Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 74 of 433
Found at i:21452612 original size:40 final size:40
Alignment explanation
Indices: 21452557--21452781 Score: 326
Period size: 40 Copynumber: 5.6 Consensus size: 40
21452547 TATTCGGATG
*
21452557 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21452597 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21452637 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
21452680 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21452720 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21452760 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
21452782 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.08
40 115 0.70
43 36 0.22
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21452800 original size:83 final size:80
Alignment explanation
Indices: 21452557--21452781 Score: 380
Period size: 83 Copynumber: 2.8 Consensus size: 80
21452547 TATTCGGATG
*
21452557 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
21452622 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
*
21452637 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
21452702 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
* *
21452720 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
21452782 TACTTGGGTT
Statistics
Matches: 137, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
79 15 0.11
80 44 0.32
81 1 0.01
82 1 0.01
83 76 0.55
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:21459446 original size:21 final size:21
Alignment explanation
Indices: 21459422--21459469 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
21459412 TTGACCTAAT
* *
21459422 AAATCAGATGAATATTAAAAA
1 AAATCAGATAAAGATTAAAAA
*
21459443 AAATGCAGCTAAAGATTAAAAA
1 AAAT-CAGATAAAGATTAAAAA
21459465 AAATC
1 AAATC
21459470 TCGCTATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.21
Consensus pattern (21 bp):
AAATCAGATAAAGATTAAAAA
Found at i:21462021 original size:26 final size:26
Alignment explanation
Indices: 21461985--21462037 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
21461975 CCTTCTATTC
21461985 TATTATTTTCACACTGTTTTATGATA
1 TATTATTTTCACACTGTTTTATGATA
*
21462011 TATTGTTTTCACACTGTTTTATGATA
1 TATTATTTTCACACTGTTTTATGATA
21462037 T
1 T
21462038 GTTTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (26 bp):
TATTATTTTCACACTGTTTTATGATA
Found at i:21462328 original size:53 final size:53
Alignment explanation
Indices: 21462244--21462347 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
21462234 ACTATACAAT
* * * *
21462244 TGATATTGTTACTGTTACTGTATTGACTAGCATGTTGTGCTACATGATTGATA
1 TGATATTCTTACTGTTACTGTATTGACTAGCATGATATGCCACATGATTGATA
* **
21462297 TGATATTCTTACTGTTATTGT-TCTGTTTAGCATGATATGCCACATGATTGA
1 TGATATTCTTACTGTTACTGTAT-TGACTAGCATGATATGCCACATGATTGA
21462348 AATGCCATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.02
53 42 0.98
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.44
Consensus pattern (53 bp):
TGATATTCTTACTGTTACTGTATTGACTAGCATGATATGCCACATGATTGATA
Found at i:21465491 original size:44 final size:44
Alignment explanation
Indices: 21465441--21465633 Score: 165
Period size: 44 Copynumber: 4.6 Consensus size: 44
21465431 TGTGCTTTCC
21465441 TGTAAGACCACGTCTGGGACATTGGCATCGAT-TTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGATTTACG
** * * *
21465485 TGTAAGACCACGTCTAAGACGTTGACATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGATTTACG
* *
21465529 TGTAAGACCATGTCTGGG--A---GCATC-ATATTTGATTT-TG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTACG
** * * * *
21465566 TGTAAGACC-CTGTCTATGATAGTGGCATCGATATTTGA-TTGCA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTTACG
21465609 TGTAAGACCACGTCTGGGACATTGG
1 TGTAAGACCACGTCTGGGACATTGG
21465634 AATTGTACGA
Statistics
Matches: 117, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
37 16 0.14
38 8 0.07
39 5 0.04
42 7 0.06
43 27 0.23
44 52 0.44
45 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTACG
Found at i:21473235 original size:43 final size:42
Alignment explanation
Indices: 21473154--21473254 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
21473144 TATGATTTAT
* * *
21473154 ATGTAAGACCATGTCTGGGACATCGGCATCATAATTGATTTC
1 ATGTAAGACCATGTCTAGAACATCGGCATCATAATTGATTGC
* * *
21473196 GTGTAAGACCCTGTCTAGAACAGT-GGCATCGATATTTGATTGC
1 ATGTAAGACCATGTCTAGAACA-TCGGCATC-ATAATTGATTGC
*
21473239 ATGTAAGACCACGTCT
1 ATGTAAGACCATGTCT
21473255 GGGACGTTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 24 0.50
43 24 0.50
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (42 bp):
ATGTAAGACCATGTCTAGAACATCGGCATCATAATTGATTGC
Found at i:21473266 original size:43 final size:43
Alignment explanation
Indices: 21473111--21473267 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
21473101 TGTGTTTTCG
* * *
21473111 TGTAAGACCACATCTGGGACGTTGGCATCGACT-TATGATTTATA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * * *
21473155 TGTAAGACCATGTCTGGGACATCGGCATC-ATAATTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* * *
21473197 TGTAAGACC-CTGTCTAGAACAG-TGGCATCGATATTTGATTGCA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
21473240 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
21473268 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 26 0.30
43 36 0.41
44 26 0.30
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:21474086 original size:77 final size:77
Alignment explanation
Indices: 21473999--21474150 Score: 304
Period size: 77 Copynumber: 2.0 Consensus size: 77
21473989 TCATGATATG
21473999 TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
1 TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
21474064 TGTTGTTAATAA
66 TGTTGTTAATAA
21474076 TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
1 TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
21474141 TGTTGTTAAT
66 TGTTGTTAAT
21474151 GAAATGGCAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (77 bp):
TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
TGTTGTTAATAA
Found at i:21476521 original size:23 final size:25
Alignment explanation
Indices: 21476467--21476523 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
21476457 TTTGTTTGGA
*
21476467 AAACTACCGAGATTTTTTTTCAAGT
1 AAACCACCGAGATTTTTTTTCAAGT
*
21476492 AACCCACCGAGATTTTTTTT-AA-T
1 AAACCACCGAGATTTTTTTTCAAGT
21476515 AAACCACCG
1 AAACCACCG
21476524 TGATATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.31
24 2 0.07
25 18 0.62
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (25 bp):
AAACCACCGAGATTTTTTTTCAAGT
Found at i:21477588 original size:171 final size:171
Alignment explanation
Indices: 21477303--21477644 Score: 684
Period size: 171 Copynumber: 2.0 Consensus size: 171
21477293 TTATTTAAGA
21477303 CGGACATGATCAGATTTAAATTAGAATAAAAAGTTTCATTTTTATTTAGATATGATGAAACTCAT
1 CGGACATGATCAGATTTAAATTAGAATAAAAAGTTTCATTTTTATTTAGATATGATGAAACTCAT
21477368 ACATGTAATCTCAAAGTTATTAGTATCTAAATTTTACCATAAAATCAATACCTCATTGTTATTTT
66 ACATGTAATCTCAAAGTTATTAGTATCTAAATTTTACCATAAAATCAATACCTCATTGTTATTTT
21477433 TTTAATTGGATTAAGAAAATAATGAAATATAGCTCAATGCT
131 TTTAATTGGATTAAGAAAATAATGAAATATAGCTCAATGCT
21477474 CGGACATGATCAGATTTAAATTAGAATAAAAAGTTTCATTTTTATTTAGATATGATGAAACTCAT
1 CGGACATGATCAGATTTAAATTAGAATAAAAAGTTTCATTTTTATTTAGATATGATGAAACTCAT
21477539 ACATGTAATCTCAAAGTTATTAGTATCTAAATTTTACCATAAAATCAATACCTCATTGTTATTTT
66 ACATGTAATCTCAAAGTTATTAGTATCTAAATTTTACCATAAAATCAATACCTCATTGTTATTTT
21477604 TTTAATTGGATTAAGAAAATAATGAAATATAGCTCAATGCT
131 TTTAATTGGATTAAGAAAATAATGAAATATAGCTCAATGCT
21477645 TCGAATACGT
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 171 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (171 bp):
CGGACATGATCAGATTTAAATTAGAATAAAAAGTTTCATTTTTATTTAGATATGATGAAACTCAT
ACATGTAATCTCAAAGTTATTAGTATCTAAATTTTACCATAAAATCAATACCTCATTGTTATTTT
TTTAATTGGATTAAGAAAATAATGAAATATAGCTCAATGCT
Found at i:21477672 original size:39 final size:39
Alignment explanation
Indices: 21477620--21477698 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
21477610 TGGATTAAGA
21477620 AAATAATGAAATATAGCTCAATGCTTCGAATACGTCCAG
1 AAATAATGAAATATAGCTCAATGCTTCGAATACGTCCAG
21477659 AAATAATGAAATATAGCTCAATGCTTCGAATACGTCCAG
1 AAATAATGAAATATAGCTCAATGCTTCGAATACGTCCAG
21477698 A
1 A
21477699 GAAATGGCGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (39 bp):
AAATAATGAAATATAGCTCAATGCTTCGAATACGTCCAG
Found at i:21478189 original size:15 final size:14
Alignment explanation
Indices: 21478145--21478211 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
21478135 GTTTGCAGGT
* *
21478145 AAAATGTTTTCCGG
1 AAAATGATTTCTGG
21478159 AAAATGATTTCTGG
1 AAAATGATTTCTGG
21478173 AAAATGATTTCCTGG
1 AAAATGATTT-CTGG
*
21478188 AAAATAATTTCTGG
1 AAAATGATTTCTGG
21478202 AAAATGATTT
1 AAAATGATTT
21478212 ACTTTTCTGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
14 35 0.73
15 13 0.27
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:21478197 original size:29 final size:28
Alignment explanation
Indices: 21478145--21478211 Score: 107
Period size: 29 Copynumber: 2.4 Consensus size: 28
21478135 GTTTGCAGGT
* *
21478145 AAAATGTTTTCCGGAAAATGATTTCTGG
1 AAAATGATTTCCGGAAAATAATTTCTGG
21478173 AAAATGATTTCCTGGAAAATAATTTCTGG
1 AAAATGATTTCC-GGAAAATAATTTCTGG
21478202 AAAATGATTT
1 AAAATGATTT
21478212 ACTTTTCTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 11 0.31
29 25 0.69
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (28 bp):
AAAATGATTTCCGGAAAATAATTTCTGG
Found at i:21478327 original size:20 final size:20
Alignment explanation
Indices: 21478302--21478341 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21478292 CTGTTTTTAC
21478302 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
21478322 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
21478342 TTTAAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:21478346 original size:16 final size:18
Alignment explanation
Indices: 21478297--21478341 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
21478287 AAAAACTGTT
* *
21478297 TTTACATATATTAATAAA
1 TTTATATATTTTAATAAA
21478315 TTTATATATATATTAATAAA
1 TTTATATAT-T-TTAATAAA
21478335 TTTATAT
1 TTTATAT
21478342 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATTTTAATAAA
Found at i:21479788 original size:21 final size:21
Alignment explanation
Indices: 21479764--21479805 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21479754 TCAATATCAT
21479764 TATCCAAC-TAAATAAATTCAA
1 TATCCAACAT-AATAAATTCAA
*
21479785 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
21479806 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:21479839 original size:21 final size:21
Alignment explanation
Indices: 21479774--21479839 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
21479764 TATCCAACTA
21479774 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
21479795 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
21479820 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
21479840 AATTCAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 15 0.41
22 2 0.05
23 2 0.05
24 2 0.05
25 16 0.43
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:21479840 original size:32 final size:32
Alignment explanation
Indices: 21479813--21479873 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
21479803 CAACAAGCTT
* *
21479813 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
21479845 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
21479874 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:21484761 original size:10 final size:10
Alignment explanation
Indices: 21484734--21484793 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
21484724 TTAAATTCTA
21484734 AAAGATAAAT
1 AAAGATAAAT
21484744 ACAA-ATAAAT
1 A-AAGATAAAT
*
21484754 AAAGATAATT
1 AAAGATAAAT
*
21484764 AAAGATAATT
1 AAAGATAAAT
21484774 AAAGATAAAT
1 AAAGATAAAT
21484784 GAAA-ATAAAT
1 -AAAGATAAAT
21484794 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:21486460 original size:17 final size:17
Alignment explanation
Indices: 21486440--21486473 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21486430 AGTTTTAGGT
21486440 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
21486457 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
21486474 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:21486812 original size:16 final size:17
Alignment explanation
Indices: 21486778--21486814 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
21486768 TACAAAAATG
21486778 TATAAAACATCAGATTT
1 TATAAAACATCAGATTT
*
21486795 TATAAAATATCA-ATTT
1 TATAAAACATCAGATTT
21486811 TATA
1 TATA
21486815 TTTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAAAACATCAGATTT
Found at i:21486885 original size:26 final size:26
Alignment explanation
Indices: 21486835--21486885 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
21486825 AATAATAATA
*
21486835 TAAAATATGATAATTTATAAAAAATT
1 TAAAATATGATAAATTATAAAAAATT
21486861 TAAAATAT-A-AAATTACTAAATAAAT
1 TAAAATATGATAAATTA-TAAA-AAAT
21486886 ATTTGAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 5 0.23
25 5 0.23
26 12 0.55
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
TAAAATATGATAAATTATAAAAAATT
Found at i:21488691 original size:39 final size:39
Alignment explanation
Indices: 21488637--21488721 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
21488627 TGGTATCTGA
*
21488637 CTAACATTGTAAGATTTTGGGTTGACAACCACTATAATG
1 CTAACACTGTAAGATTTTGGGTTGACAACCACTATAATG
21488676 CTAACACTGTAAGATTTTGGGTTGACAACCACTATAATG
1 CTAACACTGTAAGATTTTGGGTTGACAACCACTATAATG
21488715 CTAACAC
1 CTAACAC
21488722 GTGTCAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (39 bp):
CTAACACTGTAAGATTTTGGGTTGACAACCACTATAATG
Found at i:21488889 original size:18 final size:18
Alignment explanation
Indices: 21488865--21488907 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21488855 TATACTCCTT
*
21488865 TATTTTATAATTTT-TTA
1 TATTTTAAAATTTTCTTA
21488882 TAATTTTAAAATTTTCTTA
1 T-ATTTTAAAATTTTCTTA
21488901 TATTTTA
1 TATTTTA
21488908 GGATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 18 0.78
19 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTAAAATTTTCTTA
Found at i:21493350 original size:20 final size:22
Alignment explanation
Indices: 21493322--21493363 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21493312 TGAACTCAAC
21493322 CATTAATCA-A-ATTTCATATA
1 CATTAATCATACATTTCATATA
*
21493342 CATTTATCATACATTTCATATA
1 CATTAATCATACATTTCATATA
21493364 TCATGTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
CATTAATCATACATTTCATATA
Found at i:21493380 original size:22 final size:22
Alignment explanation
Indices: 21493332--21493374 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21493322 CATTAATCAA
* *
21493332 ATTTCATATACATTTATCATAC
1 ATTTCATATACATGTAACATAC
21493354 ATTTCATATATCATGTAACAT
1 ATTTCATATA-CATGTAACAT
21493375 TATTTCCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTCATATACATGTAACATAC
Found at i:21493589 original size:24 final size:25
Alignment explanation
Indices: 21493537--21493589 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
21493527 GTACATATAT
* * *
21493537 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTATAAATCGGTAA
*
21493562 GCTCTTACGAGCTATAAAT-GGTAA
1 GCTCATACGAGCTATAAATCGGTAA
21493586 GCTC
1 GCTC
21493590 CTCCAAGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGTAA
Found at i:21496074 original size:40 final size:39
Alignment explanation
Indices: 21495949--21496127 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 39
21495939 TCGAATGGTG
* * *
21495949 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGC-GAGTCACTAAA
* * * *
21495990 TCCGGG-TCAATTCCCGAAGGCATTGTGTGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTGTGCGAGTCACTAAA
* * *
21496029 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTCACTAAA
* *
21496069 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTCACTA-AA
*
21496110 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
21496128 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
39 28 0.24
40 65 0.56
41 23 0.20
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTCACTAAA
Found at i:21496112 original size:80 final size:79
Alignment explanation
Indices: 21495950--21496167 Score: 226
Period size: 80 Copynumber: 2.7 Consensus size: 79
21495940 CGAATGGTGT
* * *
21495950 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTG
* * *
21496015 TGTGAGTTACCAAAA
65 TGCGAATCACCAAAA
* *
21496030 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AATTCCCGAAGGC-ATT
* *
21496094 GTGCGAATCACTATAA
64 GTGCGAATCACCAAAA
* * * * * * *
21496110 CCGGGCTATGTCCCGAAGACAATCGAGCGAGTCG-CTATATCCGGTTAAATT-CCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT-GACTAAATCCGGGTCAATTCCCGAAGG
21496168 TACGTGATTC
Statistics
Matches: 115, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
78 1 0.01
79 35 0.30
80 79 0.69
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTGT
GCGAATCACCAAAA
Found at i:21496148 original size:40 final size:40
Alignment explanation
Indices: 21496001--21496153 Score: 132
Period size: 40 Copynumber: 3.9 Consensus size: 40
21495991 CCGGGTCAAT
* * * * * * *
21496001 TCCCGAAGGC-ATTGTGTGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* *
21496040 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGGCAATCGTGCGAGTCACTATAA-CCGGGCT-ATG
* *
21496080 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* * * *
21496120 TCCCGAAGACAATCGAGCGAGTCGCTATATCCGG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGG
21496154 TTAAATTCCG
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
39 14 0.15
40 76 0.82
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
Found at i:21504120 original size:40 final size:40
Alignment explanation
Indices: 21504024--21504202 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
21504014 CGAATGGTGT
* * * *
21504024 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
21504065 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
21504105 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
21504145 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
21504185 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
21504203 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 91 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:21504158 original size:80 final size:80
Alignment explanation
Indices: 21504024--21504242 Score: 237
Period size: 80 Copynumber: 2.7 Consensus size: 80
21504014 CGAATGGTGT
* * * *
21504024 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
21504089 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* *
21504105 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATT
* *
21504169 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * * * * *
21504185 CCGGGCTATGTCCCGAAGACAATCGAGCGAGTCG-CTATATCCGGTTAAATT-CCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT-GACTAAATCCGGGTCAATTCCCGAAGG
21504243 TACGTGATTC
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
79 8 0.07
80 83 0.72
81 25 0.22
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:21504223 original size:40 final size:40
Alignment explanation
Indices: 21504075--21504228 Score: 141
Period size: 40 Copynumber: 3.9 Consensus size: 40
21504065 CCGGGTCAAT
* * * * * * *
21504075 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* *
21504115 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGGCAATCGTGCGAGTCACTATAA-CCGGGCT-ATG
* *
21504155 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* * * *
21504195 TCCCGAAGACAATCGAGCGAGTCGCTATATCCGG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGG
21504229 TTAAATTCCG
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 89 0.93
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
Found at i:21510407 original size:17 final size:18
Alignment explanation
Indices: 21510387--21510425 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
21510377 ATCAAAAGAT
21510387 ATAAACTTACT-TT-TAAC
1 ATAAACTTA-TATTCTAAC
21510404 ATAAACTTATATTCTAAC
1 ATAAACTTATATTCTAAC
21510422 ATAA
1 ATAA
21510426 TTCCAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 11 0.55
18 8 0.40
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAACTTATATTCTAAC
Found at i:21510808 original size:57 final size:57
Alignment explanation
Indices: 21510710--21510823 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 57
21510700 CGTATAACGG
*
21510710 AAAGTAAACTTACCGGTAATATTTATTAATACAAGCCTACATAAATTTACATTCCAT
1 AAAGTAAACTTACCGGTAATATTTATTAATACAAGCATACATAAATTTACATTCCAT
* * *
21510767 AAAGTAAACTTACCGGTCATATTTATTAATATAGGCATACATAAATTTACATTCCAT
1 AAAGTAAACTTACCGGTAATATTTATTAATACAAGCATACATAAATTTACATTCCAT
21510824 CGATTTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (57 bp):
AAAGTAAACTTACCGGTAATATTTATTAATACAAGCATACATAAATTTACATTCCAT
Found at i:21511525 original size:24 final size:24
Alignment explanation
Indices: 21511496--21511546 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
21511486 TTCGGATCTA
21511496 TATGGATAAATTTAACTATTAATC
1 TATGGATAAATTTAACTATTAATC
21511520 TATGGATAAATTTAACTATTAATC
1 TATGGATAAATTTAACTATTAATC
21511544 TAT
1 TAT
21511547 CACATTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (24 bp):
TATGGATAAATTTAACTATTAATC
Found at i:21542328 original size:42 final size:42
Alignment explanation
Indices: 21542269--21542348 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
21542259 GATTAAATAA
*
21542269 GTTAATTTTGAATTCATATAGATCAAGAAAGAAAGAATCCAG
1 GTTAATTTTGAATTCATACAGATCAAGAAAGAAAGAATCCAG
*
21542311 GTTAATTTTGAATTCATACAGATTAAGAAAGAAAGAAT
1 GTTAATTTTGAATTCATACAGATCAAGAAAGAAAGAAT
21542349 TTAGATTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (42 bp):
GTTAATTTTGAATTCATACAGATCAAGAAAGAAAGAATCCAG
Found at i:21544864 original size:17 final size:18
Alignment explanation
Indices: 21544836--21544871 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
21544826 TAGGTAAGTG
*
21544836 CTCTTGATTTCTTTCTTC
1 CTCTTGATTTCTTTATTC
21544854 CTCTT-ATTTCTTTATTC
1 CTCTTGATTTCTTTATTC
21544871 C
1 C
21544872 GGCTTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.08, C:0.28, G:0.03, T:0.61
Consensus pattern (18 bp):
CTCTTGATTTCTTTATTC
Found at i:21559852 original size:20 final size:20
Alignment explanation
Indices: 21559827--21559866 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21559817 AAAGTGTATG
21559827 ATACTTTGATAATAGATATA
1 ATACTTTGATAATAGATATA
21559847 ATACTTTGATAATAGATATA
1 ATACTTTGATAATAGATATA
21559867 TGTATATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
ATACTTTGATAATAGATATA
Found at i:21563081 original size:34 final size:33
Alignment explanation
Indices: 21563028--21563108 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
21563018 TTAGCCCCTC
*
21563028 TTTTAGTAGCAGTAACAGTCTGGGCCTGAGCCCA
1 TTTTAGTA-CAGTAACAGTCTAGGCCTGAGCCCA
** * *
21563062 TTTTAGTATCAGTGGCAGTCTAGGTCTTAGCCCA
1 TTTTAGTA-CAGTAACAGTCTAGGCCTGAGCCCA
21563096 TTTTAGTACAGTA
1 TTTTAGTACAGTA
21563109 TGTAAACATA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 4 0.10
34 36 0.90
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (33 bp):
TTTTAGTACAGTAACAGTCTAGGCCTGAGCCCA
Found at i:21567164 original size:22 final size:22
Alignment explanation
Indices: 21567130--21567171 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21567120 ATATTTAACC
* *
21567130 TTGTGAATGAATATGTGATAGT
1 TTGTGAATCAATATGAGATAGT
*
21567152 TTGTGGATCAATATGAGATA
1 TTGTGAATCAATATGAGATA
21567172 TATTATGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.38
Consensus pattern (22 bp):
TTGTGAATCAATATGAGATAGT
Found at i:21569364 original size:36 final size:36
Alignment explanation
Indices: 21569324--21569394 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
21569314 TTTGCTAGCT
*
21569324 TGAGTGCAATGTTTACAAGCTTGAGTTTGGTTAATC
1 TGAGTGCAATGTTTACAAGCTTGAGTCTGGTTAATC
* *
21569360 TGAGTGCAATGTTTGCTAGCTTGAGTCTGGTTAAT
1 TGAGTGCAATGTTTACAAGCTTGAGTCTGGTTAAT
21569395 GATGGAGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (36 bp):
TGAGTGCAATGTTTACAAGCTTGAGTCTGGTTAATC
Found at i:21572737 original size:22 final size:22
Alignment explanation
Indices: 21572712--21572758 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
21572702 CTCTCCAGCT
21572712 GGAATTATATGTATCTAAATAG
1 GGAATTATATGTATCTAAATAG
*
21572734 GGAATTATATGTATCTGAATAG
1 GGAATTATATGTATCTAAATAG
21572756 GGA
1 GGA
21572759 TTTCTTCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.34
Consensus pattern (22 bp):
GGAATTATATGTATCTAAATAG
Found at i:21576041 original size:16 final size:16
Alignment explanation
Indices: 21576013--21576113 Score: 96
Period size: 16 Copynumber: 6.2 Consensus size: 16
21576003 CTATCTATCA
*
21576013 TTTTCACTA-TCTAGAG
1 TTTTCAC-AGTCTATAG
21576029 TTTTCACAGTCTATAG
1 TTTTCACAGTCTATAG
* * *
21576045 TTGTCTCAGTATATAG
1 TTTTCACAGTCTATAG
21576061 TTTTTCACAGTCTATAG
1 -TTTTCACAGTCTATAG
* * *
21576078 TTGTCTCAATCTATAG
1 TTTTCACAGTCTATAG
*
21576094 TTTTTAACAGTCTATAG
1 -TTTTCACAGTCTATAG
21576111 TTT
1 TTT
21576114 CAAATCTAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
15 1 0.01
16 42 0.62
17 25 0.37
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.47
Consensus pattern (16 bp):
TTTTCACAGTCTATAG
Found at i:21576071 original size:33 final size:33
Alignment explanation
Indices: 21576029--21576112 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
21576019 CTATCTAGAG
*
21576029 TTTTCACAGTCTATAGTTGTCTCAGTATATAGT
1 TTTTCACAGTCTATAGTTGTCTCAATATATAGT
*
21576062 TTTTCACAGTCTATAGTTGTCTCAATCTATAGT
1 TTTTCACAGTCTATAGTTGTCTCAATATATAGT
*
21576095 TTTTAACAGTCTATAGTT
1 TTTTCACAGTCTATAGTT
21576113 TCAAATCTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (33 bp):
TTTTCACAGTCTATAGTTGTCTCAATATATAGT
Found at i:21576076 original size:17 final size:17
Alignment explanation
Indices: 21576029--21576113 Score: 95
Period size: 17 Copynumber: 5.1 Consensus size: 17
21576019 CTATCTAGAG
21576029 TTTTCACAGTCTATAG-
1 TTTTCACAGTCTATAGT
* * *
21576045 TTGTCTCAGTATATAGT
1 TTTTCACAGTCTATAGT
21576062 TTTTCACAGTCTATAGT
1 TTTTCACAGTCTATAGT
*
21576079 TGTCTCA-A-TCTATAGT
1 T-TTTCACAGTCTATAGT
*
21576095 TTTTAACAGTCTATAGT
1 TTTTCACAGTCTATAGT
21576112 TT
1 TT
21576114 CAAATCTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
15 3 0.05
16 23 0.41
17 26 0.46
18 4 0.07
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (17 bp):
TTTTCACAGTCTATAGT
Found at i:21577825 original size:8 final size:8
Alignment explanation
Indices: 21577814--21577842 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
21577804 GAAAAAGATC
21577814 ATGGGATG
1 ATGGGATG
21577822 ATGGGATG
1 ATGGGATG
21577830 ATGGGATG
1 ATGGGATG
21577838 ATGGG
1 ATGGG
21577843 TCTACCCTAA
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:0.52, T:0.24
Consensus pattern (8 bp):
ATGGGATG
Found at i:21579585 original size:29 final size:27
Alignment explanation
Indices: 21579551--21579653 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
21579541 TACTCAATCA
*
21579551 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
21579580 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
21579609 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
21579638 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
21579654 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:21596209 original size:31 final size:32
Alignment explanation
Indices: 21596174--21596233 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
21596164 CAATAATCTC
* *
21596174 CATTACTTT-TGAATTAGTTTTCATTTTTGTT
1 CATTACTTTATCAATTAGTTTGCATTTTTGTT
*
21596205 CATTACTTTATCATTTAGTTTGCATTTTT
1 CATTACTTTATCAATTAGTTTGCATTTTT
21596234 AGGTTCTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (32 bp):
CATTACTTTATCAATTAGTTTGCATTTTTGTT
Found at i:21597806 original size:13 final size:13
Alignment explanation
Indices: 21597788--21597813 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21597778 TTCAAACTAC
21597788 TTTTTATTTTTTA
1 TTTTTATTTTTTA
21597801 TTTTTATTTTTTA
1 TTTTTATTTTTTA
21597814 GCAGATTTTA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:21599389 original size:13 final size:13
Alignment explanation
Indices: 21599371--21599399 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21599361 AATTGGGGAA
21599371 CACGGCCGTGGGG
1 CACGGCCGTGGGG
21599384 CACGGCCGTGGGG
1 CACGGCCGTGGGG
21599397 CAC
1 CAC
21599400 TCCCGTGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.34, G:0.48, T:0.07
Consensus pattern (13 bp):
CACGGCCGTGGGG
Found at i:21601173 original size:13 final size:13
Alignment explanation
Indices: 21601155--21601181 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21601145 GTAGTTTTTC
21601155 ACATCAGTGAAGA
1 ACATCAGTGAAGA
21601168 ACATCAGTGAAGA
1 ACATCAGTGAAGA
21601181 A
1 A
21601182 TCGCTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (13 bp):
ACATCAGTGAAGA
Found at i:21605612 original size:30 final size:30
Alignment explanation
Indices: 21605576--21605635 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
21605566 AATTGTCGAA
*
21605576 CTCAAAGGAACTACTAGTACTAGTATTTAC
1 CTCAAAGGAACTACGAGTACTAGTATTTAC
21605606 CTCAAAGGAACTACGAGTACTAGTATTTAC
1 CTCAAAGGAACTACGAGTACTAGTATTTAC
21605636 TTCCTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (30 bp):
CTCAAAGGAACTACGAGTACTAGTATTTAC
Found at i:21615122 original size:27 final size:27
Alignment explanation
Indices: 21615042--21615136 Score: 120
Period size: 27 Copynumber: 3.5 Consensus size: 27
21615032 AAAGTCTAAG
* * * * *
21615042 TCAGTCATTTTACCCTTCAATGGTATG
1 TCAGTAATTTTACACTACAAGGGTATT
*
21615069 TCAGTCATTTTACACTACAAGGGTATT
1 TCAGTAATTTTACACTACAAGGGTATT
21615096 TCAGTAATTTTACACTACAAGGGTATT
1 TCAGTAATTTTACACTACAAGGGTATT
21615123 TC-GATAATTTTACA
1 TCAG-TAATTTTACA
21615137 AATCGGGGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.02
27 61 0.98
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (27 bp):
TCAGTAATTTTACACTACAAGGGTATT
Found at i:21615146 original size:27 final size:27
Alignment explanation
Indices: 21615088--21615561 Score: 453
Period size: 27 Copynumber: 17.7 Consensus size: 27
21615078 TTACACTACA
* *
21615088 AGGGTATTTC-AGTAATTTTAC-ACTACA
1 AGGGTATTTCGA-TAATTTTACAAAT-CG
21615115 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * **
21615142 GGGGTGTTTCGATAATTTTACAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
21615169 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
21615196 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
21615223 AGGGTGTTTCGATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
21615250 AGGGTGTTTC-AGTAATTTCATAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * **
21615277 -GGGATATTTCGGTTATTTTACAAATTA
1 AGGG-TATTTCGATAATTTTACAAATCG
* * *
21615304 AGGGTATTTTGGTAATTTCAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* **
21615330 AGGTTAGTTT-GGCAATTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* *
21615357 GGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
21615384 AGGGTGTTTTGGTAATTTCACAAATAG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
21615411 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
21615438 AGGGTATTTCGATAATTTCACAAAT-T
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
21615464 AGGGTATTTCAACAATTTCAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
21615490 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
21615517 -GCGGTATTTTGATAATTTTACAAATCG
1 AG-GGTATTTCGATAATTTTACAAATCG
**
21615544 AGGGTATTTTAATAATTT
1 AGGGTATTTCGATAATTT
21615562 CTTTTTATTA
Statistics
Matches: 373, Mismatches: 61, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.01
26 62 0.17
27 301 0.81
28 7 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:21615915 original size:28 final size:28
Alignment explanation
Indices: 21615878--21615984 Score: 124
Period size: 28 Copynumber: 3.8 Consensus size: 28
21615868 TGGCCCCTTT
* *
21615878 AGGCCCAATCTTGTTCACATGGCCCATC
1 AGGCCCAATCATATTCACATGGCCCATC
* *
21615906 AGGCCCAATCATATTCATACGGCCCATC
1 AGGCCCAATCATATTCACATGGCCCATC
* *
21615934 AGGCCTAATCACATTCACATGGCCCATC
1 AGGCCCAATCATATTCACATGGCCCATC
* * * *
21615962 AGGTCTAATCACATTCATATGGC
1 AGGCCCAATCATATTCACATGGC
21615985 TCGTCAAGCC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCATATTCACATGGCCCATC
Found at i:21615996 original size:56 final size:56
Alignment explanation
Indices: 21615891--21615997 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
21615881 CCCAATCTTG
* *
21615891 TTCACATGGCCCATCAGGCCCAATCATATTCATACGGCCCATCAGGCCTAATCACA
1 TTCACATGGCCCATCAGGCCCAATCACATTCATACGGCCCATCAAGCCTAATCACA
* * * * *
21615947 TTCACATGGCCCATCAGGTCTAATCACATTCATATGGCTCGTCAAGCCTAA
1 TTCACATGGCCCATCAGGCCCAATCACATTCATACGGCCCATCAAGCCTAA
21615998 CTACTTCCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (56 bp):
TTCACATGGCCCATCAGGCCCAATCACATTCATACGGCCCATCAAGCCTAATCACA
Found at i:21615997 original size:28 final size:28
Alignment explanation
Indices: 21615891--21615984 Score: 134
Period size: 28 Copynumber: 3.4 Consensus size: 28
21615881 CCCAATCTTG
* * *
21615891 TTCACATGGCCCATCAGGCCCAATCATA
1 TTCATATGGCCCATCAGGCCTAATCACA
*
21615919 TTCATACGGCCCATCAGGCCTAATCACA
1 TTCATATGGCCCATCAGGCCTAATCACA
* *
21615947 TTCACATGGCCCATCAGGTCTAATCACA
1 TTCATATGGCCCATCAGGCCTAATCACA
21615975 TTCATATGGC
1 TTCATATGGC
21615985 TCGTCAAGCC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (28 bp):
TTCATATGGCCCATCAGGCCTAATCACA
Found at i:21634828 original size:2 final size:2
Alignment explanation
Indices: 21634821--21634850 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21634811 AACCGTTTCC
21634821 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
21634851 TTTTTTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21636727 original size:16 final size:17
Alignment explanation
Indices: 21636706--21636740 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
21636696 TAATGTCTAG
21636706 GAAAATTA-TTAATTGA
1 GAAAATTAGTTAATTGA
21636722 GAAAATTAGTTTAATTGA
1 GAAAATTAG-TTAATTGA
21636740 G
1 G
21636741 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
GAAAATTAGTTAATTGA
Found at i:21648128 original size:40 final size:40
Alignment explanation
Indices: 21648026--21648151 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 40
21648016 TCGAATGGTG
* * * * *
21648026 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACAAAA
* *
21648067 TCCGGGTCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CAAAA
* * **
21648108 T-TGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
21648147 TCCGG
1 TCCGG
21648152 CTAATTCGAA
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
39 4 0.06
40 35 0.51
41 30 0.43
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
Found at i:21654784 original size:19 final size:20
Alignment explanation
Indices: 21654760--21654797 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
21654750 GGTACCACCA
21654760 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
21654779 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
21654798 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:21655554 original size:30 final size:30
Alignment explanation
Indices: 21655520--21655579 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
21655510 ATTTAATACG
21655520 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
21655550 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
21655580 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:21659385 original size:80 final size:80
Alignment explanation
Indices: 21659301--21659449 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
21659291 TATGGTAACC
* * * *
21659301 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
21659365 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
21659381 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
21659446 CCGG
66 CCGG
21659450 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:21659391 original size:40 final size:38
Alignment explanation
Indices: 21659342--21659449 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
21659332 ATCACGATTT
*
21659342 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
21659382 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
21659422 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
21659450 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:21670087 original size:40 final size:40
Alignment explanation
Indices: 21670002--21670152 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
21669992 AATTGAATGA
* * *
21670002 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
21670042 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
21670083 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
21670122 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
21670153 ACATGGTTGT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:21670166 original size:40 final size:40
Alignment explanation
Indices: 21670039--21670168 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
21670029 ATGCTGGAAA
* * * *
21670039 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
21670079 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
21670119 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
21670159 TTGTATCCGG
1 TTATATCCGG
21670169 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:21671801 original size:27 final size:26
Alignment explanation
Indices: 21671763--21671845 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
21671753 CGGAGGAAGC
*
21671763 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
21671790 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
21671816 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
21671843 GTT
1 GTT
21671846 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:21671965 original size:22 final size:22
Alignment explanation
Indices: 21671933--21671991 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21671923 CCCGTTATTA
*
21671933 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
21671955 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
21671977 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
21671992 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:21672194 original size:27 final size:26
Alignment explanation
Indices: 21672164--21672229 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
21672154 TTTGTGACAT
*
21672164 TATCTGATTCTGGTGGCTCTGCCAC-A
1 TATCTG-TTCTGGTGACTCTGCCACGA
*
21672190 GTATCTGTATCTGGTGACTCTGTCACGA
1 -TATCTGT-TCTGGTGACTCTGCCACGA
21672218 TATCTGTTCTGG
1 TATCTGTTCTGG
21672230 CAGCCATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.17
27 28 0.80
28 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTCTGCCACGA
Found at i:21672356 original size:6 final size:6
Alignment explanation
Indices: 21672347--21672484 Score: 135
Period size: 6 Copynumber: 22.8 Consensus size: 6
21672337 TTGCATTCAC
* *
21672347 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
21672396 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
21672444 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
21672485 CATTTTGGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 26
0.77 0.06 0.18
Matches are distributed among these distances:
5 9 0.08
6 93 0.84
7 6 0.05
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:21672418 original size:30 final size:30
Alignment explanation
Indices: 21672382--21672484 Score: 181
Period size: 30 Copynumber: 3.4 Consensus size: 30
21672372 ATTCTGATTC
21672382 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21672412 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
*
21672442 TGATTCTGATTCTGATTCTGTTACTGAT-T
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21672471 CTGATTCTGATTCT
1 -TGATTCTGATTCT
21672485 CATTTTGGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 1 0.01
30 70 0.99
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (30 bp):
TGATTCTGATTCTGATTCTGTTACTAATAT
Found at i:21674457 original size:27 final size:27
Alignment explanation
Indices: 21674425--21674864 Score: 502
Period size: 27 Copynumber: 16.4 Consensus size: 27
21674415 CCAATTACTG
*
21674425 TTACCCTCGATTTATAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
** ** *
21674452 TTACCCTTAATTTGTAAAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
21674479 TTACCCTCGATTTATAGAATTACTGTT
1 TTACCCTCGATTTACAGAATTACCGTT
** *
21674506 TTACCCTCGATTTGTAGAATTACCATT
1 TTACCCTCGATTTACAGAATTACCGTT
*
21674533 TTACCCTCGATTTATAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
21674560 TTACCCTC-AGTTTACAGAATTACCGTT
1 TTACCCTCGA-TTTACAGAATTACCGTT
21674587 TTACCCTCGATTTACAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
*
21674614 TTACCCTC-AGTTTACAGAATTACTGTT
1 TTACCCTCGA-TTTACAGAATTACCGTT
21674641 TTACCCTCGATTTACAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
** * *
21674668 TTACCCTCGATTTGTAAAATTACTGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
21674695 TTACCCTTGATTTACAGAATTACTG-T
1 TTACCCTCGATTTACAGAATTACCGTT
**
21674721 TTA-CCTC-AGTTTACA-AATTATTGTT
1 TTACCCTCGA-TTTACAGAATTACCGTT
** * *
21674746 TTACCCTCGATTTGTAAAATTACTGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
21674773 TTACCCTTGATTTACAGAATTACTAG-T
1 TTACCCTCGATTTACAGAATTAC-CGTT
* *
21674800 TTACCCTC-AGTTTACAAAATTATCGTT
1 TTACCCTCGA-TTTACAGAATTACCGTT
21674827 TTACCCTCGATTTACAGAATTA-CGTT
1 TTACCCTCGATTTACAGAATTACCGTT
*
21674853 TTACCCTTGATT
1 TTACCCTCGATT
21674865 GTGAAATTAC
Statistics
Matches: 359, Mismatches: 41, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
24 8 0.02
25 13 0.04
26 31 0.09
27 303 0.84
28 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
TTACCCTCGATTTACAGAATTACCGTT
Found at i:21674899 original size:27 final size:27
Alignment explanation
Indices: 21674869--21675063 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
21674859 TTGATTGTGA
*
21674869 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21674896 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
21674923 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21674950 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21674977 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21675004 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
21675031 AATTACCGAGATACCCTTGT-GGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
21675057 AATTACC
1 AATTACC
21675064 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 12 0.08
27 134 0.92
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:21675300 original size:27 final size:26
Alignment explanation
Indices: 21675262--21675344 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
21675252 CGGAGGAAGC
*
21675262 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
21675289 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
21675315 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
21675342 GTT
1 GTT
21675345 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:21675464 original size:22 final size:22
Alignment explanation
Indices: 21675432--21675490 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21675422 CCCGTTATTA
*
21675432 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
21675454 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
21675476 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
21675491 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:21675677 original size:27 final size:27
Alignment explanation
Indices: 21675655--21675728 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
21675645 TAGGTGGGTT
*
21675655 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
21675682 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
21675709 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
21675729 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:21675855 original size:6 final size:6
Alignment explanation
Indices: 21675846--21675983 Score: 135
Period size: 6 Copynumber: 22.8 Consensus size: 6
21675836 TTGCATTCAC
* *
21675846 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
21675895 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
21675943 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
21675984 CATTTTGGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 26
0.77 0.06 0.18
Matches are distributed among these distances:
5 9 0.08
6 93 0.84
7 6 0.05
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:21675917 original size:30 final size:30
Alignment explanation
Indices: 21675881--21675983 Score: 181
Period size: 30 Copynumber: 3.4 Consensus size: 30
21675871 ATTCTGATTC
21675881 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21675911 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
*
21675941 TGATTCTGATTCTGATTCTGTTACTGAT-T
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21675970 CTGATTCTGATTCT
1 -TGATTCTGATTCT
21675984 CATTTTGGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 1 0.01
30 70 0.99
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (30 bp):
TGATTCTGATTCTGATTCTGTTACTAATAT
Found at i:21677948 original size:27 final size:27
Alignment explanation
Indices: 21677917--21678365 Score: 499
Period size: 27 Copynumber: 16.8 Consensus size: 27
21677907 TTAGTTTACC
*
21677917 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
* * ** *
21677944 AATTACCGTTTTACCCT-TATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAG
* *
21677970 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
**
21677997 AATTACTGTTTTACCCTCGATTTGTAG
1 AATTACTGTTTTACCCTCGATTTACAG
** *
21678024 AATTACCATTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
21678051 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTACAG
*
21678078 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
21678105 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTACAG
21678132 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
* ** *
21678159 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAG
* *
21678186 AATTACTGTTTTACCCTTGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
21678213 AATTACTG-TTTA-CCTC-AGTTTACA-
1 AATTACTGTTTTACCCTCGA-TTTACAG
** *
21678237 AATTA-TCGTTTTACCCTCGATTTGTAA
1 AATTACT-GTTTTACCCTCGATTTACAG
*
21678264 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
21678291 AATTACTAG-TTTACCCTC-AGTTTACAA
1 AATTACT-GTTTTACCCTCGA-TTTACAG
21678318 AATTA-TCGTTTTACCCTCGATTTACAG
1 AATTACT-GTTTTACCCTCGATTTACAG
*
21678345 AATTAC-GTTTTACCCTTGATT
1 AATTACTGTTTTACCCTCGATT
21678366 GTGAAATTAC
Statistics
Matches: 369, Mismatches: 36, Indels: 35
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.00
24 7 0.02
25 12 0.03
26 54 0.15
27 290 0.79
28 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTACAG
Found at i:21678099 original size:81 final size:81
Alignment explanation
Indices: 21677909--21678365 Score: 574
Period size: 81 Copynumber: 5.7 Consensus size: 81
21677899 AGAATACTTT
* * * *
21677909 AGTTTAC-CAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTT-ATTTGTAAAA
1 AGTTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGAA
21677972 TTACCGTTTTACCCTC
66 TTACCGTTTTACCCTC
* * * * *
21677988 -GATTTATAGAATTACTGTTTTACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGA
1 AG-TTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGA
21678052 ATTACCGTTTTACCCTC
65 ATTACCGTTTTACCCTC
* * *
21678069 AGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC-TCAGTTTACAGA
1 AGTTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGA-TTTATAGA
*
21678133 ATTACTGTTTTACCCTC
65 ATTACCGTTTTACCCTC
* * *
21678150 -GATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTATAGA
1 AG-TTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGA
*
21678214 ATTACTG-TTTA-CCTC
65 ATTACCGTTTTACCCTC
* * * * *
21678229 AGTTTACA-AATTATCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTACAGAA
1 AGTTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGAA
*
21678293 TTACTAG-TTTACCCTC
66 TTAC-CGTTTTACCCTC
* * *
21678309 AGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTA-CGTTTTACCCTTGATT
1 AGTTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATT
21678366 GTGAAATTAC
Statistics
Matches: 338, Mismatches: 29, Indels: 21
0.87 0.07 0.05
Matches are distributed among these distances:
78 59 0.17
79 19 0.06
80 76 0.22
81 181 0.54
82 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (81 bp):
AGTTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGAA
TTACCGTTTTACCCTC
Found at i:21678400 original size:27 final size:27
Alignment explanation
Indices: 21678370--21678564 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
21678360 TTGATTGTGA
*
21678370 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21678397 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
21678424 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21678451 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21678478 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21678505 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
21678532 AATTACCGAGATACCCTTGT-GGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
21678558 AATTACC
1 AATTACC
21678565 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 12 0.08
27 134 0.92
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:21678801 original size:27 final size:26
Alignment explanation
Indices: 21678763--21678845 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
21678753 CGGAGGAAGC
*
21678763 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
21678790 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
21678816 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
21678843 GTT
1 GTT
21678846 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:21678965 original size:22 final size:22
Alignment explanation
Indices: 21678933--21678991 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21678923 CCCGTTATTA
*
21678933 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
21678955 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
21678977 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
21678992 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:21679193 original size:27 final size:26
Alignment explanation
Indices: 21679161--21679226 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
21679151 GGTTTGACAT
*
21679161 TATCTGATTCTGGTGGCTCTGCCAC-A
1 TATCTG-TTCTGGTGACTCTGCCACGA
*
21679187 GTATCTGTATCTGGTGACTCTGTCACGA
1 -TATCTGT-TCTGGTGACTCTGCCACGA
21679215 TATCTGTTCTGG
1 TATCTGTTCTGG
21679227 CAGCCATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.17
27 28 0.80
28 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTCTGCCACGA
Found at i:21679353 original size:6 final size:6
Alignment explanation
Indices: 21679344--21679481 Score: 135
Period size: 6 Copynumber: 22.8 Consensus size: 6
21679334 TTGCATTCAC
* *
21679344 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
21679393 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
21679441 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
21679482 CATTTTGGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 26
0.77 0.06 0.18
Matches are distributed among these distances:
5 9 0.08
6 93 0.84
7 6 0.05
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:21679415 original size:30 final size:30
Alignment explanation
Indices: 21679379--21679481 Score: 181
Period size: 30 Copynumber: 3.4 Consensus size: 30
21679369 ATTCTGATTC
21679379 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21679409 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
*
21679439 TGATTCTGATTCTGATTCTGTTACTGAT-T
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21679468 CTGATTCTGATTCT
1 -TGATTCTGATTCT
21679482 CATTTTGGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 1 0.01
30 70 0.99
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (30 bp):
TGATTCTGATTCTGATTCTGTTACTAATAT
Found at i:21681448 original size:27 final size:27
Alignment explanation
Indices: 21681417--21681868 Score: 501
Period size: 27 Copynumber: 16.8 Consensus size: 27
21681407 TTAGTTTACC
*
21681417 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
* ** ** *
21681444 AATTACCGTTTTACCCTTAATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAG
* *
21681471 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
**
21681498 AATTACTGTTTTACCCTCGATTTGTAG
1 AATTACTGTTTTACCCTCGATTTACAG
** *
21681525 AATTACCATTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
21681552 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTACAG
*
21681579 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
21681606 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTACAG
21681633 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
* ** *
21681660 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAG
*
21681687 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
21681714 AATTACTG-TTTACCCTC-AGTTTACAA
1 AATTACTGTTTTACCCTCGA-TTTACAG
** *
21681740 AATTA-TCGTTTTACCCTCGATTTGTAA
1 AATTACT-GTTTTACCCTCGATTTACAG
*
21681767 AATTACTGTTTTACCCTTG-TTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
21681793 AATTACTAG-TTTACCCTC-AGTTTACAA
1 AATTACT-GTTTTACCCTCGA-TTTACAG
21681820 AATTA-TCGTTTTACCCTCGATTTACAG
1 AATTACT-GTTTTACCCTCGATTTACAG
*
21681847 AATTA-TCGTTTTACCCTTGATT
1 AATTACT-GTTTTACCCTCGATT
21681869 GTGAAATTAC
Statistics
Matches: 372, Mismatches: 39, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.01
26 43 0.12
27 322 0.87
28 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTACAG
Found at i:21681556 original size:81 final size:81
Alignment explanation
Indices: 21681409--21681868 Score: 560
Period size: 81 Copynumber: 5.7 Consensus size: 81
21681399 AGAATACTTT
* * ** *
21681409 AGTTTAC-CAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTAATTTGTAAAA
1 AGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAA
21681473 TTACCGTTTTACCCTC
66 TTACCGTTTTACCCTC
* * * * *
21681489 -GATTTATAGAATTACTGTTTTACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGA
1 AG-TTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGA
21681553 ATTACCGTTTTACCCTC
65 ATTACCGTTTTACCCTC
* * *
21681570 AGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC-TCAGTTTACAGA
1 AGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGA-TTTACAGA
*
21681634 ATTACTGTTTTACCCTC
65 ATTACCGTTTTACCCTC
* * * *
21681651 -GATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTACAGA
1 AG-TTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGA
*
21681715 ATTACTG-TTTACCCTC
65 ATTACCGTTTTACCCTC
* * * *
21681731 AGTTTACAAAATTA-TCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTG-TTTACAGA
1 AGTTTACAGAATTACT-GTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGA
*
21681794 ATTACTAG-TTTACCCTC
65 ATTAC-CGTTTTACCCTC
* * *
21681811 AGTTTACAAAATTA-TCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTTGATT
1 AGTTTACAGAATTACT-GTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATT
21681869 GTGAAATTAC
Statistics
Matches: 340, Mismatches: 30, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
79 14 0.04
80 125 0.37
81 198 0.58
82 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (81 bp):
AGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAA
TTACCGTTTTACCCTC
Found at i:21682066 original size:27 final size:27
Alignment explanation
Indices: 21681873--21682066 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
21681863 TTGATTGTGA
*
21681873 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
21681900 AATTTTCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
21681927 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21681954 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21681981 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
21682008 AA-TACCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
21682033 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
21682060 AATTACC
1 AATTACC
21682067 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
25 14 0.10
26 18 0.13
27 111 0.78
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:21682303 original size:27 final size:26
Alignment explanation
Indices: 21682265--21682347 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
21682255 CGGAGGAAGC
*
21682265 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
21682292 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
21682318 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
21682345 GTT
1 GTT
21682348 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:21682467 original size:22 final size:22
Alignment explanation
Indices: 21682435--21682493 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21682425 CCCGTTATTA
*
21682435 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
21682457 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
21682479 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
21682494 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:21682858 original size:6 final size:6
Alignment explanation
Indices: 21682849--21683016 Score: 154
Period size: 6 Copynumber: 27.8 Consensus size: 6
21682839 TTGCATTCAC
* *
21682849 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
21682898 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
21682946 ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG
21682994 -TTACTG ATTCTG ATTCTG ATTCT
1 ATT-CTG ATTCTG ATTCTG ATTCT
21683017 CATTTTGGTT
Statistics
Matches: 135, Mismatches: 10, Indels: 34
0.75 0.06 0.19
Matches are distributed among these distances:
5 12 0.09
6 112 0.83
7 7 0.05
8 4 0.03
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:21683037 original size:30 final size:30
Alignment explanation
Indices: 21682884--21683016 Score: 241
Period size: 30 Copynumber: 4.4 Consensus size: 30
21682874 ATTCTGATTC
21682884 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21682914 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21682944 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAT
*
21682974 TGATTCTGATTCTGATTCTGTTACTGAT-T
1 TGATTCTGATTCTGATTCTGTTACTAATAT
21683003 CTGATTCTGATTCT
1 -TGATTCTGATTCT
21683017 CATTTTGGTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 1 0.01
30 100 0.99
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (30 bp):
TGATTCTGATTCTGATTCTGTTACTAATAT
Found at i:21685933 original size:29 final size:29
Alignment explanation
Indices: 21685841--21685985 Score: 134
Period size: 29 Copynumber: 5.0 Consensus size: 29
21685831 TACATACACG
**
21685841 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCACTAGGCCCAAATCACATT
* ** *
21685869 CATATGACCCATCTA-GCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAAATCACATT
* *
21685898 CTTATGGCCCACTAGGCCCAACTCACATT
1 CATATGGCCCACTAGGCCCAAATCACATT
21685927 CATATGGCCC-CTTTAGGCCCAAATCACATT
1 CATATGGCCCAC--TAGGCCCAAATCACATT
* * * *
21685957 TATGTGGCCCATTAGGCCTAAATCACATT
1 CATATGGCCCACTAGGCCCAAATCACATT
21685986 ATACCCATGC
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
28 18 0.19
29 54 0.56
30 24 0.25
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCACATT
Found at i:21688994 original size:88 final size:88
Alignment explanation
Indices: 21688902--21689248 Score: 475
Period size: 88 Copynumber: 3.9 Consensus size: 88
21688892 TAAGATTCGA
* * *
21688902 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAACATGTTACCCTA
1 CATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCTA
*
21688967 CTACTTAGGGGGTTAAGGCTCAC
66 CTACTTAGGGGGTTAAGACTCAC
* * * *
21688990 CATCTTCGATCTACTCCACTACTACTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTACCCTA
1 CATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCTA
21689055 CTACTT-GGTGGGTTAAGACTCAC
66 CTACTTAGG-GGGTTAAGACTCAC
* * *
21689078 CGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCTAGCCTGTTTCCCT
1 CATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC-AACCTGTTACCCT
*
21689142 ACTACTTAGGGGGATAAGACTCAC
65 ACTACTTAGGGGGTTAAGACTCAC
** * * * *
21689166 GGTTTTCAATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCTA
1 CATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCTA
*
21689231 CTGCTTAGGGAGG-TAAGA
66 CTACTTAGGG-GGTTAAGA
21689249 TATGAAATTT
Statistics
Matches: 232, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
87 5 0.02
88 219 0.94
89 8 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (88 bp):
CATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCTA
CTACTTAGGGGGTTAAGACTCAC
Found at i:21689216 original size:44 final size:43
Alignment explanation
Indices: 21688910--21689268 Score: 169
Period size: 44 Copynumber: 8.2 Consensus size: 43
21688900 GACATCTTCG
*
21688910 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCA
1 ATCTGCTCC-CTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
* * * * * * * *
21688954 A-CATGTTACCCTACTACTTAGGGGGTTAAG-GCT-CACCATCTTCG
1 ATC-TGCT-CCCTACTGCTTAGGGAGATAAGATCTGTA--ATTTTCA
* * * *
21688998 ATCTACTCCACTACTACTTAAGGAGATAAGATCTGTAATTTCCA
1 ATCTGCTCC-CTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
** * * * * * * * *
21689042 GCCTGTTACCCTACTACTT-GGTGGGTTAAGA-CT-CACCGTCTTCG
1 ATCTGCT-CCCTACTGCTTAGG-GAGATAAGATCTGTA--ATTTTCA
*
21689086 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCTA
1 ATCTGCTCC-CTACTGCTTAGGGAGATAAGATCTGTAATTTTC-A
** * * * * *
21689130 GCCTGTTTCCCTACTACTTAGGGGGATAAGA-CT-CACGGTTTTCA
1 ATCTG-CTCCCTACTGCTTAGGGAGATAAGATCTGTA--ATTTTCA
21689174 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
1 ATCTGCTCC-CTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
* * * * *
21689218 ACCTGTTACCCTACTGCTTAGGGAGGTAAGATATGAAATTTTCA
1 ATCTGCT-CCCTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
*
21689262 GTCTGCT
1 ATCTGCT
21689269 TCCTTGCTAC
Statistics
Matches: 225, Mismatches: 65, Indels: 50
0.66 0.19 0.15
Matches are distributed among these distances:
42 3 0.01
43 17 0.08
44 180 0.80
45 22 0.10
46 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (43 bp):
ATCTGCTCCCTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
Found at i:21689468 original size:178 final size:178
Alignment explanation
Indices: 21689239--21689651 Score: 605
Period size: 178 Copynumber: 2.3 Consensus size: 178
21689229 TACTGCTTAG
* * * * *
21689239 GGAGGTAAGATATGAAATTTTCAGTCTGCTTCCTTGCTACCTGAGGAAGATAAGGCTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGGCTTGTATCTT
* * ** ***
21689304 CGACCTGCTCTCTTGCTACTTCATGGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGTTGATA
66 CAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCAATA
* ** *
21689369 CATGGAGATAAGACTCACCATTTTTTATTTATTCCATAG-ACGATACAT
131 CATGGACATAAGACTCACCATTTTGGATCTATTCCATAGCA-GATACAT
* *
21689417 GGAGATAAGATCTGTAATTTTCTGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGGCTTGTATCTT
21689482 CAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCAATA
66 CAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCAATA
* * *
21689547 CATGGACATAAGACTCGCCCTTTTGGATCTGTTCCATAGCAGATACAT
131 CATGGACATAAGACTCACCATTTTGGATCTATTCCATAGCAGATACAT
21689595 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC-AGAAAGATAAGGCT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAAG-AAGATAAGGCT
21689652 GGTGGCTAAA
Statistics
Matches: 210, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
177 2 0.01
178 207 0.99
179 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (178 bp):
GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGGCTTGTATCTT
CAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCAATA
CATGGACATAAGACTCACCATTTTGGATCTATTCCATAGCAGATACAT
Found at i:21689849 original size:45 final size:44
Alignment explanation
Indices: 21689662--21689870 Score: 131
Period size: 45 Copynumber: 4.7 Consensus size: 44
21689652 GGTGGCTAAA
* * * * *
21689662 ATCTGCTCCATAGCCGATATATGGAGATAAGATTCGCCATTTTTT
1 ATCTGCTCCATTGCCGATACATAGAGATAAGACTCG-TATTTTTT
*
21689707 ATCTGCTCCATTGCTGATACATAGAGATAAGA-TC-TATAATTTTT
1 ATCTGCTCCATTGCCGATACATAGAGATAAGACTCGTAT--TTTTT
* * * * *** ***
21689751 AGTCTGCTCTC-TTGCTAC-CT-CAAAGAGATAAGGCTGGTGGCTAAA
1 A-TCTGCTC-CATTGC--CGATACATAGAGATAAGACTCGTATTTTTT
*
21689796 ATCTGCTCCATTGTCGATACATAGAGATAAGACTCGTCATTTTTT
1 ATCTGCTCCATTGCCGATACATAGAGATAAGACTCGT-ATTTTTT
* * *
21689841 ATCTGCTCCATAGCCGGTACATGGAGATAA
1 ATCTGCTCCATTGCCGATACATAGAGATAA
21689871 AATCTGTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 24
0.69 0.18 0.14
Matches are distributed among these distances:
42 3 0.02
43 2 0.02
44 33 0.27
45 79 0.65
46 3 0.02
47 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
ATCTGCTCCATTGCCGATACATAGAGATAAGACTCGTATTTTTT
Found at i:21689883 original size:45 final size:45
Alignment explanation
Indices: 21689796--21689883 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
21689786 GGTGGCTAAA
* * * *
21689796 ATCTGCTCCATTGTCGATACATAGAGATAAGACTCGTCATTTTTT
1 ATCTGCTCCATAGCCGATACATAGAGATAAAACTCGTAATTTTTT
* *
21689841 ATCTGCTCCATAGCCGGTACATGGAGATAAAA-TCTGTAATTTT
1 ATCTGCTCCATAGCCGATACATAGAGATAAAACTC-GTAATTTT
21689884 CAGTTTGCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAAACTCGTAATTTTTT
Found at i:21689916 original size:134 final size:134
Alignment explanation
Indices: 21689493--21689906 Score: 589
Period size: 134 Copynumber: 3.1 Consensus size: 134
21689483 AACCTGCTCT
* * * *
21689493 CTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCAATACATGGACATAA
1 CTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAA
* ** *
21689558 GACTCGCCCTTTTGGATCTGTTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAGTCTG
66 GACTCGCCATTTTTTATCTGCTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAGTCTG
21689623 CTTC
131 CTTC
*
21689627 CTTGCTACCTCAGAA-AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATA
1 CTTGCTACCTCA-AAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATA
* * * * * *
21689691 AGATTCGCCATTTTTTATCTGCTCCATTGCTGATACATAGAGATAAGATCTATAATTTTTAGTCT
65 AGACTCGCCATTTTTTATCTGCTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAGTCT
21689756 GC-TC
130 GCTTC
* * *
21689760 TCTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCGATACATAGAGATA
1 -CTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATA
* * * * *
21689825 AGACTCGTCATTTTTTATCTGCTCCATAGCCGGTACATGGAGATAAAATCTGTAATTTTCAGTTT
65 AGACTCGCCATTTTTTATCTGCTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAGTCT
21689890 GCTTC
130 GCTTC
21689895 CTTGCTACCTCA
1 CTTGCTACCTCA
21689907 GGAAGATAAG
Statistics
Matches: 247, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
133 4 0.02
134 239 0.97
135 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (134 bp):
CTTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAA
GACTCGCCATTTTTTATCTGCTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAGTCTG
CTTC
Found at i:21689956 original size:134 final size:134
Alignment explanation
Indices: 21689493--21689960 Score: 449
Period size: 134 Copynumber: 3.5 Consensus size: 134
21689483 AACCTGCTCT
* * * * *
21689493 CTTGCTACCTCA-AAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCAATA-CAT-G-GAC
1 CTTGCTACCTCAGAA-AGATAAGGCTGGTGGCTAAAATCTGCTCCATTG-C--TACCTTAGAGAG
* ** *
21689554 ATAAGACTCGCCCTTTTGGATCTGTTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAG
62 ATAAGACTCGCCATTTTTTATCTGCTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAG
21689619 TCTGCTTC
127 TCTGCTTC
* *
21689627 CTTGCTACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGC--CGATATATG-GAGA
1 CTTGCTACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCTAC-CT-TA-GAGAGA
* * * * * *
21689689 TAAGATTCGCCATTTTTTATCTGCTCCATTGCTGATACATAGAGATAAGATCTATAATTTTTAGT
63 TAAGACTCGCCATTTTTTATCTGCTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAGT
21689754 CTGC-TC
128 CTGCTTC
*
21689760 TCTTGCTACCTCA-AAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCGATA-C--ATAGA
1 -CTTGCTACCTCAGAA-AGATAAGGCTGGTGGCTAAAATCTGCTCCATTG-C--TACCTTAGAGA
* * * *
21689821 GATAAGACTCGTCATTTTTTATCTGCTCCATAGCCGGTACATGGAGATAAAATCTGTAATTTTCA
61 GATAAGACTCGCCATTTTTTATCTGCTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCA
*
21689886 GTTTGCTTC
126 GTCTGCTTC
* * * ** ** *
21689895 CTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC-TTGCTACCTTAGAGAGATA
1 CTTGCTACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTGCTC-CATTGCTACCTTAGAGAGATA
21689959 AG
65 AG
21689961 GCTAGTGGCT
Statistics
Matches: 277, Mismatches: 37, Indels: 40
0.78 0.10 0.11
Matches are distributed among these distances:
131 2 0.01
132 2 0.01
133 6 0.02
134 260 0.94
135 7 0.03
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (134 bp):
CTTGCTACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCTACCTTAGAGAGATAA
GACTCGCCATTTTTTATCTGCTCCATAGCAGATACATGGAGATAAGATCTGTAATTTTCAGTCTG
CTTC
Found at i:21690096 original size:44 final size:44
Alignment explanation
Indices: 21690046--21690137 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
21690036 TATATGGAGA
* *
21690046 TAAGATCTGAAATTTTTAGCCTGTTACCCTACTACTTAAGGGGT
1 TAAGATCTAAAATTTTCAGCCTGTTACCCTACTACTTAAGGGGT
* *
21690090 TAAGATCTAAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGT
1 TAAGATCTAAAATTTTCAGCCTGTTACCCTACTACTTAAGGGGT
21690134 TAAG
1 TAAG
21690138 GCTCGTCGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (44 bp):
TAAGATCTAAAATTTTCAGCCTGTTACCCTACTACTTAAGGGGT
Found at i:21693242 original size:40 final size:40
Alignment explanation
Indices: 21693185--21693410 Score: 312
Period size: 40 Copynumber: 5.7 Consensus size: 40
21693175 CTAACGGGGT
* * * *
21693185 TAAGTCCCAAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
21693225 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
21693265 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
21693305 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * *
21693345 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
21693385 TAAGACCCGAAGGC-CTTGTGCGAGTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTG
21693411 GTTATATCCG
Statistics
Matches: 171, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 159 0.93
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:21697971 original size:40 final size:40
Alignment explanation
Indices: 21697927--21698153 Score: 334
Period size: 40 Copynumber: 5.7 Consensus size: 40
21697917 GCTAAATCCT
* * *
21697927 AAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCG
*
21697967 AAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
21698007 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
*
21698047 AAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
* *
21698087 AAGGCATTGGTGCGAGTTACTATAT-CGGGCTATGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
* *
21698126 AAGGCATTCGAGCGAG-TAGCTATATCCG
1 AAGGCATTTGTGCGAGTTA-CTATATCCG
21698154 TTAAATCCGA
Statistics
Matches: 175, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 2 0.01
39 34 0.19
40 139 0.79
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
Found at i:21706172 original size:76 final size:77
Alignment explanation
Indices: 21706001--21706233 Score: 293
Period size: 76 Copynumber: 3.1 Consensus size: 77
21705991 TGGATGATAA
* *
21706001 CCGGGCTAAGTCCGAAGGCA-TT-TGCTA-TGACTAGT-TCCGGGCTAAGT-CCGAAGGCA-TTG
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-TAT-CGGGCTAAGTCCCGAAGGCATTTG
21706060 TGCGATTACTATAT
64 TGCGATTACTATAT
21706074 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT-GGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCATTTGT
21706138 -CGAGTTACTATAT
65 GCGA-TTACTATAT
* * * *
21706151 CCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGA
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT-CGGGCTAAGTCCCGAAGGCATTTGT
*
21706216 GCGAGTAGCTATAT
65 GCGATTA-CTATAT
21706230 CCGG
1 CCGG
21706234 TTAAATCCCG
Statistics
Matches: 141, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
73 11 0.08
74 9 0.06
75 11 0.08
76 44 0.31
77 30 0.21
78 23 0.16
79 13 0.09
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (77 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCATTTGTG
CGATTACTATAT
Found at i:21706181 original size:39 final size:39
Alignment explanation
Indices: 21706001--21706247 Score: 302
Period size: 39 Copynumber: 6.5 Consensus size: 39
21705991 TGGATGATAA
* *
21706001 CCGGGCTAAGT-CCGAAGGCATT-TGCTA-TGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTA-TAT
21706037 CCGGGCTAAGT-CCGAAGGCATTGTGCGA-TTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAT
21706074 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAT
21706114 --GGGCTAAGTCCCGAAGGCATT-TGTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTG-CGAGTTACTATAT
21706151 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTATAT
* *
21706190 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTA-CTATAT
* *
21706230 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21706248 TACTTGGCTT
Statistics
Matches: 191, Mismatches: 8, Indels: 21
0.87 0.04 0.10
Matches are distributed among these distances:
36 25 0.13
37 36 0.19
38 39 0.20
39 55 0.29
40 36 0.19
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAT
Found at i:21706205 original size:116 final size:113
Alignment explanation
Indices: 21706002--21706247 Score: 338
Period size: 116 Copynumber: 2.2 Consensus size: 113
21705992 GGATGATAAC
*
21706002 CGGGCTAAGT-CCGAAGGCATTTGCTATGACTAGTTCCGGGCTAAGTCCGAAGGCATTGTGCGAT
1 CGGGCTAAGTCCCGAAGGCATTTGCGATGACTAGTTCCGGGCTAAGTCCGAAGGCATTGTGCGAT
* *
21706066 TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
66 TACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
*
21706114 -GGGCTAAGTCCCGAAGGCATTTGTCGAGTTACTA-TATCCGGGCTAAGTCCGAAGGCATTGGTG
1 CGGGCTAAGTCCCGAAGGCATTTG-CGA-TGACTAGT-TCCGGGCTAAGTCCGAAGGCATT-GTG
*
21706177 CGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
62 CGA-TTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
* * *
21706230 CCGGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
21706248 TACTTGGCTT
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
111 9 0.08
112 13 0.11
113 3 0.03
114 28 0.24
115 8 0.07
116 43 0.36
117 14 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (113 bp):
CGGGCTAAGTCCCGAAGGCATTTGCGATGACTAGTTCCGGGCTAAGTCCGAAGGCATTGTGCGAT
TACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
Found at i:21713395 original size:40 final size:40
Alignment explanation
Indices: 21713340--21713577 Score: 318
Period size: 40 Copynumber: 6.0 Consensus size: 40
21713330 TGATAACCGA
* * *
21713340 GCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGG
* *
21713380 GCTAAGTCTCGAAGGCAATTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
21713420 GCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
21713460 GCTAAGTCCCGAAGGCATTGGTACGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
21713500 GCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
21713540 GCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
21713578 AGTTAAATCC
Statistics
Matches: 178, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 175 0.98
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:21722086 original size:28 final size:28
Alignment explanation
Indices: 21722042--21722099 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
21722032 TATTTCTATT
21722042 TTTCTTTTCTATAATTA-CTTTACTTTAA
1 TTTCTTTTCTATAATTAGCTTTA-TTTAA
* *
21722070 TTTCATTTT-TATTATTAGTTTTATTTAA
1 TTTC-TTTTCTATAATTAGCTTTATTTAA
21722098 TT
1 TT
21722100 ATTTCATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTCTTTTCTATAATTAGCTTTATTTAA
Found at i:21746531 original size:12 final size:12
Alignment explanation
Indices: 21746516--21746559 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
21746506 TTTATCTTTG
21746516 TATATTATTTAT
1 TATATTATTTAT
21746528 TATATTA-TTAT
1 TATATTATTTAT
*
21746539 ATATTATTATATAT
1 -TA-TATTATTTAT
21746553 TATATTA
1 TATATTA
21746560 CATACATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 4 0.14
12 14 0.50
13 7 0.25
14 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:21746538 original size:15 final size:17
Alignment explanation
Indices: 21746516--21746557 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
21746506 TTTATCTTTG
*
21746516 TATATTATTTATTA-TA
1 TATATTATATATTATTA
21746532 T-TATTATATATTATTA
1 TATATTATATATTATTA
21746548 TATATTATAT
1 TATATTATAT
21746558 TACATACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 11 0.48
16 4 0.17
17 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTATATATTATTA
Found at i:21746616 original size:21 final size:20
Alignment explanation
Indices: 21746592--21746635 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
21746582 TTATTTTATC
21746592 TATTATCTATCATA-TTGTTTA
1 TATTAT-TAT-ATATTTGTTTA
21746613 TATTATTATATATTTTGTTTA
1 TATTATTATATA-TTTGTTTA
21746634 TA
1 TA
21746636 AATTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 3 0.14
21 15 0.71
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TATTATTATATATTTGTTTA
Found at i:21746923 original size:16 final size:16
Alignment explanation
Indices: 21746899--21746941 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
21746889 AAATATTTTT
* *
21746899 ATTTTTATTTTATTTG
1 ATTTATATTTTATATG
21746915 ATTTATATTTTATATG
1 ATTTATATTTTATATG
21746931 -TTTATAATTTT
1 ATTTAT-ATTTT
21746942 CTTATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (16 bp):
ATTTATATTTTATATG
Found at i:21746957 original size:16 final size:17
Alignment explanation
Indices: 21746938--21746975 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
21746928 ATGTTTATAA
*
21746938 TTTTCTTATTTATT-TT
1 TTTTATTATTTATTATT
*
21746954 TTTTATTTTTTATTATT
1 TTTTATTATTTATTATT
21746971 TTTTA
1 TTTTA
21746976 GTAGGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATTATTTATTATT
Found at i:21750101 original size:47 final size:47
Alignment explanation
Indices: 21750038--21750372 Score: 522
Period size: 47 Copynumber: 7.3 Consensus size: 47
21750028 CCCTTCGGGA
* * *
21750038 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
21750085 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
21750132 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
21750179 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
21750226 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
21750272 -----C-CATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
21750313 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
21750360 CTTATCACATATA
1 CTTATCACATATA
21750373 CATATCTTGT
Statistics
Matches: 267, Mismatches: 14, Indels: 14
0.91 0.05 0.05
Matches are distributed among these distances:
40 39 0.15
41 1 0.00
46 1 0.00
47 226 0.85
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:21750188 original size:22 final size:22
Alignment explanation
Indices: 21750160--21750235 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
21750150 TTTCACATTC
21750160 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
21750182 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
21750206 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
21750229 ATCACAT
1 ATCACAT
21750236 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:21750284 original size:40 final size:40
Alignment explanation
Indices: 21750233--21750360 Score: 193
Period size: 40 Copynumber: 3.0 Consensus size: 40
21750223 GGCCTTATCA
21750233 CATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CATATATACACTTTCACATTCATCACATTGGCCATTAGGC
21750273 CATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTC
1 CATATATACACTTTCACATTCATCACATTGGCCATTA-G----G-C
21750319 ACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 -CATATATACACTTTCACATTCATCACATTGGCCATTAGGC
21750360 C
1 C
21750361 TTATCACATA
Statistics
Matches: 81, Mismatches: 0, Indels: 14
0.85 0.00 0.15
Matches are distributed among these distances:
40 38 0.47
41 2 0.02
42 1 0.01
45 1 0.01
46 2 0.02
47 37 0.46
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (40 bp):
CATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:21750305 original size:87 final size:87
Alignment explanation
Indices: 21750186--21750360 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
21750176 GGCCTTATCA
*
21750186 CATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACA
1 CATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACA
21750251 TTCATCACATTGGCCATTAGGC
66 TTCATCACATTGGCCATTAGGC
*
21750273 CATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATATATACACTTTCACA
1 CATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACA
21750338 TTCATCACATTGGCCATTAGGC
66 TTCATCACATTGGCCATTAGGC
21750360 C
1 C
21750361 TTATCACATA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (87 bp):
CATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACA
TTCATCACATTGGCCATTAGGC
Done.