Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 63 of 64
Found at i:12760533 original size:24 final size:24
Alignment explanation
Indices: 12760493--12760540 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
12760483 GGAAAATGTC
12760493 TTGGTGCCGTTATTACCACATTTG
1 TTGGTGCCGTTATTACCACATTTG
*
12760517 TTGGTGCC-TTATCTACCACCTTTG
1 TTGGTGCCGTTAT-TACCACATTTG
12760541 CTTTTGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.42
Consensus pattern (24 bp):
TTGGTGCCGTTATTACCACATTTG
Found at i:12762062 original size:24 final size:24
Alignment explanation
Indices: 12762035--12762108 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
12762025 GTTAGTTACG
* *
12762035 GAAGCTTGTGCTTTTTCAGCTGAT
1 GAAGCTTGTGCTTTTGCAGCGGAT
12762059 GAAGCTTGTGCTTTTGCAGCGGAT
1 GAAGCTTGTGCTTTTGCAGCGGAT
* * **
12762083 GATGCATGTGCTTTTATAGCGGAT
1 GAAGCTTGTGCTTTTGCAGCGGAT
12762107 GA
1 GA
12762109 GTCTCCTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (24 bp):
GAAGCTTGTGCTTTTGCAGCGGAT
Found at i:12765798 original size:15 final size:14
Alignment explanation
Indices: 12765773--12765807 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
12765763 AAATTAATGT
12765773 TAAATATAAAATAAAG
1 TAAA-ATAAAAT-AAG
12765789 TAAAATAAAATAAG
1 TAAAATAAAATAAG
12765803 TAAAA
1 TAAAA
12765808 AATATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 7 0.37
16 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (14 bp):
TAAAATAAAATAAG
Found at i:12766984 original size:14 final size:15
Alignment explanation
Indices: 12766967--12767019 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 15
12766957 ATGTTTAAGA
12766967 AAATAAAAT-TAAAT
1 AAATAAAATATAAAT
*
12766981 AAAT-AAATAAAAAT
1 AAATAAAATATAAAT
*
12766995 AAATAATATATAATAT
1 AAATAAAATATAA-AT
12767011 ATAATAAAA
1 A-AATAAAA
12767020 ACAATATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 12 0.39
15 6 0.19
16 3 0.10
17 6 0.19
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAAAATATAAAT
Found at i:12767007 original size:21 final size:20
Alignment explanation
Indices: 12766968--12767009 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
12766958 TGTTTAAGAA
*
12766968 AATAAAATTAAATAA-ATA-
1 AATAAAAATAAATAATATAT
12766986 AATAAAAATAAATAATATAT
1 AATAAAAATAAATAATATAT
12767006 AATA
1 AATA
12767010 TATAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 3 0.14
20 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAAATAAATAATATAT
Found at i:12767016 original size:21 final size:20
Alignment explanation
Indices: 12766976--12767033 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
12766966 AAAATAAAAT
*
12766976 TAAATAAATA-AATA-AAAA
1 TAAATAAATATAATATATAA
12766994 TAAATAATATATAATATATAA
1 TAAATAA-ATATAATATATAA
*
12767015 TAAAAACAATATAATATAT
1 TAAATA-AATATAATATAT
12767034 GTTTTCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 7 0.21
19 3 0.09
20 4 0.12
21 19 0.56
22 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAATAAATATAATATATAA
Found at i:12767028 original size:28 final size:25
Alignment explanation
Indices: 12766979--12767033 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
12766969 ATAAAATTAA
*
12766979 ATAAATAAATAAAAATAAATAATAT
1 ATAAATAAATAAAAACAAATAATAT
12767004 ATAATATATAATAAAAACAATATAATAT
1 ATAA-ATA-AATAAAAACAA-ATAATAT
12767032 AT
1 AT
12767034 GTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 3 0.12
27 10 0.38
28 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
ATAAATAAATAAAAACAAATAATAT
Found at i:12767054 original size:14 final size:14
Alignment explanation
Indices: 12767035--12767064 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12767025 ATAATATATG
12767035 TTTTCAAAAACATA
1 TTTTCAAAAACATA
*
12767049 TTTTCAAAATCATA
1 TTTTCAAAAACATA
12767063 TT
1 TT
12767065 ATATATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTTCAAAAACATA
Found at i:12767075 original size:35 final size:37
Alignment explanation
Indices: 12767015--12767118 Score: 115
Period size: 38 Copynumber: 2.8 Consensus size: 37
12767005 TAATATATAA
* * *
12767015 TAAAAACAATATAATATATGTTTTCAAAAAC-ATATTT
1 TAAAAACTACATATTATATGTTTTCAAAAACGAT-TTT
* *
12767052 TCAAAA-T-CATATTATATATTTTCAAAAACCGATTTT
1 TAAAAACTACATATTATATGTTTTCAAAAA-CGATTTT
*
12767088 TAAAAACTATATATTATATGTTTTCAAAAAC
1 TAAAAACTACATATTATATGTTTTCAAAAAC
12767119 TACATTATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
35 18 0.33
36 9 0.16
37 9 0.16
38 19 0.35
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (37 bp):
TAAAAACTACATATTATATGTTTTCAAAAACGATTTT
Found at i:12775354 original size:61 final size:61
Alignment explanation
Indices: 12775279--12775395 Score: 225
Period size: 61 Copynumber: 1.9 Consensus size: 61
12775269 TATAATAGCC
12775279 GTGAATAACATTAAGAGAATAACTTCTTTTGACGTCAAAGAGAATATCACCGGAAAGAACA
1 GTGAATAACATTAAGAGAATAACTTCTTTTGACGTCAAAGAGAATATCACCGGAAAGAACA
*
12775340 GTGAATAACATTAAGAGAATAACTTCTTTTGATGTCAAAGAGAATATCACCGGAAA
1 GTGAATAACATTAAGAGAATAACTTCTTTTGACGTCAAAGAGAATATCACCGGAAA
12775396 CAAGCTCAGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.25
Consensus pattern (61 bp):
GTGAATAACATTAAGAGAATAACTTCTTTTGACGTCAAAGAGAATATCACCGGAAAGAACA
Found at i:12777165 original size:18 final size:18
Alignment explanation
Indices: 12777138--12777172 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12777128 CCAATAGGAA
12777138 AATAACCAAAATAATAAT
1 AATAACCAAAATAATAAT
* *
12777156 AATAATCAAAATGATAA
1 AATAACCAAAATAATAA
12777173 AAAGAAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAACCAAAATAATAAT
Found at i:12777466 original size:3 final size:3
Alignment explanation
Indices: 12777460--12777502 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
12777450 GAAATGAAAG
12777460 GAA GAA GAA GAA -AA GAA GAA GAA GAA -AA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
12777503 TCATTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12777477 original size:14 final size:14
Alignment explanation
Indices: 12777444--12777499 Score: 87
Period size: 14 Copynumber: 4.1 Consensus size: 14
12777434 TTATCAGGAG
*
12777444 AAAGAAGAA-ATGA
1 AAAGAAGAAGAAGA
*
12777457 AAGGAAGAAGAAGA
1 AAAGAAGAAGAAGA
12777471 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
12777485 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
12777499 A
1 A
12777500 GAATCATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
13 8 0.21
14 31 0.79
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (14 bp):
AAAGAAGAAGAAGA
Found at i:12778123 original size:2 final size:2
Alignment explanation
Indices: 12778116--12778164 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
12778106 TGAATTAAGG
12778116 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12778157 AT AT AT AT
1 AT AT AT AT
12778165 GAAGCAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12780280 original size:3 final size:3
Alignment explanation
Indices: 12780272--12780300 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12780262 ATATATACTA
12780272 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12780301 CTAATATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:12781843 original size:68 final size:64
Alignment explanation
Indices: 12781766--12781908 Score: 232
Period size: 68 Copynumber: 2.2 Consensus size: 64
12781756 AAATGCATAC
12781766 AATTTTTGTATTAGAATGTCATGGTAATTTTCACGAGTTAAATAATCATTTATTTTATTTTATTA
1 AATTTTTGTATTAGAATGTCATGGTAATTTTCACGAGTTAAATAATCATTTATTTTA-TTTA--A
12781831 TAT
63 T-T
* *
12781834 AATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTAATT
1 AATTTTTGTATTAGAATGTCATGGTAATTTTCACGAGTTAAATAATCATTTATTTTATTTAATT
12781898 AATTTTTGTAT
1 AATTTTTGTAT
12781909 GCTATCTTCA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
64 12 0.16
65 2 0.03
67 4 0.05
68 55 0.75
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.52
Consensus pattern (64 bp):
AATTTTTGTATTAGAATGTCATGGTAATTTTCACGAGTTAAATAATCATTTATTTTATTTAATT
Found at i:12793547 original size:24 final size:24
Alignment explanation
Indices: 12793520--12793602 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 24
12793510 TATGCTTGAA
* *
12793520 GAAAAAAGGAACAAA-TAAAAAGAT
1 GAAAAAAGGAA-AAAGAAAAAAAAT
*
12793544 GAAAAAATGAAAAAGAAAAAAAAT
1 GAAAAAAGGAAAAAGAAAAAAAAT
* *
12793568 GAAAAAAAG-AAATG--AAAAAAT
1 GAAAAAAGGAAAAAGAAAAAAAAT
*
12793589 GAAAAGA-GAAAAAG
1 GAAAAAAGGAAAAAG
12793603 GAGGGTTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 17 0.34
23 7 0.14
24 25 0.50
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.07
Consensus pattern (24 bp):
GAAAAAAGGAAAAAGAAAAAAAAT
Found at i:12793553 original size:8 final size:8
Alignment explanation
Indices: 12793520--12793593 Score: 59
Period size: 8 Copynumber: 9.6 Consensus size: 8
12793510 TATGCTTGAA
*
12793520 GAAAAAAG
1 GAAAAAAT
*
12793528 GAACAAAT
1 GAAAAAAT
12793536 -AAAAAGAT
1 GAAAAA-AT
12793544 GAAAAAAT
1 GAAAAAAT
12793552 GAAAAAGA-
1 GAAAAA-AT
*
12793560 AAAAAAAT
1 GAAAAAAT
12793568 G-AAAAA-
1 GAAAAAAT
*
12793574 -AAGAAAT
1 GAAAAAAT
12793581 GAAAAAAT
1 GAAAAAAT
12793589 GAAAA
1 GAAAA
12793594 GAGAAAAAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
6 4 0.08
7 10 0.19
8 32 0.62
9 6 0.12
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.08
Consensus pattern (8 bp):
GAAAAAAT
Found at i:12793574 original size:12 final size:13
Alignment explanation
Indices: 12793542--12793602 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
12793532 AAATAAAAAG
*
12793542 ATGAAAAAATGAA
1 ATGAAAAAAAGAA
12793555 A--AAGAAAAA-AA
1 ATGAA-AAAAAGAA
12793566 ATGAAAAAAAGAA
1 ATGAAAAAAAGAA
*
12793579 ATGAAAAAATGAA
1 ATGAAAAAAAGAA
* *
12793592 AAGAGAAAAAG
1 ATGAAAAAAAG
12793603 GAGGGTTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
11 5 0.13
12 9 0.23
13 25 0.64
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
ATGAAAAAAAGAA
Found at i:12796128 original size:2 final size:2
Alignment explanation
Indices: 12796068--12796109 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12796058 GCTTAGTTGG
12796068 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12796110 TTAATTATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12796532 original size:68 final size:68
Alignment explanation
Indices: 12796455--12796591 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
12796445 AAATAAATGC
* *
12796455 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTATTTTATTTA
1 ATATAATTTTTGTATTAGAATATCATGGTAATTTTCATGAGTTAAATAATCATTTATTTTAATTA
12796520 ATT
66 ATT
*
12796523 ATATAATTTTTGTATTAGAATATCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTAATTA
1 ATATAATTTTTGTATTAGAATATCATGGTAATTTTCATGAGTTAAATAATCATTTATTTTAATTA
12796588 ATT
66 ATT
12796591 A
1 A
12796592 ATTTTTGTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.50
Consensus pattern (68 bp):
ATATAATTTTTGTATTAGAATATCATGGTAATTTTCATGAGTTAAATAATCATTTATTTTAATTA
ATT
Found at i:12797318 original size:61 final size:59
Alignment explanation
Indices: 12797218--12797337 Score: 177
Period size: 61 Copynumber: 2.0 Consensus size: 59
12797208 AGGGTAACTT
* * * *
12797218 TTTCCATCTCTTTTTCTTTACTTGGTTTCTGCGATAACCCACGAAGCTATAGCAGACCA
1 TTTCCATCTCTTTTTCTTTACTTGGTTTCTGCAAGAACCCACGAAGCTACAACAGACCA
*
12797277 TTTCCATCTCTTTTTTTCTTTACTTGGTTTCTTCAAGAACCCACGAAGCTACAACAGACCA
1 TTTCCATCTC--TTTTTCTTTACTTGGTTTCTGCAAGAACCCACGAAGCTACAACAGACCA
12797338 CCGTTCAACG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 10 0.19
61 44 0.81
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.38
Consensus pattern (59 bp):
TTTCCATCTCTTTTTCTTTACTTGGTTTCTGCAAGAACCCACGAAGCTACAACAGACCA
Found at i:12801182 original size:43 final size:42
Alignment explanation
Indices: 12801070--12801187 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
12801060 GGGAAACGCT
* * **
12801070 GCTAAATGACCATCCTATTGCAGCGTTTGTGCCCGAAACACC
1 GCTAAATGACCAACCTATTGTAGCGTTTGTGCCAAAAACACC
* * * * * *
12801112 GTTAAAT-ATCAA-ATCTGGTGAGACGTTTGTGACTAAAAACACC
1 GCTAAATGACCAACCTATTGT-AG-CGTTTGTG-CCAAAAACACC
12801155 GCTAAATGACCAACCTATTGTAGCGTTTGTGCC
1 GCTAAATGACCAACCTATTGTAGCGTTTGTGCC
12801188 CAAAGCGCCA
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
40 3 0.05
41 5 0.09
42 15 0.27
43 22 0.40
44 6 0.11
45 4 0.07
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
GCTAAATGACCAACCTATTGTAGCGTTTGTGCCAAAAACACC
Found at i:12801203 original size:85 final size:85
Alignment explanation
Indices: 12801070--12801236 Score: 230
Period size: 85 Copynumber: 2.0 Consensus size: 85
12801060 GGGAAACGCT
* ** *
12801070 GCTAAATGACCATCCTATTGCAGCGTTTGTGCCCGAAACACCGTTAAATATCAAATCTGGTG-AG
1 GCTAAATGACCAACCTATTGCAGCGTTTGTGCCCGAAACACCACTAAATACCAAATCTGGTGCA-
*
12801134 ACGTTTGTGACTAAAAACACC
65 ACATTTGTGACTAAAAACACC
* * *
12801155 GCTAAATGACCAACCTATTGTAGCGTTTGTGCCC-AAAGCGCCACTAAATACCAAATCTGTTGCA
1 GCTAAATGACCAACCTATTGCAGCGTTTGTGCCCGAAA-CACCACTAAATACCAAATCTGGTGCA
12801219 ACATTTGTGACTAAAAAC
65 ACATTTGTGACTAAAAAC
12801237 GCCACTTGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
84 3 0.04
85 68 0.94
86 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (85 bp):
GCTAAATGACCAACCTATTGCAGCGTTTGTGCCCGAAACACCACTAAATACCAAATCTGGTGCAA
CATTTGTGACTAAAAACACC
Found at i:12802279 original size:21 final size:21
Alignment explanation
Indices: 12802255--12802314 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 21
12802245 AACTTTGAAA
12802255 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
12802276 AAAT-GTTTT-----TTT-G-
1 AAATGGTTTTCAAAGTTTGGT
12802289 AGAATGGTTTTCAAAGTTTGGT
1 A-AATGGTTTTCAAAGTTTGGT
12802311 AAAT
1 AAAT
12802315 ATTTCTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 18
0.62 0.00 0.38
Matches are distributed among these distances:
13 1 0.03
14 4 0.13
15 8 0.27
20 8 0.27
21 8 0.27
22 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:12802346 original size:37 final size:36
Alignment explanation
Indices: 12802247--12802365 Score: 161
Period size: 35 Copynumber: 3.3 Consensus size: 36
12802237 TGGCAACCAA
12802247 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
12802284 TTTTG-AGAATGGTTTTCAAAGTTTGGTAAATATTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
12802319 CTTTGAAAAATGGTTTTTCAAAGTTTGGTATATGTTT
1 CTTTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
*
12802356 -GTTGAAAAAT
1 CTTTGAAAAAT
12802366 TGTAATGGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
35 32 0.44
36 15 0.21
37 25 0.35
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:12802793 original size:16 final size:17
Alignment explanation
Indices: 12802772--12802805 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
12802762 ACTATTCACA
12802772 TGAATAGTG-AATTTTG
1 TGAATAGTGAAATTTTG
12802788 TGAATAGTGAAATTTTG
1 TGAATAGTGAAATTTTG
12802805 T
1 T
12802806 CGACGATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (17 bp):
TGAATAGTGAAATTTTG
Found at i:12806882 original size:35 final size:36
Alignment explanation
Indices: 12806836--12806936 Score: 152
Period size: 35 Copynumber: 2.8 Consensus size: 36
12806826 TTGTTAAAAG
12806836 TTCAAAGTTTGGTAAATGTTTCTTTGAAAATGG-TT
1 TTCAAAGTTTGGTAAATGTTTCTTTGAAAATGGTTT
*
12806871 TTCAAAGTTTGGTAAACGTTTCTTTGGAAAATGGTTT
1 TTCAAAGTTTGGTAAATGTTTCTTT-GAAAATGGTTT
* *
12806908 TTCAAAGTTTGGTAGATGTTT-GTTGAAAA
1 TTCAAAGTTTGGTAAATGTTTCTTTGAAAA
12806937 ATTGTAATAG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 29 0.48
36 10 0.17
37 21 0.35
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.44
Consensus pattern (36 bp):
TTCAAAGTTTGGTAAATGTTTCTTTGAAAATGGTTT
Found at i:12810624 original size:23 final size:23
Alignment explanation
Indices: 12810598--12810658 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
12810588 CTCGTATAAA
*
12810598 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
12810621 TGCACCGAAGTGCCGCGTATAAT
1 TGCACCGAAGTGCCACGTAGAAT
12810644 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
12810659 TATAAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:12815936 original size:23 final size:23
Alignment explanation
Indices: 12815910--12815955 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12815900 CACCACAGCT
* *
12815910 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATACACCGAAGTGCCA
*
12815933 CGTAGAATTACACCGAAGTGCCA
1 CGTAGAAATACACCGAAGTGCCA
12815956 TATAAAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCA
Found at i:12818998 original size:17 final size:18
Alignment explanation
Indices: 12818972--12819006 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12818962 AGAAAATAAT
12818972 TAAGTGACCC-AAAAATA
1 TAAGTGACCCTAAAAATA
*
12818989 TAAGTTACCCTAAAAATA
1 TAAGTGACCCTAAAAATA
12819007 ATTATATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (18 bp):
TAAGTGACCCTAAAAATA
Found at i:12819487 original size:2 final size:2
Alignment explanation
Indices: 12819480--12819577 Score: 189
Period size: 2 Copynumber: 49.5 Consensus size: 2
12819470 ACTGGAGTAT
12819480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12819521 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12819563 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
12819578 GAGTTAGGAT
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 94 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12820060 original size:19 final size:21
Alignment explanation
Indices: 12820028--12820066 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12820018 ACATGTCATG
12820028 TTTATTTATTTTTT-AAAATT
1 TTTATTTATTTTTTCAAAATT
12820048 TTTATTT-TTTTTTCAAAAT
1 TTTATTTATTTTTTCAAAAT
12820067 AACCTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATTTATTTTTTCAAAATT
Found at i:12821056 original size:227 final size:227
Alignment explanation
Indices: 12820654--12821074 Score: 544
Period size: 227 Copynumber: 1.9 Consensus size: 227
12820644 ACATAACGTA
* * * * *
12820654 AAACTTTTTAGTTTTACACAGATTTAGGATCTTTGGATGAGTAAAAATAGATGGCTGAGATTAAC
1 AAACTTTTTAGTTTAACACAGACTTAGGATCTTTGGATGAGTAAAAATAGATGACTGAAAGTAAC
* * * * * *
12820719 TCCTTGTTTTTTTCCAATGAATGTCTTTTCATTTCTTACTATTAATGTCAGCCATCTATTTTCAC
66 TACTTGTTTTTTTCCAATGAATATATTCTCATTTCTTACTATTAATCTCAACCATCTATTTTCAC
* * * * *
12820784 TCATCCAATGGTCCTAAATTTGTGTAAAACCAAAATAGTTTTACATTG-TAACATGATCCTATCC
131 TCATCCAATGGTCCTAAATCTATGTAAAACAAAAATAATTTTACATTGATAACAAGATCCTATCC
12820848 TATATAGGGTTATGATCCACTTACACGACATT
196 TATATAGGGTTATGATCCACTTACACGACATT
* * *
12820880 AAACTTTTTAGTTTAACACAGACTTAGGA-CTGTTGGATGAGTGAAAATATATGATTGAAAGTAA
1 AAACTTTTTAGTTTAACACAGACTTAGGATCT-TTGGATGAGTAAAAATAGATGACTGAAAGTAA
* * * *
12820944 CTACTTGTTTTTTTTTCATTGAATATATTCTCATTTAC-TACTGTTAATCTCAACTATCTATTTT
65 CTACTTG-TTTTTTTCCAATGAATATATTCTCATTT-CTTACTATTAATCTCAACCATCTATTTT
* *
12821008 CACTCATCCAACT-GTCGTAAATCTATGTAAAATAAAAATAATTTTACATTGTATAACAAGATCC
128 CACTCATCCAA-TGGTCCTAAATCTATGTAAAACAAAAATAATTTTACATTG-ATAACAAGATCC
12821072 TAT
191 TAT
12821075 TCAGATTAAC
Statistics
Matches: 164, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
225 2 0.01
226 59 0.36
227 88 0.54
228 2 0.01
229 13 0.08
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (227 bp):
AAACTTTTTAGTTTAACACAGACTTAGGATCTTTGGATGAGTAAAAATAGATGACTGAAAGTAAC
TACTTGTTTTTTTCCAATGAATATATTCTCATTTCTTACTATTAATCTCAACCATCTATTTTCAC
TCATCCAATGGTCCTAAATCTATGTAAAACAAAAATAATTTTACATTGATAACAAGATCCTATCC
TATATAGGGTTATGATCCACTTACACGACATT
Found at i:12825465 original size:4 final size:4
Alignment explanation
Indices: 12825458--12828576 Score: 5889
Period size: 4 Copynumber: 791.2 Consensus size: 4
12825448 ACATATAATA
12825458 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825506 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825554 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825602 TATG TA-- TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825648 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825696 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825744 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825792 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
12825839 TATG TATG TATG TATG TATG TCTG TATG TATG TATG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825885 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825931 TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12825978 TATG TATG TATG TATG TATG TA-- TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826024 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826072 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826120 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826168 TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
12826215 TATG TCT- TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826262 TATG --TG TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826307 --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826353 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826400 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826448 TATG T-TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826495 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826543 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826591 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826639 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826687 TATG TATG TATG TATG TA-- TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826733 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826781 TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826828 --TG TATG TATG TATG TATG TATG TATG TA-G TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826872 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826920 TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12826966 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827014 TATG TATG TA-G TATG TATG TATG TATG T-TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827060 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827108 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827156 TA-G TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827202 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827250 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827298 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827346 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827394 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827442 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827490 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827538 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827586 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827634 TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827680 TATG TATG TATG TATG TATG TATG TA-G T-TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827726 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827774 TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827821 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827869 TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827915 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12827963 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828011 TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828058 TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828105 TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828152 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
12828200 TATG TATG TCTG TATG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828247 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828295 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828341 TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828388 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828436 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828484 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12828532 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
12828577 GTTTTAACAT
Statistics
Matches: 3063, Mismatches: 6, Indels: 92
0.97 0.00 0.03
Matches are distributed among these distances:
2 24 0.01
3 63 0.02
4 2976 0.97
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:12829095 original size:56 final size:57
Alignment explanation
Indices: 12829006--12829114 Score: 175
Period size: 56 Copynumber: 1.9 Consensus size: 57
12828996 GAGATCTAAG
* *
12829006 TTTAAAATCAGATAAAAAAAAGTTTGTGTCGATTACATGTGGGGAAGGTTAAATAAA
1 TTTAAAATCAGATAAAAAAAAGTTTGTGCCGATTACATGTAGGGAAGGTTAAATAAA
* *
12829063 TTTAAAATCATAT-AAAAAAAGTTTGTGCCGATTACGTGTAGGGAAGGTTAAA
1 TTTAAAATCAGATAAAAAAAAGTTTGTGCCGATTACATGTAGGGAAGGTTAAA
12829115 GCACTCCCAC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
56 36 0.75
57 12 0.25
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (57 bp):
TTTAAAATCAGATAAAAAAAAGTTTGTGCCGATTACATGTAGGGAAGGTTAAATAAA
Found at i:12829945 original size:19 final size:15
Alignment explanation
Indices: 12829892--12829936 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
12829882 TCAATTCAAT
*
12829892 TTTTTAACGTCA--A
1 TTTTTAACATCATTA
12829905 TTTTTAACATCATTA
1 TTTTTAACATCATTA
12829920 TTTTTAAGCATCATTA
1 TTTTTAA-CATCATTA
12829936 T
1 T
12829937 CATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.39
15 8 0.29
16 9 0.32
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.51
Consensus pattern (15 bp):
TTTTTAACATCATTA
Found at i:12832072 original size:19 final size:18
Alignment explanation
Indices: 12832035--12832073 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
12832025 GGTTTTCAAT
*
12832035 TAATAGAATTTAGCATGA
1 TAATAGAAATTAGCATGA
*
12832053 TAATATGAAATTATCATGA
1 TAATA-GAAATTAGCATGA
12832072 TA
1 TA
12832074 GATCCACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (18 bp):
TAATAGAAATTAGCATGA
Found at i:12835108 original size:17 final size:17
Alignment explanation
Indices: 12835086--12835130 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
12835076 TGTCAGTTAC
* *
12835086 GAGTATGTATCCAACAT
1 GAGTATATATCCAACAA
*
12835103 GAGTATATGTCCAACAA
1 GAGTATATATCCAACAA
12835120 GAGT-TATATCC
1 GAGTATATATCC
12835131 CATACCGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (17 bp):
GAGTATATATCCAACAA
Found at i:12837778 original size:3 final size:3
Alignment explanation
Indices: 12837770--12837823 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
12837760 TTGTCCATAA
*
12837770 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12837818 A-T ATT A
1 ATT ATT A
12837824 ACAATTTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:12839558 original size:15 final size:15
Alignment explanation
Indices: 12839534--12839574 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
12839524 ACCTCCATGT
*
12839534 TGGTATTGATACCCA
1 TGGTACTGATACCCA
12839549 TGGTACTGATACCCA
1 TGGTACTGATACCCA
*
12839564 TGGTACCGATA
1 TGGTACTGATA
12839575 TTACCCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (15 bp):
TGGTACTGATACCCA
Found at i:12842850 original size:31 final size:31
Alignment explanation
Indices: 12842814--12842883 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
12842804 TTAATGGCTG
* *
12842814 AGGGACTAAAATCAAATGGATCGATAACATT
1 AGGGACTAAAATCAAACGGATCAATAACATT
* *
12842845 AGGGACTAAAATTAAACGGATCAATAACGTT
1 AGGGACTAAAATCAAACGGATCAATAACATT
*
12842876 AGAGACTA
1 AGGGACTA
12842884 TTTCCCCTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (31 bp):
AGGGACTAAAATCAAACGGATCAATAACATT
Found at i:12844948 original size:23 final size:23
Alignment explanation
Indices: 12844918--12844993 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
12844908 GTTCGAATTT
12844918 GAGTTTGAACTTTAATCAAGCTC
1 GAGTTTGAACTTTAATCAAGCTC
12844941 GAGTTTGAACTTTAATCAAGCTC
1 GAGTTTGAACTTTAATCAAGCTC
* *
12844964 GAGTTTGAGCTTCAATCAAGCT-
1 GAGTTTGAACTTTAATCAAGCTC
*
12844986 AAGTTTGA
1 GAGTTTGA
12844994 GAAAGTTTCG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
22 7 0.14
23 43 0.86
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (23 bp):
GAGTTTGAACTTTAATCAAGCTC
Found at i:12845926 original size:28 final size:29
Alignment explanation
Indices: 12845881--12845942 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
12845871 AGACTTTGGG
*
12845881 TTTAACTTAGGGTCTAAATTGATATTTT-
1 TTTAACTTAGGGTCTAAAATGATATTTTA
* *
12845909 TTTAATTTAGGGGT-TAAAATGATGTTTTA
1 TTTAACTTA-GGGTCTAAAATGATATTTTA
12845938 TTTAA
1 TTTAA
12845943 ATTTTAGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (29 bp):
TTTAACTTAGGGTCTAAAATGATATTTTA
Found at i:12845967 original size:30 final size:31
Alignment explanation
Indices: 12845933--12845990 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
12845923 TAAAATGATG
* *
12845933 TTTTATTTAAATTTTAG-AGTTAAATTAGTA
1 TTTTATCTAAAGTTTAGCAGTTAAATTAGTA
*
12845963 TTTTATCTAAAGTTTAGCGGTTAAATTA
1 TTTTATCTAAAGTTTAGCAGTTAAATTA
12845991 AAAATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (31 bp):
TTTTATCTAAAGTTTAGCAGTTAAATTAGTA
Found at i:12851160 original size:59 final size:60
Alignment explanation
Indices: 12851095--12851207 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 60
12851085 GAAATCTCTG
* *
12851095 ACTATAAAATATTGCTTTATTGAGTATC-CGACTATTAAAAGTTACAAAATGATTCATCA
1 ACTATAAAATATTGCTTTATTGAGTATCTCGACAATTAAAAATTACAAAATGATTCATCA
* * * * *
12851154 ACTATAATATGTTTCTTTGTTGAGTCTCTCGACAATTAAAAATTACAAAATGAT
1 ACTATAAAATATTGCTTTATTGAGTATCTCGACAATTAAAAATTACAAAATGAT
12851208 CACTCGACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 23 0.50
60 23 0.50
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (60 bp):
ACTATAAAATATTGCTTTATTGAGTATCTCGACAATTAAAAATTACAAAATGATTCATCA
Found at i:12851218 original size:60 final size:59
Alignment explanation
Indices: 12851094--12851218 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 59
12851084 GGAAATCTCT
* *
12851094 GACTATAAAATATTGCTTTATTGAGTATCCGACTATTAAAAGTTACAAAATGATTCATC
1 GACTATAAAATATTGCTTTATTGAGTATCCGACAATTAAAAATTACAAAATGATTCATC
* * * * * *
12851153 AACTATAATATGTTTCTTTGTTGAGTCTCTCGACAATTAAAAATTACAAAATGA-TCACTC
1 GACTATAAAATATTGCTTTATTGAGTATC-CGACAATTAAAAATTACAAAATGATTCA-TC
12851213 GACTAT
1 GACTAT
12851219 TTATTATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
59 26 0.47
60 29 0.53
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (59 bp):
GACTATAAAATATTGCTTTATTGAGTATCCGACAATTAAAAATTACAAAATGATTCATC
Found at i:12852981 original size:10 final size:10
Alignment explanation
Indices: 12852965--12853174 Score: 206
Period size: 10 Copynumber: 20.7 Consensus size: 10
12852955 ATTTTTGTGC
*
12852965 TATATATATA
1 TATATACATA
* *
12852975 CATATATATA
1 TATATACATA
12852985 TATATACATA
1 TATATACATA
*
12852995 TACATACATA
1 TATATACATA
12853005 TACATATACATA
1 T--ATATACATA
*
12853017 CATATACATA
1 TATATACATA
*
12853027 TACATACATA
1 TATATACATA
*
12853037 TACATACATA
1 TATATACATA
*
12853047 TACATACATA
1 TATATACATA
*
12853057 TATACACATA
1 TATATACATA
12853067 TATACATACATA
1 TAT--ATACATA
*
12853079 TATACACATA
1 TATATACATA
* *
12853089 TATACATATA
1 TATATACATA
*
12853099 TATATACACA
1 TATATACATA
*
12853109 TATATATATA
1 TATATACATA
12853119 TATATA-ATA
1 TATATACATA
*
12853128 TATATATATA
1 TATATACATA
* *
12853138 TACATATATA
1 TATATACATA
*
12853148 TATATATATA
1 TATATACATA
*
12853158 TATATATATA
1 TATATACATA
12853168 TATATAC
1 TATATAC
12853175 TGGGTCGGAG
Statistics
Matches: 174, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
9 9 0.05
10 148 0.85
12 17 0.10
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (10 bp):
TATATACATA
Found at i:12852995 original size:22 final size:22
Alignment explanation
Indices: 12852965--12853171 Score: 220
Period size: 22 Copynumber: 9.5 Consensus size: 22
12852955 ATTTTTGTGC
12852965 TATATATATACATATATATATA
1 TATATATATACATATATATATA
* *
12852987 TATACATATAC--ATACATATA
1 TATATATATACATATATATATA
* * *
12853007 CATATACATACATATACATATA
1 TATATATATACATATATATATA
* * * *
12853029 CATACATATACATACATATACA
1 TATATATATACATATATATATA
* * *
12853051 TACATATATACACATATATACA
1 TATATATATACATATATATATA
* * *
12853073 TACATATATACACATATATACA
1 TATATATATACATATATATATA
*
12853095 TATATATATACACATATATATA
1 TATATATATACATATATATATA
*
12853117 TATATATAATATATATATATATA
1 TATATAT-ATACATATATATATA
* *
12853140 CATATATATATATATATATATA
1 TATATATATACATATATATATA
12853162 TATATATATA
1 TATATATATA
12853172 TACTGGGTCG
Statistics
Matches: 161, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.10
22 126 0.78
23 19 0.12
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
TATATATATACATATATATATA
Found at i:12853170 original size:6 final size:6
Alignment explanation
Indices: 12852965--12853173 Score: 195
Period size: 6 Copynumber: 35.0 Consensus size: 6
12852955 ATTTTTGTGC
* * * * *
12852965 TATATA TATACA TATATA TATATA TACATA TACATA CATATA CATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
12853013 CATACA TATACA TATACA TACATA TACATA CATATA CATACA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
12853061 CACATA TATACA TACATA TATACA CATATA TACATA TATATA TACACA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
12853109 TATATA TATATA TATA-A TATATA TATATA TACATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
12853156 TATATA TATATA TATATA
1 TATATA TATATA TATATA
12853174 CTGGGTCGGA
Statistics
Matches: 168, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
5 5 0.03
6 163 0.97
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.38
Consensus pattern (6 bp):
TATATA
Found at i:12856928 original size:2 final size:2
Alignment explanation
Indices: 12856923--12856961 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
12856913 TGCACACACA
* *
12856923 CT CT CT CC CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
12856962 ACACACACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:12857285 original size:212 final size:219
Alignment explanation
Indices: 12856911--12857342 Score: 806
Period size: 212 Copynumber: 2.0 Consensus size: 219
12856901 GATTATTATA
12856911 CATGCACACACACTCTCTCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCACACACACACACAC
1 CATGCACACACACTCTCTCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCT-ACACACACACACAC
12856976 ACACATAAACACACACGTATATAAATACACATATTGCACCTTAGTCAACTCAGACTAACACATTT
65 ACACATAAACACACACGTATATAAATACACATATTGCACCTTAGTCAACTCAGACTAACACATTT
12857041 TTTGTGCCTTACGCCTCAAGCAAGCAGTATAAGTACTCTAGGGCTTCAACTGCACCTTTCCATTC
130 TTTGTGCCTTACGCCTCAAGCAAGCAGTATAAGTACTCTAGGGCTTCAACTGCACCTTTCCATTC
12857106 TTGACAA-ACTGGTTTGAACTTTTC
195 TTGACAACACTGGTTTGAACTTTTC
12857130 CATGCACACACACTCTCTCCCT-CC-CTC-C-CTCTC-CTCTCTCTCTCT-CACACACACACACA
1 CATGCACACACACTCTCTCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTACACACACACACACA
12857189 CACATAAACACACACGTATATAAATACACATATTGCACCTTAGTCAACTCAGACTAACACATTTT
66 CACATAAACACACACGTATATAAATACACATATTGCACCTTAGTCAACTCAGACTAACACATTTT
12857254 TTGTGCCTTACGCCTCAAGCAAGCAGTATAAGTACTCTAGGGCTTCAACTGCACCTTTCCATTCT
131 TTGTGCCTTACGCCTCAAGCAAGCAGTATAAGTACTCTAGGGCTTCAACTGCACCTTTCCATTCT
12857319 TGACAACACTGGTTTGAACTTTTC
196 TGACAACACTGGTTTGAACTTTTC
12857343 TTCGTTCAGT
Statistics
Matches: 212, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
212 150 0.71
213 17 0.08
214 12 0.06
215 5 0.02
216 1 0.00
217 3 0.01
218 2 0.01
219 22 0.10
ACGTcount: A:0.28, C:0.34, G:0.09, T:0.29
Consensus pattern (219 bp):
CATGCACACACACTCTCTCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTACACACACACACACA
CACATAAACACACACGTATATAAATACACATATTGCACCTTAGTCAACTCAGACTAACACATTTT
TTGTGCCTTACGCCTCAAGCAAGCAGTATAAGTACTCTAGGGCTTCAACTGCACCTTTCCATTCT
TGACAACACTGGTTTGAACTTTTC
Found at i:12861364 original size:16 final size:16
Alignment explanation
Indices: 12861343--12861374 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12861333 TAATTATTAC
12861343 TATTAATTTACTAATA
1 TATTAATTTACTAATA
*
12861359 TATTAATTTTCTAATA
1 TATTAATTTACTAATA
12861375 AACAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAATTTACTAATA
Found at i:12861666 original size:21 final size:21
Alignment explanation
Indices: 12861626--12861664 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12861616 CCTTTTGTCC
*
12861626 TTTGACTGTAATTCAATTTCT
1 TTTGACCGTAATTCAATTTCT
12861647 TTTGACCGTAATT-AATTT
1 TTTGACCGTAATTCAATTT
12861665 TCCAACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (21 bp):
TTTGACCGTAATTCAATTTCT
Found at i:12865365 original size:117 final size:122
Alignment explanation
Indices: 12865231--12865448 Score: 297
Period size: 123 Copynumber: 1.8 Consensus size: 122
12865221 AACAAAAATA
* * *
12865231 ATTTATATTTTTTTATTATTATGAATATCTAT-G-AAGAAT-TT-T-TACAA-TGTAA-ACATTT
1 ATTTACATCTTTTTATTATTATGAATAT-TATAGTAA-AATGTTATGTAAAATTGTAATACATTT
12865289 TTACATAAATTATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
64 TTACATAAATTATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
* * * *
12865348 ATTTACATCTTTTTATTATTATGAATATTTTAGTTAAATGTTGATGTAAAATTTTAATATATTTT
1 ATTTACATCTTTTTATTATTATGAATATTATAGTAAAATGTT-ATGTAAAATTGTAATACATTTT
12865413 TACATAAATTATGTAAAATTTAATATTAATTAAAAT
65 TACATAAATTATGTAAAATTTAATATTAATTAAAAT
12865449 TAAAATAATA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
116 2 0.02
117 30 0.35
118 3 0.03
120 1 0.01
121 4 0.05
122 4 0.05
123 42 0.49
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (122 bp):
ATTTACATCTTTTTATTATTATGAATATTATAGTAAAATGTTATGTAAAATTGTAATACATTTTT
ACATAAATTATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
Found at i:12866685 original size:64 final size:64
Alignment explanation
Indices: 12866610--12866738 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
12866600 GATATATCTT
12866610 CACCTTTTTTTCTCGGCCCTCAAGACAGACTTGGAGATTTTGTTACTCCAACATGTCTCAACGA
1 CACCTTTTTTTCTCGGCCCTCAAGACAGACTTGGAGATTTTGTTACTCCAACATGTCTCAACGA
12866674 CACCTTTTTTTCTCGGCCCTCAAGACAGACTTGGAGATTTTGTTACTCCAACATGTCTCAACGA
1 CACCTTTTTTTCTCGGCCCTCAAGACAGACTTGGAGATTTTGTTACTCCAACATGTCTCAACGA
12866738 C
1 C
12866739 GACAATTACG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (64 bp):
CACCTTTTTTTCTCGGCCCTCAAGACAGACTTGGAGATTTTGTTACTCCAACATGTCTCAACGA
Found at i:12873708 original size:18 final size:18
Alignment explanation
Indices: 12873685--12873733 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
12873675 CATTATCCTC
12873685 TGAGTCTGTTGGTTCTGT
1 TGAGTCTGTTGGTTCTGT
** *
12873703 TGAGTCTACTGGATCTGT
1 TGAGTCTGTTGGTTCTGT
* *
12873721 TAAGTCAGTTGGT
1 TGAGTCTGTTGGT
12873734 CCTCCAAATG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.12, G:0.31, T:0.43
Consensus pattern (18 bp):
TGAGTCTGTTGGTTCTGT
Found at i:12876299 original size:144 final size:144
Alignment explanation
Indices: 12876039--12876340 Score: 514
Period size: 144 Copynumber: 2.1 Consensus size: 144
12876029 GGAAATGAAA
*
12876039 TGAAATTTCATTTTAAAAGATTTTTAAGCATGTGAGAAAATAAAAGAAAGGAAAAAGAAAAGTTT
1 TGAAATTTCATTTTAAAAGATATTTAAGCATGTGAGAAAATAAAAGAAAGGAAAAAGAAAAGTTT
* * *
12876104 ATAAGCTTGCTCTTCTCTTCTTCCTCTCCACCGTGAAGCTCCATAGATAAGGTGAGTTATTTTAA
66 AGAAGCTTGCTCTTCTCTTCTTCCTCTCCACCGCGAAGCTCCATAGATAAGGTGAGATATTTTAA
12876169 AGTTGATTGTATCT
131 AGTTGATTGTATCT
*
12876183 TGAAATTTCATTTTAAAAGATATTTAAGCATGTGAGGAAATAAAAGAAAGGAAAAAGAAAAGTTT
1 TGAAATTTCATTTTAAAAGATATTTAAGCATGTGAGAAAATAAAAGAAAGGAAAAAGAAAAGTTT
* *
12876248 AGAAGCTTGCTCTTTTCTTCTTCCTCTCCACTGCGAAGCTCCATAGATAAGGTGAGATATTTTAA
66 AGAAGCTTGCTCTTCTCTTCTTCCTCTCCACCGCGAAGCTCCATAGATAAGGTGAGATATTTTAA
*
12876313 AGTTGATTTTATCT
131 AGTTGATTGTATCT
*
12876327 TGAAAGTTTGATTT
1 TGAAA-TTTCATTT
12876341 AGTTGTGATT
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
144 141 0.95
145 7 0.05
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (144 bp):
TGAAATTTCATTTTAAAAGATATTTAAGCATGTGAGAAAATAAAAGAAAGGAAAAAGAAAAGTTT
AGAAGCTTGCTCTTCTCTTCTTCCTCTCCACCGCGAAGCTCCATAGATAAGGTGAGATATTTTAA
AGTTGATTGTATCT
Found at i:12876837 original size:21 final size:20
Alignment explanation
Indices: 12876811--12876860 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
12876801 GGATAAACAA
12876811 TATCGATACTGAT-TGAAGTAG
1 TATCGATACTGATGTGAAG--G
* *
12876832 TATCGATGCTGATGTGGAGG
1 TATCGATACTGATGTGAAGG
12876852 TATCGATAC
1 TATCGATAC
12876861 CAAGAGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 12 0.48
22 4 0.16
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (20 bp):
TATCGATACTGATGTGAAGG
Found at i:12877605 original size:15 final size:15
Alignment explanation
Indices: 12877528--12877608 Score: 65
Period size: 15 Copynumber: 5.5 Consensus size: 15
12877518 TATGTTAAAG
*
12877528 GTGAATATGTTATAT
1 GTGAATATGTTCTAT
* * * *
12877543 ATGAAAATATTCTAC
1 GTGAATATGTTCTAT
*
12877558 GTGAAAATGTT-TAT
1 GTGAATATGTTCTAT
* * *
12877572 GTGACTATGTGCTAA
1 GTGAATATGTTCTAT
*
12877587 GTGAATGTGTTCTAT
1 GTGAATATGTTCTAT
12877602 GTGAATA
1 GTGAATA
12877609 AACAATACTT
Statistics
Matches: 48, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
14 10 0.21
15 38 0.79
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (15 bp):
GTGAATATGTTCTAT
Found at i:12877760 original size:24 final size:24
Alignment explanation
Indices: 12877707--12877786 Score: 119
Period size: 23 Copynumber: 3.4 Consensus size: 24
12877697 GTGTCGAGTG
12877707 TTCTACGTGGTCCTTCGGGAC-AA
1 TTCTACGTGGTCCTTCGGGACAAA
12877730 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
* *
12877754 TTCTACGTTGTCTTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
*
12877778 -TCTATGTGG
1 TTCTACGTGG
12877787 CACTTCAGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 28 0.54
24 24 0.46
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGACAAA
Found at i:12885129 original size:23 final size:23
Alignment explanation
Indices: 12885099--12885180 Score: 137
Period size: 23 Copynumber: 3.6 Consensus size: 23
12885089 ATTTTATATG
12885099 GCACTTCGGTGCAATTCTACGCA
1 GCACTTCGGTGCAATTCTACGCA
12885122 GCACTTCGGTGCAATTCTACGCA
1 GCACTTCGGTGCAATTCTACGCA
**
12885145 GCACTTCGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGCA
*
12885168 GCACTTTGGTGCA
1 GCACTTCGGTGCA
12885181 TTTATAAGAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGCA
Found at i:12890600 original size:23 final size:23
Alignment explanation
Indices: 12890570--12890652 Score: 112
Period size: 23 Copynumber: 3.6 Consensus size: 23
12890560 CATTTTATAT
12890570 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* *
12890593 GGCACTTCGATGCAATTCTATGC
1 GGCACTTCGGTGCAATTCTACGC
* * *
12890616 GGCACTTCAGTACAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
12890639 GGCACTTTGGTGCA
1 GGCACTTCGGTGCA
12890653 TTTATAAGAG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:12896616 original size:22 final size:23
Alignment explanation
Indices: 12896565--12896616 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
12896555 TCGAGGGTTC
**
12896565 TATGTGGTCCTTCGAGATAAATT
1 TATGTGGTCCTTCGAGATAAAAA
12896588 TATGTGGTCCTTC-AGGA-AAAAA
1 TATGTGGTCCTTCGA-GATAAAAA
12896610 TATGTGG
1 TATGTGG
12896617 CACTTTGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (23 bp):
TATGTGGTCCTTCGAGATAAAAA
Found at i:12897442 original size:23 final size:21
Alignment explanation
Indices: 12897392--12897513 Score: 103
Period size: 23 Copynumber: 5.7 Consensus size: 21
12897382 AGGGTGTCAA
12897392 AGTGCATCCATGCACC--CCTGT
1 AGTGCATCCATGCACCTGCC--T
12897413 AGTGCATCCATGCACCTGCCACT
1 AGTGCATCCATGCACCTG-C-CT
* *
12897436 AGTGCATCGATGTACCATG--T
1 AGTGCATCCATGCACC-TGCCT
12897456 AGTGCATCCATGCACCTGCCACT
1 AGTGCATCCATGCACCTG-C-CT
*
12897479 AGTGCATCGATGCACCATG--T
1 AGTGCATCCATGCACC-TGCCT
12897499 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
12897514 TCCATTTCGA
Statistics
Matches: 85, Mismatches: 6, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
19 2 0.02
20 30 0.35
21 16 0.19
23 31 0.36
24 5 0.06
25 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCACCTGCCT
Found at i:12897460 original size:20 final size:20
Alignment explanation
Indices: 12897392--12897513 Score: 95
Period size: 20 Copynumber: 5.8 Consensus size: 20
12897382 AGGGTGTCAA
* *
12897392 AGTGCATCCATGCACCCCTGT
1 AGTGCATCGATGCA-CCATGT
*
12897413 AGTGCATCCATGCACC-TGCCACT
1 AGTGCATCGATGCACCATG----T
*
12897436 AGTGCATCGATGTACCATGT
1 AGTGCATCGATGCACCATGT
*
12897456 AGTGCATCCATGCACC-TGCCACT
1 AGTGCATCGATGCACCATG----T
12897479 AGTGCATCGATGCACCATGT
1 AGTGCATCGATGCACCATGT
*
12897499 AGTGCATCCATGCAC
1 AGTGCATCGATGCAC
12897514 TCCATTTCGA
Statistics
Matches: 85, Mismatches: 6, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
19 4 0.05
20 32 0.38
21 14 0.16
23 31 0.36
24 4 0.05
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (20 bp):
AGTGCATCGATGCACCATGT
Found at i:12897460 original size:43 final size:43
Alignment explanation
Indices: 12897392--12897513 Score: 208
Period size: 43 Copynumber: 2.8 Consensus size: 43
12897382 AGGGTGTCAA
* *
12897392 AGTGCATCCATGCACCCCTGTAGTGCATCCATGCACCTGCCACT
1 AGTGCATCGATGCA-CCATGTAGTGCATCCATGCACCTGCCACT
*
12897436 AGTGCATCGATGTACCATGTAGTGCATCCATGCACCTGCCACT
1 AGTGCATCGATGCACCATGTAGTGCATCCATGCACCTGCCACT
12897479 AGTGCATCGATGCACCATGTAGTGCATCCATGCAC
1 AGTGCATCGATGCACCATGTAGTGCATCCATGCAC
12897514 TCCATTTCGA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
43 62 0.84
44 12 0.16
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (43 bp):
AGTGCATCGATGCACCATGTAGTGCATCCATGCACCTGCCACT
Found at i:12899133 original size:18 final size:17
Alignment explanation
Indices: 12899112--12899149 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
12899102 GAGGTGGATA
12899112 AAGAAGAAGATGATGAAC
1 AAGAAGAAGA-GATGAAC
*
12899130 AAGAAGAAGAGATGGAC
1 AAGAAGAAGAGATGAAC
12899147 AAG
1 AAG
12899150 CTCTTGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.55, C:0.05, G:0.32, T:0.08
Consensus pattern (17 bp):
AAGAAGAAGAGATGAAC
Found at i:12899519 original size:19 final size:20
Alignment explanation
Indices: 12899480--12899520 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
12899470 TGAGACAATG
* *
12899480 AATTCCAAATATTCGAAATT
1 AATTCCAAATACTCAAAATT
12899500 AATTCCAAA-ACTCAAAATT
1 AATTCCAAATACTCAAAATT
12899519 AA
1 AA
12899521 AGATAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (20 bp):
AATTCCAAATACTCAAAATT
Found at i:12900748 original size:21 final size:21
Alignment explanation
Indices: 12900722--12900761 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12900712 AAACAATTAG
12900722 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
12900743 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
12900762 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:12901026 original size:23 final size:21
Alignment explanation
Indices: 12900975--12901034 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
12900965 AGGGTGTCAA
*
12900975 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTAC
12900996 AGTGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCACC--CCTAC
*
12901018 TAGTGCATCGATGCACC
1 -AGTGCATCCATGCACC
12901035 ATCATGCCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.47
22 1 0.03
23 17 0.50
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:12907044 original size:18 final size:18
Alignment explanation
Indices: 12907021--12907063 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
12907011 TAAATGCAAA
12907021 TGATATCTCTCTAACAAT
1 TGATATCTCTCTAACAAT
12907039 TGATATCTCTCTAACAAT
1 TGATATCTCTCTAACAAT
12907057 TGATATC
1 TGATATC
12907064 AACTTTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (18 bp):
TGATATCTCTCTAACAAT
Found at i:12907616 original size:21 final size:21
Alignment explanation
Indices: 12907590--12907629 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12907580 AAACAAAAGG
12907590 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
12907611 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
12907630 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:12909443 original size:18 final size:17
Alignment explanation
Indices: 12909422--12909457 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12909412 TGAGGTGAAT
12909422 GAAGAAGATGATGAACAA
1 GAAGAAGA-GATGAACAA
*
12909440 GAAGAAGAGATGATCAA
1 GAAGAAGAGATGAACAA
12909457 G
1 G
12909458 CTCTTGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.53, C:0.06, G:0.31, T:0.11
Consensus pattern (17 bp):
GAAGAAGAGATGAACAA
Found at i:12909811 original size:20 final size:19
Alignment explanation
Indices: 12909786--12909829 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
12909776 ATTTGAGACC
12909786 ATTAATTCCAAATA-TACAAA
1 ATTAATTCCAAA-ACT-CAAA
*
12909806 ATTAATTTCAAAACTCAAA
1 ATTAATTCCAAAACTCAAA
12909825 ATTAA
1 ATTAA
12909830 AGATAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTAATTCCAAAACTCAAA
Found at i:12911071 original size:21 final size:21
Alignment explanation
Indices: 12911032--12911071 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12911022 AAACAATTGG
*
12911032 TAACAATTGATATCATTTTGT
1 TAACAATTGATAACATTTTGT
* *
12911053 TAACAATTGGTAACTTTTT
1 TAACAATTGATAACATTTT
12911072 CATTAAACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (21 bp):
TAACAATTGATAACATTTTGT
Found at i:12911320 original size:21 final size:21
Alignment explanation
Indices: 12911294--12911349 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
12911284 AGGGTGTCAA
12911294 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
12911315 AGTGCATCCATGTACCCCTGC
1 AGTGCATCCATGCACCCCTGC
12911336 AGTGCATCCATGCA
1 AGTGCATCCATGCA
12911350 TCTGCCACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:12911824 original size:34 final size:32
Alignment explanation
Indices: 12911785--12911854 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
12911775 TTTTGTAAAG
* *
12911785 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
12911819 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
12911851 GGGA
1 GGGA
12911855 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:12914432 original size:14 final size:14
Alignment explanation
Indices: 12914407--12914450 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
12914397 AGCCAACCTC
12914407 AAATGCTTTTGAATA
1 AAATG-TTTTGAATA
*
12914422 AAATGTTTTGAACA
1 AAATGTTTTGAATA
*
12914436 AAATGATTTGCAATA
1 AAATGTTTTG-AATA
12914451 TGTTCTGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
AAATGTTTTGAATA
Found at i:12914689 original size:15 final size:14
Alignment explanation
Indices: 12914653--12914702 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
12914643 ACATTCTACA
*
12914653 TGAAAATGTCTATG
1 TGAATATGTCTATG
* *
12914667 TGACTATGTGCTAAG
1 TGAATATGT-CTATG
12914682 TGAATATGTTCTATG
1 TGAATATG-TCTATG
12914697 TGAATA
1 TGAATA
12914703 AACAATACCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 7 0.24
15 21 0.72
16 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (14 bp):
TGAATATGTCTATG
Found at i:12914858 original size:24 final size:24
Alignment explanation
Indices: 12914808--12914876 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
12914798 GAGTTCTACG
**
12914808 TACGCGGTCCTTTGGGAC-AATTC
1 TACGCGGTCCTTCAGGACAAATTC
*
12914831 TACGTGGTCCTTCAGGACAAATTC
1 TACGCGGTCCTTCAGGACAAATTC
12914855 TACGCGGTCCTTCAGGACAAAT
1 TACGCGGTCCTTCAGGACAAAT
12914877 CCATGTGGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 15 0.37
24 26 0.63
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (24 bp):
TACGCGGTCCTTCAGGACAAATTC
Found at i:12915698 original size:14 final size:14
Alignment explanation
Indices: 12915681--12915713 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
12915671 GACTTCTTTT
*
12915681 AAATATTTTTAAAC
1 AAATATTTTAAAAC
12915695 AAATA-TTTAAAAC
1 AAATATTTTAAAAC
12915708 AAATAT
1 AAATAT
12915714 ATGTGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATTTTAAAAC
Found at i:12923421 original size:25 final size:24
Alignment explanation
Indices: 12923393--12923441 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12923383 AATTACTCTG
12923393 GTTAATAAATATATATTTAATTTTT
1 GTTAAT-AATATATATTTAATTTTT
* * *
12923418 GTTAGTATTTTATATTTAATTTTT
1 GTTAATAATATATATTTAATTTTT
12923442 TCTATATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
GTTAATAATATATATTTAATTTTT
Found at i:12924035 original size:64 final size:64
Alignment explanation
Indices: 12923912--12924066 Score: 179
Period size: 64 Copynumber: 2.4 Consensus size: 64
12923902 CACACCCATT
* * * *
12923912 TCGAATGCATTTTGTGTACCGATGCAAAGCCTTGCATCGATGCACTCTTGAATATTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAGCCATGCATCAATGCACTCTTGAATACTTTGAAACA
* **
12923976 TCGAATGCATTTTGTGTACCGATGCACAGACCATGTATCAATGCACT-TCTGGCT-CTTTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAG-CCATGCATCAATGCACTCT-TGAATACTTTGAAAC
12924039 A
64 A
* * * *
12924040 TCGAATGTAATTAGTGTACTGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
12924067 TAAGTCTTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 61 0.78
65 17 0.22
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACCGATGCACAGCCATGCATCAATGCACTCTTGAATACTTTGAAACA
Found at i:12929247 original size:21 final size:21
Alignment explanation
Indices: 12929223--12929286 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 21
12929213 TCGGTACATC
12929223 TTCATGGTGTATCGATGCACA
1 TTCATGGTGTATCGATGCACA
* *
12929244 TTCATAGGGATGCATCGATGCACC
1 TTCAT--GG-TGTATCGATGCACA
*
12929268 TTCATAGTGTATCGATGCA
1 TTCATGGTGTATCGATGCA
12929287 TTATGCACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 16 0.44
22 1 0.03
23 2 0.06
24 17 0.47
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (21 bp):
TTCATGGTGTATCGATGCACA
Found at i:12932285 original size:56 final size:56
Alignment explanation
Indices: 12932223--12932336 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
12932213 TGCCATAACC
*
12932223 AACTATCATGCTCATCCTTAGCAACTAGGCATAAATTAGTCATATCTATAGAATCT
1 AACTATCATGCTCATCCTTAGAAACTAGGCATAAATTAGTCATATCTATAGAATCT
12932279 AACTATCATGCTCATCCTTAGAAACTAGGCATAAATTAGTCATATCTATAGAATCT
1 AACTATCATGCTCATCCTTAGAAACTAGGCATAAATTAGTCATATCTATAGAATCT
12932335 AA
1 AA
12932337 ATGCACCATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (56 bp):
AACTATCATGCTCATCCTTAGAAACTAGGCATAAATTAGTCATATCTATAGAATCT
Found at i:12939680 original size:21 final size:22
Alignment explanation
Indices: 12939639--12939686 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
12939629 ATTTTTAATT
*
12939639 TTTTTAGTAATTTCAT-TTTTA
1 TTTTTAGTAATTTCATATTTAA
*
12939660 TTTTTAGTATTTTTC-TATTTAA
1 TTTTTAGTA-ATTTCATATTTAA
12939682 TTTTT
1 TTTTT
12939687 TTCTATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTTAGTAATTTCATATTTAA
Found at i:12942135 original size:39 final size:39
Alignment explanation
Indices: 12942076--12942169 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
12942066 TCTATGACTT
* * *
12942076 GTAAGTCCTTACCGTAGGCTCTTCGGCTTTGTACTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGACTTTGTACTCAGG
* *
12942115 GTAAATCCTTACCGCAGGCTCCTCGACTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGACTTTGTACTCAGG
*
12942154 GTAAGTTCTTACCGCA
1 GTAAGTCCTTACCGCA
12942170 TGTCCTTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAGGCTCCTCGACTTTGTACTCAGG
Found at i:12948020 original size:112 final size:111
Alignment explanation
Indices: 12947880--12948108 Score: 323
Period size: 112 Copynumber: 2.1 Consensus size: 111
12947870 TCGAAGTGCT
* * *
12947880 GAAATGGTAATTTACCTCATTATGAATACCATGGGTGGCACATTTTATACCGAAAATACACCGTT
1 GAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACATTGTATACCGAAAATACACAGTT
* * * **
12947945 ATGCATTAAGCAAAATCGATCGATAACTTTCATATATGAAGTATGTC
66 ATGCATTAAACAAAATCGATCGAT-ACTATCATACAAAAAGTATGTC
* * * * *
12947992 GAAATGGTAGTTCACCTCATTATGAATACCATGGGTGGCACCTTGTATGCTGAAAATTCACAGTT
1 GAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACATTGTATACCGAAAATACACAGTT
*
12948057 ATGCATTAAACAAAATCGATCGATACTATCATACAAAAAGTATGTT
66 ATGCATTAAACAAAATCGATCGATACTATCATACAAAAAGTATGTC
12948103 GAAATG
1 GAAATG
12948109 CACCTATGAC
Statistics
Matches: 103, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
111 23 0.22
112 80 0.78
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (111 bp):
GAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACATTGTATACCGAAAATACACAGTT
ATGCATTAAACAAAATCGATCGATACTATCATACAAAAAGTATGTC
Found at i:12957373 original size:39 final size:39
Alignment explanation
Indices: 12957239--12957365 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
12957229 TCTATAACTT
* *
12957239 GTAAGTCCTTACCTCAGGCTCCTCGGCTTTATGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
* * * * *
12957278 GTAAGTCATT-CCGCATGCTTCTTGGCTTTGTGCTTAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
*
12957316 GTAAGTCCTTACCGCAGGCTCCTCAGCTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
12957355 GTAAGTCCTTA
1 GTAAGTCCTTA
12957366 ATGCAGGCCT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 31 0.42
39 43 0.58
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
Found at i:12962956 original size:18 final size:18
Alignment explanation
Indices: 12962933--12962994 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
12962923 TCATTATCCT
*
12962933 CTGAGTCTATTGGTTCTG
1 CTGAGTCTATTGGTTTTG
* *
12962951 CTGAGTCTGTTGGTTTTA
1 CTGAGTCTATTGGTTTTG
*
12962969 CTGAGTCTACTGGTTTTG
1 CTGAGTCTATTGGTTTTG
12962987 CTGAGTCT
1 CTGAGTCT
12962995 GCTGGTCCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.45
Consensus pattern (18 bp):
CTGAGTCTATTGGTTTTG
Found at i:12963990 original size:15 final size:14
Alignment explanation
Indices: 12963955--12963990 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
12963945 GACTTCTTTT
12963955 TATATATTTTTAAA
1 TATATATTTTTAAA
*
12963969 TAAATATTTTTAAAA
1 TATATATTTTT-AAA
12963984 TATATAT
1 TATATAT
12963991 AACACGTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATATTTTTAAA
Found at i:12964455 original size:26 final size:26
Alignment explanation
Indices: 12964405--12964456 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
12964395 TTGACGTCCT
** *
12964405 TAAATTATAGTTTAATTTTTTAATTA
1 TAAATTATAGTTTAAACTTTAAATTA
12964431 TAAATTATAGTTTAAACTTTAAATTA
1 TAAATTATAGTTTAAACTTTAAATTA
12964457 GTTTCCAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (26 bp):
TAAATTATAGTTTAAACTTTAAATTA
Found at i:12968485 original size:158 final size:157
Alignment explanation
Indices: 12968202--12968486 Score: 333
Period size: 158 Copynumber: 1.8 Consensus size: 157
12968192 TTTTTGCAAC
12968202 TTATTCCTTCAATTTCTCCTTCATTTTAAGTCTTTTTTTACCAAATTTGAACTACATGCTCCTAA
1 TTATTCCTTCAATTTCTCCTTCATTTTAAGTCTTTTTTTACCAAATTTGAACTACATGCTCCTAA
* *** * * * * ** **
12968267 ACCATCGTAGAATACCTATGTCTTTTCGATTCCTCTTTTTTATAACAATTTTTTTATTTTTCAAT
66 ACCATCATAGAATACCTATGTAACTTCAACTCCTATTTTTTATAAAAATACTCCTATTTTTCAAT
12968332 TTAGTCTCTCAACTTTTCATGATTTCT
131 TTAGTCTCTCAACTTTTCATGATTTCT
* * * *
12968359 TTATTTCTTCAA-TTCATCCTTCATTTTAAGTTCTTTTTTTACCAAATTTG-ACTCTCATGTTCT
1 TTATTCCTTCAATTTC-TCCTTCATTTTAAG-TCTTTTTTTACCAAATTTGAACT-ACATGCTCC
* * *
12968422 TATACCA-CTATAGAATACCTATGTAACTTCAACTCTTATTTTTTACTAAAAATACTCCTTTTTT
63 TAAACCATC-ATAGAATACCTATGTAACTTCAACTCCTATTTTTTA-TAAAAATACTCCTATTTT
12968486 T
126 T
12968487 ATCAAGTCCC
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
156 3 0.03
157 29 0.28
158 59 0.57
159 13 0.12
ACGTcount: A:0.25, C:0.21, G:0.05, T:0.49
Consensus pattern (157 bp):
TTATTCCTTCAATTTCTCCTTCATTTTAAGTCTTTTTTTACCAAATTTGAACTACATGCTCCTAA
ACCATCATAGAATACCTATGTAACTTCAACTCCTATTTTTTATAAAAATACTCCTATTTTTCAAT
TTAGTCTCTCAACTTTTCATGATTTCT
Found at i:12968998 original size:20 final size:20
Alignment explanation
Indices: 12968932--12969000 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
12968922 GAATATGTAA
*
12968932 ATCGCAACGTGATTCTGACT
1 ATCGCAACGTGATTCTAACT
* ** **
12968952 ATCGCAACGTAATAATACAAA
1 ATCGCAACGTGATTCTA-ACT
*
12968973 ATCGCAACGCGATTCTAACT
1 ATCGCAACGTGATTCTAACT
12968993 ATCGCAAC
1 ATCGCAAC
12969001 ACTGAATTTC
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.23
Consensus pattern (20 bp):
ATCGCAACGTGATTCTAACT
Found at i:12969866 original size:24 final size:24
Alignment explanation
Indices: 12969839--12969884 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
12969829 TATTCGAAAT
12969839 TTGATCTTGGTCAATACCCGGACC
1 TTGATCTTGGTCAATACCCGGACC
*
12969863 TTGATCTTGGTCAATACTCGGA
1 TTGATCTTGGTCAATACCCGGA
12969885 TTTTGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCGGACC
Found at i:12969890 original size:24 final size:24
Alignment explanation
Indices: 12969838--12969891 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
12969828 GTATTCGAAA
12969838 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
12969862 CTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
12969886 TTTGAT
1 TTTGAT
12969892 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:12972289 original size:20 final size:20
Alignment explanation
Indices: 12972264--12972373 Score: 184
Period size: 20 Copynumber: 5.5 Consensus size: 20
12972254 TTCATTCGAA
12972264 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
12972284 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
**
12972304 TATTACAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
12972324 TATCGCAACGCGAATTTGAT
1 TATCGCAACGCGAATTTGAC
*
12972344 TATCGCAACGGGAATTTGAC
1 TATCGCAACGCGAATTTGAC
12972364 TATCGCAACG
1 TATCGCAACG
12972374 AGAAAATCGC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:12972470 original size:20 final size:20
Alignment explanation
Indices: 12972445--12972502 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
12972435 GCAACGCGAA
12972445 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
*
12972465 TTGACTTTCGCATTGCAATT
1 TTGACTTTCGCATTGCGATT
* * *
12972485 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
12972503 AAGTTTACCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:12972472 original size:53 final size:52
Alignment explanation
Indices: 12972265--12972476 Score: 158
Period size: 53 Copynumber: 3.8 Consensus size: 52
12972255 TCATTCGAAT
* * *
12972265 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATT-ACAACGCGAATTTGA
1 ATCGCAACGCGAA-TTGACTTTCGCAACGCG-ATTTGACT-TTCGCAACGAGAA----A
* *
12972323 CTATCGCAACGCGAATTTGA-TTATCGCAACGGGAATTTGACTATCGCAACGAGAAA
1 --ATCGCAACGCGAA-TTGACTT-TCGCAACGCG-ATTTGACTTTCGCAACGAGAAA
* * * * * * *
12972379 ATCGCAAAGCGTATTAGACTATCGAAACGCGAATTAACTTTCGCAACGTGAAA
1 ATCGCAACGCGAATT-GACTTTCGCAACGCGATTTGACTTTCGCAACGAGAAA
**
12972432 ATCGCAACGCGAATTGACTTTCGCATTGCGATTTTGACTTTCGCA
1 ATCGCAACGCGAATTGACTTTCGCAACGCGA-TTTGACTTTCGCA
12972477 TTGCAATTTT
Statistics
Matches: 125, Mismatches: 22, Indels: 17
0.76 0.13 0.10
Matches are distributed among these distances:
52 12 0.10
53 44 0.35
54 21 0.17
55 1 0.01
56 1 0.01
59 2 0.02
60 44 0.35
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (52 bp):
ATCGCAACGCGAATTGACTTTCGCAACGCGATTTGACTTTCGCAACGAGAAA
Found at i:12972638 original size:27 final size:28
Alignment explanation
Indices: 12972606--12972658 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
12972596 ATAATAATTA
*
12972606 TTTACACATCAA-TTAAACAAATCAAAT
1 TTTACAAATCAACTTAAACAAATCAAAT
**
12972633 TTTACAAATCAACTTTTACAAATCAA
1 TTTACAAATCAACTTAAACAAATCAA
12972659 TTAAACAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (28 bp):
TTTACAAATCAACTTAAACAAATCAAAT
Found at i:12972639 original size:14 final size:14
Alignment explanation
Indices: 12972622--12972658 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
12972612 CATCAATTAA
12972622 ACAAATCAAATTTT
1 ACAAATCAAATTTT
*
12972636 ACAAATCAACTTTT
1 ACAAATCAAATTTT
12972650 ACAAATCAA
1 ACAAATCAA
12972659 TTAAACAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAAATTTT
Found at i:12972680 original size:81 final size:79
Alignment explanation
Indices: 12972557--12972729 Score: 190
Period size: 85 Copynumber: 2.1 Consensus size: 79
12972547 TGAAATCAAG
*
12972557 AAATCAACTTTTACATTTCAATCAATTAAACAAGCACAAATAATAA-TTA-TTTACACATCAATT
1 AAATCAACTTTTACA--T-AATCAATTAAACAAGCAAAAATAATAATTTATTTTACACATCAATT
12972620 AAACAAATCAAATTTTA
63 AAACAAATCAAATTTTA
* *
12972637 CAAATCAACTTTTACA-AATCAATTAAACAAGCAAAAAATAATAATAATTCTTATTTTCCTCATC
1 -AAATCAACTTTTACATAATCAATTAAACAAGC---AAA-AATAATAA-T-TTATTTTACACATC
*
12972701 AATTAAACAAATCAACTTTTA
59 AATTAAACAAATCAAATTTTA
12972722 AGAATCAA
1 A-AATCAA
12972730 TTAAACAATC
Statistics
Matches: 79, Mismatches: 4, Indels: 14
0.81 0.04 0.14
Matches are distributed among these distances:
77 16 0.20
80 2 0.03
81 23 0.29
84 4 0.05
85 34 0.43
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.32
Consensus pattern (79 bp):
AAATCAACTTTTACATAATCAATTAAACAAGCAAAAATAATAATTTATTTTACACATCAATTAAA
CAAATCAAATTTTA
Found at i:12974092 original size:42 final size:42
Alignment explanation
Indices: 12974033--12974155 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
12974023 GTGAATCGGG
* *
12974033 CTCTTGAATGGTAGGA-GGGACCTCTTTAACGATGACAGGGGC
1 CTCTTGAACGGTAGGAGGGGA-CTCTTGAACGATGACAGGGGC
* ** *
12974075 CTCTTGAACGGTGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTAGGAGGGGACTCTTGAACGATGACAGGGGC
*** * * *
12974117 CTCTTGAATAATAGGAGAGGCCTCTTGAACAATGACAGG
1 CTCTTGAACGGTAGGAGGGGACTCTTGAACGATGACAGG
12974156 TGAGTCGGGC
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 60 0.94
43 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTAGGAGGGGACTCTTGAACGATGACAGGGGC
Found at i:12974093 original size:21 final size:21
Alignment explanation
Indices: 12974033--12974124 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
12974023 GTGAATCGGG
* *
12974033 CTCTTGAATGGT-AGGAGGGAC
1 CTCTTGAACGGTGA-GAGGGGC
* * *
12974054 CTCTTTAACGATGACAGGGGC
1 CTCTTGAACGGTGAGAGGGGC
* *
12974075 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGAGAGGGGC
* *
12974096 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGAGAGGGGC
12974117 CTCTTGAA
1 CTCTTGAA
12974125 TAATAGGAGA
Statistics
Matches: 54, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
20 3 0.06
21 49 0.91
22 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.37, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGAGAGGGGC
Found at i:12974656 original size:20 final size:20
Alignment explanation
Indices: 12974631--12974668 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12974621 AATAGTTTCT
12974631 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
12974651 GAAACTTAAAATCGCAAC
1 GAAACTTAAAATCGCAAC
12974669 GCATAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.24, G:0.11, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:12974684 original size:20 final size:20
Alignment explanation
Indices: 12974661--12974708 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
12974651 GAAACTTAAA
12974661 ATCGCAACGC-ATAAATGACT
1 ATCGCAACGCGA-AAATGACT
**
12974681 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
12974701 ATCGCAAC
1 ATCGCAAC
12974709 AAGATAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:12974801 original size:20 final size:20
Alignment explanation
Indices: 12974772--12974809 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12974762 CAAAACTAAA
*
12974772 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
12974792 TTCGCATTGCGATTTTCA
1 TTCGCATTGCGATTTTCA
12974810 CGTTGCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:12974833 original size:33 final size:34
Alignment explanation
Indices: 12974776--12974871 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 34
12974766 ACTAAATTCG
*
12974776 CGTTGCGATTTTCATTTTCGCATTGCGATTTTCA
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
* * *
12974810 CGTTGCGATTTTTA-TTTCGCATTGTGATTATCC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
** * *
12974843 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
12974872 AGTCATTTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 27 0.53
34 24 0.47
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
Found at i:12974868 original size:20 final size:20
Alignment explanation
Indices: 12974843--12974891 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
12974833 GTGATTATCC
12974843 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
12974863 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
12974883 CGTTACGAT
1 CGTTGCGAT
12974892 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:12976809 original size:20 final size:20
Alignment explanation
Indices: 12976786--12976824 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12976776 TCTGAAACTT
12976786 AAAATCGCAACACGAAAATA
1 AAAATCGCAACACGAAAATA
12976806 AAAATCGCAACACGAAAAT
1 AAAATCGCAACACGAAAAT
12976825 GACTATCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATA
Found at i:12976836 original size:20 final size:20
Alignment explanation
Indices: 12976789--12976857 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
12976779 GAAACTTAAA
* **
12976789 ATCGCAACACGAAAATAAAA
1 ATCGCAACACGAAAATGACT
12976809 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* * **
12976829 ATCACAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
12976849 ATCGCAACA
1 ATCGCAACA
12976858 AGATAATCGC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.46, C:0.25, G:0.13, T:0.16
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:12977312 original size:20 final size:22
Alignment explanation
Indices: 12977287--12977329 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12977277 TCTGAGAGAT
*
12977287 GGAGAT-A-GACGGATTTCGCC
1 GGAGATGAGGACGGATGTCGCC
12977307 GGAGATGAGGACGGATGTCGCC
1 GGAGATGAGGACGGATGTCGCC
12977329 G
1 G
12977330 TAGAGAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.23, C:0.19, G:0.42, T:0.16
Consensus pattern (22 bp):
GGAGATGAGGACGGATGTCGCC
Found at i:12977561 original size:21 final size:21
Alignment explanation
Indices: 12977537--12977583 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12977527 TATTCGCATT
*
12977537 GCGATTTTCTAAAATCGCAAC
1 GCGATTTTCGAAAATCGCAAC
* * *
12977558 GCGAATTTGGAAAATCGCAAT
1 GCGATTTTCGAAAATCGCAAC
12977579 GCGAT
1 GCGAT
12977584 AGTCAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GCGATTTTCGAAAATCGCAAC
Found at i:12978712 original size:32 final size:32
Alignment explanation
Indices: 12978676--12978736 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
12978666 TTCCTCTCAC
*
12978676 TATATATAATGGGTT-GATTGATATAAATTATA
1 TATATATAATGGATTAG-TTGATATAAATTATA
*
12978708 TATATATAATGGATTAGTTTATATAAATT
1 TATATATAATGGATTAGTTGATATAAATT
12978737 TTATTCTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (32 bp):
TATATATAATGGATTAGTTGATATAAATTATA
Found at i:12980712 original size:24 final size:24
Alignment explanation
Indices: 12980685--12980738 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
12980675 GAAGTGCAAA
12980685 GTAGAATTTGTCTCG-AAGGACCAC
1 GTAGAATTTGTC-CGTAAGGACCAC
*
12980709 GTAGAATTTTTCCGTAAGGACCAC
1 GTAGAATTTGTCCGTAAGGACCAC
12980733 GTAGAA
1 GTAGAA
12980739 CCCTCGACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (24 bp):
GTAGAATTTGTCCGTAAGGACCAC
Found at i:12981450 original size:34 final size:32
Alignment explanation
Indices: 12981388--12981457 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
12981378 ACATTACAAC
* *
12981388 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
12981420 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
12981454 TCCC
1 TCCC
12981458 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:12981839 original size:20 final size:20
Alignment explanation
Indices: 12981814--12981886 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
12981804 ACAGCCTTCG
*
12981814 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* *
12981834 TGCATGGATGCACAGCAAGA
1 TGCATCGATGCACAGCAGGA
* *
12981854 TGCATCGATGGACATCAGGA
1 TGCATCGATGCACAGCAGGA
12981874 TGCATCGATGCAC
1 TGCATCGATGCAC
12981887 TAAGTACATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:12981952 original size:21 final size:21
Alignment explanation
Indices: 12981926--12981967 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12981916 GCACTGCATG
*
12981926 GTGCATCGATGCACTAGTGCA
1 GTGCATCCATGCACTAGTGCA
12981947 GTGCATCCATGCACTAGTGCA
1 GTGCATCCATGCACTAGTGCA
12981968 TGGATGCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (21 bp):
GTGCATCCATGCACTAGTGCA
Found at i:12981980 original size:21 final size:21
Alignment explanation
Indices: 12981935--12981998 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
12981925 GGTGCATCGA
* *
12981935 TGCACTAGTGCAGTGCATCCA-
1 TGCACTAGTGCA-TGGATGCAC
12981956 TGCACTAGTGCATGGATGCAC
1 TGCACTAGTGCATGGATGCAC
***
12981977 TGCAGGGGTGCATGGATGCAC
1 TGCACTAGTGCATGGATGCAC
12981998 T
1 T
12981999 TTGACACCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.16
21 31 0.84
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.23
Consensus pattern (21 bp):
TGCACTAGTGCATGGATGCAC
Done.