATCAGCAGCCAAGCTGCTC
13985715 CTTTCCTCCC
Statistics
Matches: 175, Mismatches: 13, Indels: 13
0.87 0.06 0.06
Matches are distributed among these distances:
33 29 0.17
34 70 0.40
35 20 0.11
36 56 0.32
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (34 bp):
AAAATCAGCAGCCAAGCTGCTCTATTTTTCCTCA
Found at i:13988049 original size:40 final size:38
Alignment explanation
Indices: 13987994--13988088 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 38
13987984 ACCCAGCTCA
* *
13987994 TGTGCATCCCCCCACATCATGCACATAGTCGGAGTCATCG
1 TGTGCATCCCCCCACATCATGCACA-A-TCAGAGCCATCG
* *
13988034 TGTGCATCCCCCCACATCATGCACAATTAGTGCCATCG
1 TGTGCATCCCCCCACATCATGCACAATCAGAGCCATCG
*
13988072 TGTACATCCCCCCACAT
1 TGTGCATCCCCCCACAT
13988089 TGTGCACACG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
38 24 0.48
39 1 0.02
40 25 0.50
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.23
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCATGCACAATCAGAGCCATCG
Found at i:13988080 original size:38 final size:40
Alignment explanation
Indices: 13987998--13988088 Score: 123
Period size: 38 Copynumber: 2.3 Consensus size: 40
13987988 AGCTCATGTG
* * *
13987998 CATCCCCCCACATCATGCACATAGTCGGAGTCATCGTGTG
1 CATCCCCCCACATCATGCACATAGTCAGAGCCATCGTGTA
* *
13988038 CATCCCCCCACATCATGCACA-A-TTAGTGCCATCGTGTA
1 CATCCCCCCACATCATGCACATAGTCAGAGCCATCGTGTA
13988076 CATCCCCCCACAT
1 CATCCCCCCACAT
13988089 TGTGCACACG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 24 0.52
39 1 0.02
40 21 0.46
ACGTcount: A:0.24, C:0.40, G:0.14, T:0.22
Consensus pattern (40 bp):
CATCCCCCCACATCATGCACATAGTCAGAGCCATCGTGTA
Found at i:13991866 original size:181 final size:182
Alignment explanation
Indices: 13991254--13993215 Score: 1899
Period size: 182 Copynumber: 10.8 Consensus size: 182
13991244 GGGACCAACA
* * * * *
13991254 ATATATTAATTTATCTATAATCTTATGAATGATTAGAAATCAAAATCTATGTTTTTCTTGTTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
* ** * * *
13991319 AACCAATTTTAATTGAATGTTTGCATAT-GGAAACGTGAAGTGGATGCTAT-AATTGATAAGAAA
66 AACCTATCATAATTGGATGTTTGCAT-TGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAA
* * * * * ** *
13991382 AGATCATTTTAAATAAACCATGCCTTTGAAAGCTTTGTTACTCGCTTTAAATG
130 AGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
* * * *
13991435 ATATATTAACTCATTTATAATCTTATAAATGATTATAAATCAAAATCT-TGTGACTTT-ATGCTT
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGT--TTTTCTTGGTT
* * * * * * *
13991498 AAACCCTATCATAATTGGATGATTGTATTAGGAAATGTGAAATGGCTGCTATCCATTGACAAGAA
64 AAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAA
* * * *
13991563 AAGACTATTTTAAGTTAGTCATGCAATCAAAAGCTTTGTTA-TTCGCTCTAAATG
129 AAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTT-GCTTTAAATG
* * * * * * *
13991617 ATATAGTAGTTCATTTAAAATCTTATATATGATTATAAATCAAAATCTTTGTTGTTGTT-GTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
* * * * * * * *
13991681 AACCTATCATATTTGGATGTTCGCTTTTGGAAACATGAAGTGGATGCTATCTAATGACAAAAAAA
66 AACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAA
* ** * * *
13991746 GACCATTTT-ATTTAAAAATGCCATCGAAAGCTTTATCACTTGCTTTAAATG
131 GACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
* ** * * * **
13991797 ACATATTGGTTTATTTATAATCTTATAAATGGTTATAAATCAAAATCAATGTTTTTCTTATTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
* ** * ** *
13991862 AACCTATCATAATTAGATGTTTGCATTCAGAAACGTAAAGTGGATGCTATATATTGATAAGAAAA
66 AACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAA
* *
13991927 GATCATTTTAAGTTAATCATG-CATCAAAAGCTTTGTTACTTG-TTGTAGATG
131 GACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTT-TAAATG
* * * * * * ** * ** *
13991978 ATATATTAATTCATATATAATCTTATAAATGGTTAAAAACCCAAATCTTTGTGGTTGTAAGATAA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
* * * * * * *
13992043 AATCTATCATAATTGGAAT-TTTGCATTAGGAAA-TTGAAGTGAATGCTCTCAATTGACAAGCAA
66 AACCTATCATAATTGG-ATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAA
* * * ** **
13992106 AGACCATTTGAAGTTAATGATGCCATCGAAAGCTTTGTTACTCACTTTAAAAC
130 AGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
* * * * * ** *
13992159 ATATATCAATTCATTTATAATATTATAAATAATTGTAAATCAAAATCTTTGCACTTTATAT--TT
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATG-TTTTTCT-TGGTT
* * * * * * * * *
13992222 AAAAGCTATCATAATTGGATGCTTGTATTGGGAAACGTTAAGTGCATGTTATCCATTGGCAACAG
64 AAAACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAA
* * * *
13992287 AAGA-AATTTTAAGTTAATGATGCCATCGAAAGCTTTGTTACTTGCTGTAAATG
129 AAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
* *
13992340 ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCAATGTTTTTCTTGGTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
* * * * * * *
13992405 AACCTATTATAATTGGGT-TTTTCTATTGGGAGACATTAAGTGGACGCTATCCATT--CATAGTA
66 AACCTATCATAATTGGATGTTTGC-ATTGGGAAACGTGAAGTGGATGCTATCCATTGACA-AG-A
* * * *
13992467 AAATACCATTTTAAGTTAATCACGCCATCAAATGCTTTGTTTCTTGCTTTAAATG
128 AAAGACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
* * * * * * *
13992522 ATATTTTAGTTCATTAATAAACTTAAAAATGATTATAAATCAAAATCTATGTTTTGCATGGTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
* ** * * *
13992587 ATCCTATCATAATTGGATGTTTGCATTAAGATACGTTAAATGGATGCTATCCATTGACAAGAAAA
66 AACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAA
* *
13992652 GGCCATTTTAAGGTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
131 GACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
* * * ** * *
13992704 ATATATTAATTTATTTATAATCTTTTGAATGATTATAAATTGAAATCTATGTTTTGCTTGTTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
* * ** **
13992769 AACCAATTATAATTAAATGTTTGCATTGGGAAAAATGAAGTGGATGCTATCCATTGACAAGAAAA
66 AACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAA
* * * * **
13992834 GAACATTTTAAGTAAATCATGCCAGCAAAAGCTTTGTTAGTCACTTTAAAGTG
131 GACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAA-TG
* * * * * * * * *
13992887 ATATAGTAATTCTTTTATAATCTTATAAATGATTAGAGATCGAAATCTTTGTTGTTGTTGCTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
* * * * * * *
13992952 AACCTATCATAATTGGATATTTGTAATGTGAAACGTGAAGTGGATGCTATCCAATGGCAACAAAA
66 AACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAA
* ** * **
13993017 GACAATTTTAAGTTAAGGATGCCATCAAAAGATTTGTTACTTGCAATAAATG
131 GACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
* * *
13993069 ATATATTAATTAATTTATAACCTTATAAATGGTTATAAATCAAAAT-TAGTGTTTTTCTTGGTTA
1 ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTA-TGTTTTTCTTGGTTA
* * * * * *
13993133 AAACCTATCATAATTGGATGTTTGCATTGGGAAACATTAAGTGGATGCTTTCCATTGATAGGGAA
65 AAACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAA
*
13993198 ATACCATTTTAAGTTAAT
130 AGACCATTTTAAGTTAAT
13993216 GGATGCAATC
Statistics
Matches: 1428, Mismatches: 324, Indels: 57
0.79 0.18 0.03
Matches are distributed among these distances:
179 3 0.00
180 134 0.09
181 546 0.38
182 590 0.41
183 153 0.11
184 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (182 bp):
ATATATTAATTCATTTATAATCTTATAAATGATTATAAATCAAAATCTATGTTTTTCTTGGTTAA
AACCTATCATAATTGGATGTTTGCATTGGGAAACGTGAAGTGGATGCTATCCATTGACAAGAAAA
GACCATTTTAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
Found at i:13992052 original size:362 final size:359
Alignment explanation
Indices: 13991254--13993214 Score: 1841
Period size: 362 Copynumber: 5.4 Consensus size: 359
13991244 GGGACCAACA
* * * * * * *
13991254 ATATATTAATTTATCTATAATCTTATGAATGATTAGAAATCAAAATCTATGTTTTTCTTGTTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCTATGTTGTTGTTG-TTAA
* ** * * *
13991319 AACCAATTTTAATTGAATGTTTGCATAT-GGAAACGTGAAGTGGATGCTAT--AATTGATAAGAA
65 AACCTATCATAATTGGAT-TTTGCAT-TGGGAAACATGAAGTGGATGCTATCCAA-TGACAAGAA
* * * * *
13991381 AAGATCATTTTAAATAAACCATGCCTTTGAAAGCTTTGTTACTCGCTTTAAATGATATATTAACT
127 AAGACCATTTTAATTAAA-CATGCCATCGAAAGCTTTGTTACTCGCTTTAAATGATATATTAATT
*** *
13991446 CATTTATAATCTTATAAATGATTATAAATCAAAATC-TTGTGACTTTATGCTTAAACCCTATCAT
191 CATTTATAATCTTATAAATGATTATAAATCAAAATCTTTGTTTTTTTAT--TTAAAACCTATCAT
* * *
13991510 AATTGGATGATTGTATT-AGGAAATGTGAAA-TGGCTGCTATCCATTGACAAGAAAAGACTATTT
254 AATTGGATGTTTGTATTGA-GAAACGT-AAAGTGGATGCTATCCATTGACAAGAAAAGAC-ATTT
* * *
13991573 TAAGTTAGTCATGCAATCAAAAGCTTTGTTA-TTCGCTCTAAATG
316 TAAGTTAATCATGCCATCAAAAGCTTTGTTACTT-GCTGTAAATG
* * * * * *
13991617 ATATAGTAGTTCATTTAAAATCTTATATATGATTATAAATCAAAATCTTTGTTGTTGTTGTTAAA
1 ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCTATGTTGTTGTTGTTAAA
* * * * * *
13991682 ACCTATCATATTTGGATGTTCGCTTTTGGAAACATGAAGTGGATGCTATCTAATGACAAAAAAAG
66 ACCTATCATAATTGGAT-TTTGCATTGGGAAACATGAAGTGGATGCTATCCAATGACAAGAAAAG
* * * * * * ** *
13991747 ACCATTTTATTTAAAAATGCCATCGAAAGCTTTATCACTTGCTTTAAATGACATATTGGTTTATT
130 ACCATTTTAATTAAACATGCCATCGAAAGCTTTGTTACTCGCTTTAAATGATATATTAATTCATT
* ** *
13991812 TATAATCTTATAAATGGTTATAAATCAAAATCAATGTTTTTCTTATTTAAAACCTATCATAATTA
195 TATAATCTTATAAATGATTATAAATCAAAATCTTTGTTTTT-TTATTTAAAACCTATCATAATTG
* * ** *
13991877 GATGTTTGCATTCAGAAACGTAAAGTGGATGCTATATATTGATAAGAAAAGATCATTTTAAGTTA
259 GATGTTTGTATTGAGAAACGTAAAGTGGATGCTATCCATTGACAAGAAAAGA-CATTTTAAGTTA
* *
13991942 ATCATG-CATCAAAAGCTTTGTTACTTGTTGTAGATG
323 ATCATGCCATCAAAAGCTTTGTTACTTGCTGTAAATG
* * * * * * * *
13991978 ATATATTAATTCATATATAATCTTATAAATGGTTAAAAACCCAAATCTTTGTGGTTGTAAGATAA
1 ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCTATGTTGTTGT-TGTTAA
* * * * * *
13992043 AATCTATCATAATTGGAATTTTGCATTAGGAAA-TTGAAGTGAATGCTCT-CAATTGACAAGCAA
65 AACCTATCATAATTGG-ATTTTGCATTGGGAAACATGAAGTGGATGCTATCCAA-TGACAAGAAA
* ** * ** *
13992106 AGACCATTTGAAGTTAATGATGCCATCGAAAGCTTTGTTACTCACTTTAAAACATATATCAATTC
128 AGACCATTTTAA-TTAAACATGCCATCGAAAGCTTTGTTACTCGCTTTAAATGATATATTAATTC
* * * ** * *
13992171 ATTTATAATATTATAAATAATTGTAAATCAAAATCTTTGCACTTTATATTTAAAAGCTATCATAA
192 ATTTATAATCTTATAAATGATTATAAATCAAAATCTTTG-TTTTTTTATTTAAAACCTATCATAA
* * * * * * * * *
13992236 TTGGATGCTTGTATTGGGAAACGTTAAGTGCATGTTATCCATTGGCAACAGAAGAAATTTTAAGT
256 TTGGATGTTTGTATTGAGAAACGTAAAGTGGATGCTATCCATTGACAAGAAAAGACATTTTAAGT
* *
13992301 TAATGATGCCATCGAAAGCTTTGTTACTTGCTGTAAATG
321 TAATCATGCCATCAAAAGCTTTGTTACTTGCTGTAAATG
* * *
13992340 ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCAATGTTTTTCTTGGTTAA
1 ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCTATGTTGTTGTT-GTTAA
* * * * * * *
13992405 AACCTATTATAATTGGGTTTTTCTATTGGGAGACATTAAGTGGACGCTATCC-AT-TCATAGTAA
65 AACCTATCATAATTGGATTTTGC-ATTGGGAAACATGAAGTGGATGCTATCCAATGACA-AG-AA
* * * * * * *
13992468 AATACCATTTTAAGTTAATCACGCCATC-AAATGCTTTGTTTCTTGCTTTAAATGATATTTTAGT
127 AAGACCATTTTAA-TTAAACATGCCATCGAAA-GCTTTGTTACTCGCTTTAAATGATATATTAAT
* * * * ** *
13992532 TCATTAATAAACTTAAAAATGATTATAAATCAAAATCTATG-TTTTGCATGGTTAAATCCTATCA
190 TCATTTATAATCTTATAAATGATTATAAATCAAAATCTTTGTTTTTTTAT--TTAAAACCTATCA
* * * *
13992596 TAATTGGATGTTTGCATTAAGATACGTTAAA-TGGATGCTATCCATTGACAAGAAAAGGCCATTT
253 TAATTGGATGTTTGTATTGAGAAACG-TAAAGTGGATGCTATCCATTGACAAGAAAA-GACATTT
* *
13992660 TAAGGTAATCATGCCATCAAAAGCTTTGTTACTTGCTTTAAATG
316 TAAGTTAATCATGCCATCAAAAGCTTTGTTACTTGCTGTAAATG
* * * * **
13992704 ATATATTAATTTATTTATAATCTTTTGAATGATTATAAATTGAAATCTATGTT-TTGCTTGTTTA
1 ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCTATGTTGTTG-TTG-TTA
* * ** * *
13992768 AAACCAATTATAATTAAATGTTTGCATTGGGAAAAATGAAGTGGATGCTATCCATTGACAAGAAA
64 AAACCTATCATAATTGGAT-TTTGCATTGGGAAACATGAAGTGGATGCTATCCAATGACAAGAAA
* * * * * * *
13992833 AGAACATTTTAAGTAAATCATGCCAGCAAAAGCTTTGTTAGTCACTTTAAAGTGATATAGTAATT
128 AGACCATTTTAATTAAA-CATGCCATCGAAAGCTTTGTTACTCGCTTTAAA-TGATATATTAATT
* * * * * **
13992898 CTTTTATAATCTTATAAATGATTAGAGATCGAAATCTTTGTTGTTGTTGCTTAAAACCTATCATA
191 CATTTATAATCTTATAAATGATTATAAATCAAAATCTTTGTT-TTTTTATTTAAAACCTATCATA
* * * * * * *
13992963 ATTGGATATTTGTAATGTGAAACGTGAAGTGGATGCTATCCAATGGCAACAAAAGACAATTTTAA
255 ATTGGATGTTTGTATTGAGAAACGTAAAGTGGATGCTATCCATTGACAAGAAAAGAC-ATTTTAA
** * **
13993028 GTTAAGGATGCCATCAAAAGATTTGTTACTTGCAATAAATG
319 GTTAATCATGCCATCAAAAGCTTTGTTACTTGCTGTAAATG
* * * *
13993069 ATATATTAATTAATTTATAACCTTATAAATGGTTATAAATCAAAAT-TAGTGTTTTTCTTGGTTA
1 ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCTA-TGTTGTTGTT-GTTA
* * * * * *
13993133 AAACCTATCATAATTGGATGTTTGCATTGGGAAACATTAAGTGGATGCTTTCCATTGATAGGGAA
64 AAACCTATCATAATTGGAT-TTTGCATTGGGAAACATGAAGTGGATGCTATCCAATGACAAGAAA
*
13993198 ATACCATTTTAAGTTAA
128 AGACCATTTTAA-TTAA
13993215 TGGATGCAAT
Statistics
Matches: 1286, Mismatches: 270, Indels: 81
0.79 0.16 0.05
Matches are distributed among these distances:
360 2 0.00
361 134 0.10
362 455 0.35
363 235 0.18
364 188 0.15
365 261 0.20
366 9 0.01
367 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (359 bp):
ATATATTAATTCATTTATAATCTTATAAATGGTTATAAATCAAAATCTATGTTGTTGTTGTTAAA
ACCTATCATAATTGGATTTTGCATTGGGAAACATGAAGTGGATGCTATCCAATGACAAGAAAAGA
CCATTTTAATTAAACATGCCATCGAAAGCTTTGTTACTCGCTTTAAATGATATATTAATTCATTT
ATAATCTTATAAATGATTATAAATCAAAATCTTTGTTTTTTTATTTAAAACCTATCATAATTGGA
TGTTTGTATTGAGAAACGTAAAGTGGATGCTATCCATTGACAAGAAAAGACATTTTAAGTTAATC
ATGCCATCAAAAGCTTTGTTACTTGCTGTAAATG
Found at i:13993791 original size:19 final size:19
Alignment explanation
Indices: 13993750--13993791 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13993740 GAAGAAGGAG
*
13993750 AAGAAGCTACTGGAGAATG
1 AAGAAGCTACTGGAGAATA
*
13993769 AAGAAGCTGCTGGAAGAA-A
1 AAGAAGCTACTGG-AGAATA
13993788 AAGA
1 AAGA
13993792 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.48, C:0.10, G:0.31, T:0.12
Consensus pattern (19 bp):
AAGAAGCTACTGGAGAATA
Found at i:14000024 original size:42 final size:42
Alignment explanation
Indices: 13999954--14000129 Score: 149
Period size: 42 Copynumber: 4.2 Consensus size: 42
13999944 CTCCCCACTA
* * * *
13999954 GCACATGGCTGGGTCAGCA-CGACTTATGCGCACTCTTACTC
1 GCACATAGCTGGGTCATCATCGACGTATGCGCACTCCTACTC
* * * *
13999995 ACACATAGCTGTGTCATCATCGACGTATGCACACTCTTACTC
1 GCACATAGCTGGGTCATCATCGACGTATGCGCACTCCTACTC
* * * * *** *
14000037 GCACATAG-TCAGATCATCATCGGCTTACATGCACTCCCACTC
1 GCACATAGCT-GGGTCATCATCGACGTATGCGCACTCCTACTC
* ** *
14000079 GCATATAGCTGGGTCATCATCGGTGTATGCGCACTCCTACTT
1 GCACATAGCTGGGTCATCATCGACGTATGCGCACTCCTACTC
14000121 GCACATAGC
1 GCACATAGC
14000130 CGAGTCAATA
Statistics
Matches: 103, Mismatches: 29, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
41 16 0.16
42 86 0.83
43 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (42 bp):
GCACATAGCTGGGTCATCATCGACGTATGCGCACTCCTACTC
Found at i:14005172 original size:35 final size:36
Alignment explanation
Indices: 14005124--14005197 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 36
14005114 TCCTTAAGAA
***
14005124 GCCTAATTAACTTAATTGTTTAATTTAATCAATTAG
1 GCCTAATTAACTTAATTAAATAATTTAATCAATTAG
*
14005160 GCCTAA-TAACTTAATTAAATAATTTAATTAATTAG
1 GCCTAATTAACTTAATTAAATAATTTAATCAATTAG
14005195 GCC
1 GCC
14005198 AAATGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
35 28 0.82
36 6 0.18
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (36 bp):
GCCTAATTAACTTAATTAAATAATTTAATCAATTAG
Found at i:14005201 original size:22 final size:22
Alignment explanation
Indices: 14005176--14005234 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
14005166 TAACTTAATT
* *
14005176 AAATAATTTAATTAATTAGGCC
1 AAATGATTTAATTAATTAGACC
14005198 AAATGATTTAATTAATTAGACC
1 AAATGATTTAATTAATTAGACC
*
14005220 GAATGATTTAATTAA
1 AAATGATTTAATTAA
14005235 ACAATTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (22 bp):
AAATGATTTAATTAATTAGACC
Found at i:14005209 original size:35 final size:35
Alignment explanation
Indices: 14005144--14005212 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
14005134 CTTAATTGTT
*
14005144 TAATTTAATCAATTAGGCCTAATAACTTAATTAAA
1 TAATTTAATCAATTAGGCCAAATAACTTAATTAAA
* * *
14005179 TAATTTAATTAATTAGGCCAAATGATTTAATTAA
1 TAATTTAATCAATTAGGCCAAATAACTTAATTAA
14005213 TTAGACCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (35 bp):
TAATTTAATCAATTAGGCCAAATAACTTAATTAAA
Found at i:14008856 original size:13 final size:13
Alignment explanation
Indices: 14008825--14008857 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
14008815 CTTCCCCACT
14008825 TTCCTCTCTTTTC
1 TTCCTCTCTTTTC
14008838 TT--TCTCTTTTC
1 TTCCTCTCTTTTC
14008849 TTCCTCTCT
1 TTCCTCTCT
14008858 GGTGGAGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TTCCTCTCTTTTC
Found at i:14014087 original size:38 final size:38
Alignment explanation
Indices: 14014036--14014171 Score: 204
Period size: 38 Copynumber: 3.6 Consensus size: 38
14014026 TGATATTGCT
*
14014036 TGTGCACGATGTGGGGGGATGCACACGGTGGTATTAGC
1 TGTGCACGATGTGGGGGGATGCACACGATGGTATTAGC
14014074 TGTGCACGATGTGGGGGGATGCACACGATGGTATTAGC
1 TGTGCACGATGTGGGGGGATGCACACGATGGTATTAGC
* *
14014112 TGTGCACGATGTGGGGGGATGCACATGAT-G-ACTCCAGC
1 TGTGCACGATGTGGGGGGATGCACACGATGGTA-T-TAGC
*
14014150 TGCGCACGATGTGGGGGGATGC
1 TGTGCACGATGTGGGGGGATGC
14014172 GCATGAGCTA
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
36 1 0.01
37 2 0.02
38 89 0.97
ACGTcount: A:0.19, C:0.18, G:0.41, T:0.22
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGATGGTATTAGC
Found at i:14017834 original size:21 final size:21
Alignment explanation
Indices: 14017808--14017847 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14017798 AAAAACTAAT
14017808 AAATAATA-ACAAAATTAAAGG
1 AAATAA-ACACAAAATTAAAGG
*
14017829 AAATAAACATAAAATTAAA
1 AAATAAACACAAAATTAAA
14017848 ATAACTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (21 bp):
AAATAAACACAAAATTAAAGG
Found at i:14019198 original size:20 final size:20
Alignment explanation
Indices: 14019146--14019191 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14019136 AAAATTTTTG
* *
14019146 AACACAAATAAAGCATGCAA
1 AACATAAATAAAACATGCAA
14019166 AACATAAATAAAACATGC-A
1 AACATAAATAAAACATGCAA
14019185 AACATAA
1 AACATAA
14019192 CCTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.63, C:0.17, G:0.07, T:0.13
Consensus pattern (20 bp):
AACATAAATAAAACATGCAA
Found at i:14024342 original size:2 final size:2
Alignment explanation
Indices: 14024335--14024367 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14024325 TTTCTATTGC
14024335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14024368 AACACCAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14024955 original size:2 final size:2
Alignment explanation
Indices: 14024948--14024979 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14024938 AAATCACTCA
14024948 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14024980 ACACGTCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14026726 original size:7 final size:8
Alignment explanation
Indices: 14026709--14026737 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
14026699 TGACCTTCTA
14026709 TTTTAATT
1 TTTTAATT
14026717 TTTTAATT
1 TTTTAATT
14026725 TTTTAATT
1 TTTTAATT
14026733 TTTTA
1 TTTTA
14026738 TTATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTAATT
Found at i:14030312 original size:29 final size:28
Alignment explanation
Indices: 14030256--14030311 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 28
14030246 AGATAAAATT
14030256 AGAATATAAAATGGCAAGCTCATAAAAC
1 AGAATATAAAATGGCAAGCTCATAAAAC
14030284 NAGAATAT-AAATAGGCAAGACTCATAAA
1 -AGAATATAAAAT-GGCAAG-CTCATAAA
14030312 CATATACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 4 0.16
29 13 0.52
30 8 0.32
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.18
Consensus pattern (28 bp):
AGAATATAAAATGGCAAGCTCATAAAAC
Found at i:14033431 original size:22 final size:22
Alignment explanation
Indices: 14033389--14033429 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
14033379 ACCTTTCTTT
14033389 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTTCCTTGAATTTTCA
14033411 CACTT-TTTCCTTGAATTTT
1 CACTTGTTTCCTTGAATTTT
14033430 TCCACCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.17, C:0.22, G:0.07, T:0.54
Consensus pattern (22 bp):
CACTTGTTTCCTTGAATTTTCA
Found at i:14038527 original size:12 final size:13
Alignment explanation
Indices: 14038502--14038534 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
14038492 CCTCCATTGG
14038502 TTTCTCTCTTTTC
1 TTTCTCTCTTTTC
14038515 TTTCTCT-TTTTC
1 TTTCTCTCTTTTC
14038527 TTTCTCTC
1 TTTCTCTC
14038535 GAGTAGAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTCTCTCTTTTC
Found at i:14043752 original size:25 final size:25
Alignment explanation
Indices: 14043718--14043777 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
14043708 GGTCTGTGAT
*
14043718 ATATACGTGGCAAGGCCATGGGTTG
1 ATATACGTGGCAAGGCCATGAGTTG
* *
14043743 ATATATGTGGCTAGGCCATGAGTTG
1 ATATACGTGGCAAGGCCATGAGTTG
14043768 ATATACGTGG
1 ATATACGTGG
14043778 TTGAAACCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.28
Consensus pattern (25 bp):
ATATACGTGGCAAGGCCATGAGTTG
Found at i:14060243 original size:13 final size:13
Alignment explanation
Indices: 14060225--14060249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14060215 ATTTGTAAAA
14060225 ATTTTATAAAATT
1 ATTTTATAAAATT
14060238 ATTTTATAAAAT
1 ATTTTATAAAAT
14060250 CTCATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:14062575 original size:19 final size:19
Alignment explanation
Indices: 14062551--14062592 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14062541 CATCTTCTCC
14062551 TTCAAGCTCCCACGCCATT
1 TTCAAGCTCCCACGCCATT
* *
14062570 TTCAAGCTTCCATGCCATT
1 TTCAAGCTCCCACGCCATT
14062589 TTCA
1 TTCA
14062593 CCTTGCCACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.36, G:0.10, T:0.33
Consensus pattern (19 bp):
TTCAAGCTCCCACGCCATT
Found at i:14066210 original size:15 final size:15
Alignment explanation
Indices: 14066192--14066221 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14066182 TACAGAAGTT
14066192 TTCAAACTCATCTCC
1 TTCAAACTCATCTCC
14066207 TTCAAACTCATCTCC
1 TTCAAACTCATCTCC
14066222 ATGATCACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (15 bp):
TTCAAACTCATCTCC
Found at i:14070468 original size:17 final size:17
Alignment explanation
Indices: 14070433--14070482 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
14070423 ACATAAAATT
*
14070433 AAAATAAC-ACATT-TA
1 AAAATAACTAAATTATA
14070448 AAAATAAACT-AATTATA
1 AAAAT-AACTAAATTATA
14070465 AAAATAACTAAATTATA
1 AAAATAACTAAATTATA
14070482 A
1 A
14070483 TTAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.17
16 10 0.33
17 15 0.50
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATAACTAAATTATA
Found at i:14072446 original size:60 final size:60
Alignment explanation
Indices: 14072344--14072488 Score: 184
Period size: 60 Copynumber: 2.4 Consensus size: 60
14072334 ATAGGAGACC
* * * * * *
14072344 AAAACAGAAAGTTT-TTCGTTGTAGCGAGATTGAATCTCGCTGCAGCGAAATTGTAACCCA
1 AAAACAGAAAGTTTCTT-GTTGCAGCAAAATTCAATCTCGCTGCAACGAAATTGCAACCCA
* *
14072404 GAAACAGAATGTTTCTTGTTGCAGCAAAATTCAATCTCGCTGCAACGAAATTGCAACCCA
1 AAAACAGAAAGTTTCTTGTTGCAGCAAAATTCAATCTCGCTGCAACGAAATTGCAACCCA
* *
14072464 AAAACAGAAAGTTTCTCGCTGCAGC
1 AAAACAGAAAGTTTCTTGTTGCAGC
14072489 GAGAAGCTAC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 70 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (60 bp):
AAAACAGAAAGTTTCTTGTTGCAGCAAAATTCAATCTCGCTGCAACGAAATTGCAACCCA
Found at i:14072893 original size:43 final size:43
Alignment explanation
Indices: 14072845--14072954 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
14072835 TCACCAGCTC
** * **
14072845 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGACTT
14072888 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
*
14072931 ATGCGCACTCCTTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
14072955 TTCGAGTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
Found at i:14075177 original size:49 final size:49
Alignment explanation
Indices: 14075110--14075273 Score: 202
Period size: 49 Copynumber: 3.3 Consensus size: 49
14075100 CCGACATCGT
* ** * * *
14075110 GCACATAACCAGAGTCATCGGCATTATCGGCTTATGCCCACTCCCTAGTC
1 GCACATAGCCA-AGTCATCATCATCATCGGCTTATGCACACTCCCTACTC
* *
14075160 GCACATAGCTAAGTCATCATCATCATCGGCTTATGCGCACTCCCTACTC
1 GCACATAGCCAAGTCATCATCATCATCGGCTTATGCACACTCCCTACTC
* **
14075209 ACACATAGCCGGGTCATCATCATCATCGGCTTATGCACACTCCCTACTC
1 GCACATAGCCAAGTCATCATCATCATCGGCTTATGCACACTCCCTACTC
* *
14075258 GCACATATCCAGGTCA
1 GCACATAGCCAAGTCA
14075274 ATATTATCAC
Statistics
Matches: 99, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 90 0.91
50 9 0.09
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (49 bp):
GCACATAGCCAAGTCATCATCATCATCGGCTTATGCACACTCCCTACTC
Found at i:14079111 original size:29 final size:29
Alignment explanation
Indices: 14078985--14079183 Score: 203
Period size: 29 Copynumber: 7.0 Consensus size: 29
14078975 AAATATTTTA
*
14078985 TCTTGTCTAAATTAAGA-C-AATATGTTT
1 TCTTGTCTAAATTAAGACCAAACATGTTT
* * * * *
14079012 CCTTGTCTAGATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGACCAAACAT-GTTT
* *
14079042 TCTTATCTTAAATTAAGA-CAAACATATTT
1 TCTTGTC-TAAATTAAGACCAAACATGTTT
* * * *
14079071 TCTTGTCTAAATTAAGACCGAATATGATA
1 TCTTGTCTAAATTAAGACCAAACATGTTT
*
14079100 TCTTATCTAAATTAAGA-CAAACATGTTT
1 TCTTGTCTAAATTAAGACCAAACATGTTT
14079128 TCTTGTCTAAATTAAGA-CATAACATGTTT
1 TCTTGTCTAAATTAAGACCA-AACATGTTT
*
14079157 TCTTGTCTAAATTAAG-GCAAACATGTT
1 TCTTGTCTAAATTAAGACCAAACATGTT
14079184 AAAGCTATTA
Statistics
Matches: 142, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
27 15 0.11
28 43 0.30
29 62 0.44
30 13 0.09
31 9 0.06
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACCAAACATGTTT
Found at i:14079120 original size:57 final size:57
Alignment explanation
Indices: 14078974--14079183 Score: 244
Period size: 57 Copynumber: 3.7 Consensus size: 57
14078964 AATTATAACA
* * * * *
14078974 AAAATATTTTATCTTGTCTAAATTAAGAC-AATATGTTTCCTTGTCTAGATTAAGAC
1 AAAATATGTTATCTTATCTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGAC
* *
14079030 AAAAAATAT-TTTTCTTATCTTAAATTAAGACAAACATATTTTCTTGTCTAAATTAAGAC
1 --AAAATATGTTATCTTATC-TAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGAC
** *
14079089 CGAATATGATATCTTATCTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGAC
1 AAAATATGTTATCTTATCTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGAC
* * * * *
14079146 ATAACATGTTTTCTTGTCTAAATTAAGGCAAACATGTT
1 AAAATATGTTATCTTATCTAAATTAAGACAAACATGTT
14079184 AAAGCTATTA
Statistics
Matches: 131, Mismatches: 18, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
57 82 0.63
58 26 0.20
59 23 0.18
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (57 bp):
AAAATATGTTATCTTATCTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGAC
Found at i:14079152 original size:86 final size:86
Alignment explanation
Indices: 14078954--14079172 Score: 250
Period size: 86 Copynumber: 2.5 Consensus size: 86
14078944 TTAAGACAAC
* * * * *
14078954 TCTTGTCTTTAATTATA-ACAAAAATATTTTATCTTGTCTAAATTAAGACAATATGTTTCCTTGT
1 TCTTATCTTAAATTA-AGACAAACATA-TTT-TCTTGTCTAAATTAAGACAATATGTATCCTTAT
* *
14079018 CTAGATTAAGACAAAAAATATTTT
63 CTAAATTAAGACAAAAAATAGTTT
14079042 TCTTATCTTAAATTAAGACAAACATATTTTCTTGTCTAAATTAAGACCGAATATGATAT-CTTAT
1 TCTTATCTTAAATTAAGACAAACATATTTTCTTGTCTAAATTAAGA-C-AATATG-TATCCTTAT
*
14079106 CTAAATTAAGAC-AAACAT-GTTT
63 CTAAATTAAGACAAAAAATAGTTT
* *
14079128 TCTTGTC-TAAATTAAGACATAACATGTTTTCTTGTCTAAATTAAG
1 TCTTATCTTAAATTAAGACA-AACATATTTTCTTGTCTAAATTAAG
14079173 GCAAACATGT
Statistics
Matches: 116, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
85 12 0.10
86 50 0.43
87 10 0.09
88 42 0.36
89 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (86 bp):
TCTTATCTTAAATTAAGACAAACATATTTTCTTGTCTAAATTAAGACAATATGTATCCTTATCTA
AATTAAGACAAAAAATAGTTT
Found at i:14080941 original size:19 final size:19
Alignment explanation
Indices: 14080917--14080957 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14080907 GCTCAAATTA
**
14080917 TCAACTAGCTGAGGGTTTC
1 TCAACTAGCCAAGGGTTTC
*
14080936 TCAACTGGCCAAGGGTTTC
1 TCAACTAGCCAAGGGTTTC
14080955 TCA
1 TCA
14080958 CCAAACCCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (19 bp):
TCAACTAGCCAAGGGTTTC
Found at i:14089506 original size:14 final size:14
Alignment explanation
Indices: 14089487--14089513 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14089477 CAAAATTTAT
14089487 TAATTAACTAAAAC
1 TAATTAACTAAAAC
14089501 TAATTAACTAAAA
1 TAATTAACTAAAA
14089514 ATAAAACCAA
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:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:14091471 original size:17 final size:17
Alignment explanation
Indices: 14091449--14091488 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14091439 TGTACCGGTA
**
14091449 GAATGCTAGGCACTTGT
1 GAATGCTACACACTTGT
*
14091466 GAATGCTACACATTTGT
1 GAATGCTACACACTTGT
14091483 GAATGC
1 GAATGC
14091489 CATGTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (17 bp):
GAATGCTACACACTTGT
Found at i:14097994 original size:23 final size:24
Alignment explanation
Indices: 14097958--14098007 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
14097948 CTGTTGCCTT
*
14097958 GCGGTAGCATTTGCTATAGCACTTG
1 GCGGTAGCA-TTGCTACAGCACTTG
*
14097983 GCGGTAGC-TTGCTACCGCACTTG
1 GCGGTAGCATTGCTACAGCACTTG
14098006 GC
1 GC
14098008 AGGAACTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
25 8 0.35
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (24 bp):
GCGGTAGCATTGCTACAGCACTTG
Found at i:14098056 original size:23 final size:23
Alignment explanation
Indices: 14098011--14098057 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14098001 ACTTGGCAGG
* *
14098011 AACTTGTGCTGCTGTCTAGTAGC
1 AACTTGTGCTGCTGTCCACTAGC
14098034 AACTTGTGCTGCT-TCCCACTAGC
1 AACTTGTGCTGCTGT-CCACTAGC
14098057 A
1 A
14098058 CACCCCACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (23 bp):
AACTTGTGCTGCTGTCCACTAGC
Found at i:14098099 original size:17 final size:18
Alignment explanation
Indices: 14098077--14098117 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14098067 ACTCCTTTTT
*
14098077 TATTTTAAT-CACAAAAA
1 TATTTTAATACAAAAAAA
*
14098094 TATTTTAATAGAAAAAAA
1 TATTTTAATACAAAAAAA
14098112 TATTTT
1 TATTTT
14098118 TTATATTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (18 bp):
TATTTTAATACAAAAAAA
Found at i:14098202 original size:36 final size:35
Alignment explanation
Indices: 14098141--14098208 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
14098131 ATTTTAATGT
* *
14098141 AAGAAAAACTTTTTTTCCTTTAAAAAAATTAACAC
1 AAGAAAAACTATTTTTCCTTAAAAAAAATTAACAC
14098176 AAGAAAAACTCATTTTT-CTTAAAAAAATATTAA
1 AAGAAAAACT-ATTTTTCCTTAAAAAAA-ATTAA
14098209 TAGCCATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 19 0.66
36 10 0.34
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (35 bp):
AAGAAAAACTATTTTTCCTTAAAAAAAATTAACAC
Found at i:14100198 original size:43 final size:42
Alignment explanation
Indices: 14100082--14100188 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
14100072 GGACTCGGCT
* * * * *
14100082 ATGTGCGAGTAGGAGTGTACATAAGCCGATGATGACCCGGCT
1 ATGTGCTAGTGGGAGTGCACATAAGCCGATGATGACCCAGCC
*
14100124 ATGTGCTAGTGGGAGTGCACATAAGCCGATGATGACCTAGCC
1 ATGTGCTAGTGGGAGTGCACATAAGCCGATGATGACCCAGCC
14100166 ATGTGCTAGTGGGGAGTGCACAT
1 ATGTGCTAGT-GGGAGTGCACAT
14100189 GAGTTGATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 46 0.79
43 12 0.21
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (42 bp):
ATGTGCTAGTGGGAGTGCACATAAGCCGATGATGACCCAGCC
Found at i:14100517 original size:30 final size:30
Alignment explanation
Indices: 14100483--14100554 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
14100473 TGCATTTTCA
* *
14100483 CTGCAGCGAGAATGTTACTGTAGCTTCTTG
1 CTGCAACGAGAATGTTACTGCAGCTTCTTG
14100513 CTGCAACGAGAATGTTACTGCAGCTTCTTG
1 CTGCAACGAGAATGTTACTGCAGCTTCTTG
*
14100543 CTGCAACAAGAA
1 CTGCAACGAGAA
14100555 ACTTTCTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (30 bp):
CTGCAACGAGAATGTTACTGCAGCTTCTTG
Found at i:14102088 original size:57 final size:56
Alignment explanation
Indices: 14102010--14102239 Score: 223
Period size: 57 Copynumber: 4.0 Consensus size: 56
14102000 TCAAGACAAC
* *
14102010 TCTTGTCTTTAATTAAGACAAAAATATTTTATCTTGTCTAAATTAAGAC-AATATGTTT
1 TCTTGTC-TAAATTAAGACAAAAATATTTT-T-TTGTCTAAATTAAGACAAACATGTTT
* * *
14102068 TCTTGTCTAGATTAAGACAAAAAATATTTTTCTTGTCTTAAATTTAGACAAACATATTT
1 TCTTGTCTAAATTAAGAC-AAAAATATTTTT-TTGTC-TAAATTAAGACAAACATGTTT
* * * * *
14102127 TATTGTCTAAATTAAGACCAAACATGA-CTTATTGTCTAAATTAAGACGAACATAG-TT
1 TCTTGTCTAAATTAAGA-CAAAAAT-ATTTTTTTGTCTAAATTAAGACAAACAT-GTTT
* * **
14102184 TCTTGTCTAAATTAAGACATGACATGGTTTTTTGTCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGACA-AAAATATTTTTTTGTCTAAATTAAGACAAACATGTT
14102240 AAAGCTGCCT
Statistics
Matches: 144, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
56 3 0.02
57 77 0.53
58 33 0.23
59 29 0.20
60 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (56 bp):
TCTTGTCTAAATTAAGACAAAAATATTTTTTTGTCTAAATTAAGACAAACATGTTT
Found at i:14102148 original size:29 final size:28
Alignment explanation
Indices: 14102020--14102236 Score: 206
Period size: 29 Copynumber: 7.5 Consensus size: 28
14102010 TCTTGTCTTT
*
14102020 AATTAAGACAAAAATATTTTATCTTGTCTA
1 AATTAAGACAAACATATTTTA--TTGTCTA
* * *
14102050 AATTAAGAC-AATATGTTTTCTTGTCTA
1 AATTAAGACAAACATATTTTATTGTCTA
* * *
14102077 GATTAAGACAAAAAATATTTTTCTTGTCTTA
1 AATTAAGAC-AAACATA-TTTTATTGTC-TA
*
14102108 AATTTAGACAAACATATTTTATTGTCTA
1 AATTAAGACAAACATATTTTATTGTCTA
*
14102136 AATTAAGACCAAACATGA-CTTATTGTCTA
1 AATTAAGA-CAAACAT-ATTTTATTGTCTA
* * *
14102165 AATTAAGACGAACATAGTTTCTTGTCTA
1 AATTAAGACAAACATATTTTATTGTCTA
* *
14102193 AATTAAGACATGACATGGTTTT-TTGTCTA
1 AATTAAGACA-AACAT-ATTTTATTGTCTA
14102222 AATTAAGACAAACAT
1 AATTAAGACAAACAT
14102237 GTTAAAGCTG
Statistics
Matches: 158, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
27 16 0.10
28 37 0.23
29 67 0.42
30 29 0.18
31 9 0.06
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (28 bp):
AATTAAGACAAACATATTTTATTGTCTA
Found at i:14102219 original size:86 final size:87
Alignment explanation
Indices: 14102010--14102237 Score: 259
Period size: 88 Copynumber: 2.6 Consensus size: 87
14102000 TCAAGACAAC
* * * ** *
14102010 TCTTGTCTTTAATTAAGACAAAAATATTTTATCTTGTCTAAATTAAGAC-AATATGTTTTCTTGT
1 TCTTGTCTTAAATTAAGACAAACATATTTTA--TTGTCTAAATTAAGACAAACATGACTTATTGT
* *
14102074 CTAGATTAAGACAAAAAATATTTT
64 CTAAATTAAGACAAAAAATATGTT
*
14102098 TCTTGTCTTAAATTTAGACAAACATATTTTATTGTCTAAATTAAGACCAAACATGACTTATTGTC
1 TCTTGTCTTAAATTAAGACAAACATATTTTATTGTCTAAATTAAGA-CAAACATGACTTATTGTC
* *
14102163 TAAATTAAGAC-GAACATA-GTT
65 TAAATTAAGACAAAAAATATGTT
* *
14102184 TCTTGTC-TAAATTAAGACATGACATGGTTTT-TTGTCTAAATTAAGACAAACATG
1 TCTTGTCTTAAATTAAGACA-AACAT-ATTTTATTGTCTAAATTAAGACAAACATG
14102238 TTAAAGCTGC
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
85 19 0.16
86 43 0.35
87 10 0.08
88 50 0.41
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.39
Consensus pattern (87 bp):
TCTTGTCTTAAATTAAGACAAACATATTTTATTGTCTAAATTAAGACAAACATGACTTATTGTCT
AAATTAAGACAAAAAATATGTT
Found at i:14106143 original size:20 final size:19
Alignment explanation
Indices: 14106098--14106144 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
14106088 TGGGAGGAAG
* *
14106098 GAGAA-GAAGAAGTTGCTA
1 GAGAATGAAGAAGCTACTA
14106116 GAGAAATGAAGAAGCTACTA
1 GAG-AATGAAGAAGCTACTA
14106136 GAAGAATGA
1 G-AGAATGA
14106145 GATTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 17 0.71
21 2 0.08
ACGTcount: A:0.49, C:0.06, G:0.30, T:0.15
Consensus pattern (19 bp):
GAGAATGAAGAAGCTACTA
Found at i:14108527 original size:35 final size:33
Alignment explanation
Indices: 14108446--14108527 Score: 119
Period size: 33 Copynumber: 2.4 Consensus size: 33
14108436 CATATACACA
* * *
14108446 TCAAAATCAGCAGTTAAGCTGCTCTATTTTTCT
1 TCAAAATCAGTAGCTAAGCTGCTCTATTTTCCT
14108479 TCAAAATCAGTAGCTAAGCTGCTCTATTTTCCTT
1 TCAAAATCAGTAGCTAAGCTGCTCTATTTTCC-T
14108513 TCAAAAATCAGTAGC
1 TC-AAAATCAGTAGC
14108528 CAAAGCTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 29 0.66
34 3 0.07
35 12 0.27
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (33 bp):
TCAAAATCAGTAGCTAAGCTGCTCTATTTTCCT
Found at i:14117313 original size:19 final size:20
Alignment explanation
Indices: 14117287--14117339 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
14117277 TGTGCATCCC
14117287 CCCACATCGTGCACAATCAG
1 CCCACATCGTGCACAATCAG
* * *
14117307 CGC-CATCGTGTAC-ATCCG
1 CCCACATCGTGCACAATCAG
14117325 CCCACATCGTGCACA
1 CCCACATCGTGCACA
14117340 CGGGCACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 6 0.23
19 18 0.69
20 2 0.08
ACGTcount: A:0.25, C:0.42, G:0.17, T:0.17
Consensus pattern (20 bp):
CCCACATCGTGCACAATCAG
Found at i:14117323 original size:38 final size:40
Alignment explanation
Indices: 14117237--14117339 Score: 156
Period size: 38 Copynumber: 2.6 Consensus size: 40
14117227 ACCCGGCTCA
14117237 TGTACATCCCCCCACATCGTGCACATAGCAGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGGCACCATCG
* * *
14117277 TGTGCATCCCCCCACATCGTGCACA-ATCA-GCGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGGCACCATCG
*
14117315 TGTACATCCGCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
14117340 CGGGCACTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 31 0.53
39 3 0.05
40 24 0.41
ACGTcount: A:0.23, C:0.41, G:0.17, T:0.18
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCAGGCACCATCG
Found at i:14124428 original size:73 final size:71
Alignment explanation
Indices: 14124312--14124492 Score: 172
Period size: 73 Copynumber: 2.5 Consensus size: 71
14124302 ACAGAGAAGG
* * * *
14124312 CTTAGTCGACCAAGAAGTAAGGTAGTCGACTAAGAACCTACTGCTAGAAATCT-GGACTTC-AAG
1 CTTAGTCGACTAAGAAGGAA-GTAGTCGACTAAGAACCTACTGCCA-AAAACTAGGA--TCAAAG
14124375 ACAGAAACAA
62 ACAGAAACAA
* **
14124385 CTTAATCGACTAAGAAGGAAGTCAGTCGACTAA-ATGCTCACTGCCAAAAACTAGGATCAGAAGA
1 CTTAGTCGACTAAGAAGGAAGT-AGTCGACTAAGAACCT-ACTGCCAAAAACTAGGATCA-AAGA
*
14124449 CAGAGACAA
63 CAGAAACAA
*
14124458 CTTAGTCGACTAAG-AGCGCAGTTAGTCGACTAAGA
1 CTTAGTCGACTAAGAAG-GAAG-TAGTCGACTAAGA
14124493 TCATTCTGTC
Statistics
Matches: 90, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
71 2 0.02
72 12 0.13
73 74 0.82
74 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (71 bp):
CTTAGTCGACTAAGAAGGAAGTAGTCGACTAAGAACCTACTGCCAAAAACTAGGATCAAAGACAG
AAACAA
Found at i:14134459 original size:20 final size:20
Alignment explanation
Indices: 14134434--14134473 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14134424 CTAGAAATAT
14134434 CTCATTTCTGC-AGTAGCTTC
1 CTCATTT-TGCTAGTAGCTTC
*
14134454 CTCATTTTTCTAGTAGCTTC
1 CTCATTTTGCTAGTAGCTTC
14134474 TTATTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.15, C:0.28, G:0.12, T:0.45
Consensus pattern (20 bp):
CTCATTTTGCTAGTAGCTTC
Found at i:14135191 original size:37 final size:37
Alignment explanation
Indices: 14135149--14135219 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
14135139 TAATGTTGCT
* *
14135149 TGATGATGTTGAAGTGTGCGAGTAAGGAGTGCACACA
1 TGATGATGTTGAAATGTGCAAGTAAGGAGTGCACACA
*
14135186 TGATGATGTTGAAATGTGCAAGTAGGGAGTGCAC
1 TGATGATGTTGAAATGTGCAAGTAAGGAGTGCAC
14135220 GTGACGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.25
Consensus pattern (37 bp):
TGATGATGTTGAAATGTGCAAGTAAGGAGTGCACACA
Found at i:14135512 original size:21 final size:22
Alignment explanation
Indices: 14135488--14135530 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14135478 GCTATAGCAA
14135488 AAAACA-ATTCTCGCTGCAGCG
1 AAAACAGATTCTCGCTGCAGCG
*
14135509 AAAATAGATTCTCGCTGCAGCG
1 AAAACAGATTCTCGCTGCAGCG
14135531 GGAAACTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (22 bp):
AAAACAGATTCTCGCTGCAGCG
Found at i:14138481 original size:18 final size:19
Alignment explanation
Indices: 14138456--14138498 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14138446 GGGTGAGAAG
14138456 AATATTTTA-GAATAAAAT
1 AATATTTTATGAATAAAAT
*
14138474 ATTATTTTATGAATAAAAT
1 AATATTTTATGAATAAAAT
14138493 AATATT
1 AATATT
14138499 AAAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTTTATGAATAAAAT
Found at i:14139411 original size:34 final size:35
Alignment explanation
Indices: 14139362--14139456 Score: 122
Period size: 34 Copynumber: 2.6 Consensus size: 35
14139352 GAAAGAAACT
14139362 GATTTTTCAGAGAGGAAAGAGAGGCCTTGTGCTG-TC
1 GATTTTT--GAGAGGAAAGAGAGGCCTTGTGCTGCTC
*
14139398 GATTTTTGAGAGGAAAGAGAGGCCTTGTGCTGCTG
1 GATTTTTGAGAGGAAAGAGAGGCCTTGTGCTGCTC
14139433 GATTTTT-AGGAAGGAAAGGAGAGG
1 GATTTTTGA-G-AGGAAA-GAGAGG
14139457 AAGTTGGGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
34 26 0.48
35 9 0.17
36 13 0.24
37 6 0.11
ACGTcount: A:0.27, C:0.09, G:0.37, T:0.26
Consensus pattern (35 bp):
GATTTTTGAGAGGAAAGAGAGGCCTTGTGCTGCTC
Done.