Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 40 of 199
Found at i:15957040 original size:3 final size:3
Alignment explanation
Indices: 15957024--15957065 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
15957014 GGAAGAAGGT
* * *
15957024 GAA GGA GAA G-A GAA GAA GAA GAA GAA AAA GAA GGA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
15957066 GGACTGAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16010297 original size:42 final size:42
Alignment explanation
Indices: 16010251--16010389 Score: 134
Period size: 42 Copynumber: 3.3 Consensus size: 42
16010241 TACTTCTCAA
* *
16010251 GAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACCCATATGAGTTTCCGTTCAGCTCTTAT
* * *
16010293 GAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCTTAT
1 GAGCTTCTGTTTAACCCATATGAGTTTCCGTTCAGCTCTTAT
* * * * * * * * * *
16010335 GAGTTTCCGTTCAACCCTTACGGGTTTCTGTTTAGCACTTAC
1 GAGCTTCTGTTTAACCCATATGAGTTTCCGTTCAGCTCTTAT
*
16010377 GTGCTTCTGTTTA
1 GAGCTTCTGTTTA
16010390 GCCTTCAGGC
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCCATATGAGTTTCCGTTCAGCTCTTAT
Found at i:16010333 original size:21 final size:21
Alignment explanation
Indices: 16010259--16010368 Score: 94
Period size: 21 Copynumber: 5.2 Consensus size: 21
16010249 AAGAGCTTCT
*
16010259 GTTTAACTCATATGAGTTTCC
1 GTTTAACTCTTATGAGTTTCC
* * * * *
16010280 GTTCAGCTCTTTTGAGCTTCT
1 GTTTAACTCTTATGAGTTTCC
* *
16010301 GTTTAACCCTTATGGGTTTCC
1 GTTTAACTCTTATGAGTTTCC
*
16010322 GTTTAGCTCTTATGAGTTTCC
1 GTTTAACTCTTATGAGTTTCC
* * * * *
16010343 GTTCAACCCTTACGGGTTTCT
1 GTTTAACTCTTATGAGTTTCC
16010364 GTTTA
1 GTTTA
16010369 GCACTTACGT
Statistics
Matches: 66, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (21 bp):
GTTTAACTCTTATGAGTTTCC
Found at i:16010375 original size:21 final size:21
Alignment explanation
Indices: 16010297--16010392 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 21
16010287 TCTTTTGAGC
* *
16010297 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAGCCCTTACGGGT
* * * *
16010318 TTCCGTTTAGCTCTTATGAGT
1 TTCTGTTTAGCCCTTACGGGT
* * *
16010339 TTCCGTTCAACCCTTACGGGT
1 TTCTGTTTAGCCCTTACGGGT
* * *
16010360 TTCTGTTTAGCACTTACGTGC
1 TTCTGTTTAGCCCTTACGGGT
16010381 TTCTGTTTAGCC
1 TTCTGTTTAGCC
16010393 TTCAGGCTTC
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (21 bp):
TTCTGTTTAGCCCTTACGGGT
Found at i:16010389 original size:63 final size:63
Alignment explanation
Indices: 16010253--16010391 Score: 152
Period size: 63 Copynumber: 2.2 Consensus size: 63
16010243 CTTCTCAAGA
* * * ** * *
16010253 GCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGG
1 GCTTCTGTTTAGCTCATATGAGTTTCCGTTCAACCCTTACGAGCTTCTGTTTAACACTTACGG
* * * * * * *
16010316 GTTTCCGTTTAGCTCTTATGAGTTTCCGTTCAACCCTTACGGGTTTCTGTTTAGCACTTACGT
1 GCTTCTGTTTAGCTCATATGAGTTTCCGTTCAACCCTTACGAGCTTCTGTTTAACACTTACGG
16010379 GCTTCTGTTTAGC
1 GCTTCTGTTTAGC
16010392 CTTCAGGCTT
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (63 bp):
GCTTCTGTTTAGCTCATATGAGTTTCCGTTCAACCCTTACGAGCTTCTGTTTAACACTTACGG
Found at i:16014626 original size:67 final size:67
Alignment explanation
Indices: 16014519--16014848 Score: 222
Period size: 67 Copynumber: 5.0 Consensus size: 67
16014509 TGGGTTGTAA
* * ** * * *
16014519 TGGGGTATAATGTG-CAGACCATAGCTCGACTATGGTAACATAAAGAGTCCGTTAGGACATTAAA
1 TGGGGTATAATATGTAAGACCGGAGCTCGATTATGGCAACATAGAGAGTCCGTTAGGACATTAAA
16014583 CT
66 CT
* *
16014585 TGGGGTATAATATGTAAGTCCGGAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATTAAA
1 TGGGGTATAATATGTAAGACCGGAGCTCGATTATGGCAACATAGAGAGTCCGTTAGGACATTAAA
16014650 -T
66 CT
* * * ** * * *
16014651 ATAGAGTATAATGTGTAAGACCTTAGCTCGATTATGGCAACATAGAGAG-CTGTCAAGACATTAA
1 -TGGGGTATAATATGTAAGACCGGAGCTCGATTATGGCAACATAGAGAGTCCGTTAGGACATTAA
*
16014715 ACA
65 ACT
* ** * ** * * * * * ** *
16014718 TGGGCTATGGTGTGTAAGACCATAGCTCAACTAAGGCAACATTGAGAGTCTGCCAGAACATTAAA
1 TGGGGTATAATATGTAAGACCGGAGCTCGATTATGGCAACATAGAGAGTCCGTTAGGACATTAAA
16014783 CAT
66 C-T
* * *** * * * *
16014786 T-GGGTATGATTTGTAAGACTATAGCTCGACTATGGCAAAATATGA-AGTCTGTT-GGACAATAA
1 TGGGGTATAATATGTAAGACCGGAGCTCGATTATGGCAACATA-GAGAGTCCGTTAGGACATTAA
16014848 A
65 A
16014849 TGTGGGATAG
Statistics
Matches: 212, Mismatches: 46, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
66 72 0.34
67 137 0.65
68 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (67 bp):
TGGGGTATAATATGTAAGACCGGAGCTCGATTATGGCAACATAGAGAGTCCGTTAGGACATTAAA
CT
Found at i:16014765 original size:133 final size:134
Alignment explanation
Indices: 16014523--16014823 Score: 320
Period size: 133 Copynumber: 2.3 Consensus size: 134
16014513 TTGTAATGGG
* * * * * *
16014523 GTATAATGTG-CAGACCATAGCTCGACTATGGTAACATAAAGAGTCCGTTAGGACATTAAACTTG
1 GTATAATGTGTAAGACCTTAGCTCGACTATGGCAACATAAAGAGTCCGTCAAGACATTAAACATG
* * * * * * * * *
16014587 GGGTATAATATGTAAGTCCGGAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATTAAATA
66 GGCTATAATATGTAAGACCAGAGCTCAACTAAGGCAACATAGAGAGTCCGCCAGAACATTAAACA
16014652 TAGA
131 TAGA
* * *
16014656 GTATAATGTGTAAGACCTTAGCTCGATTATGGCAACATAGAGAG-CTGTCAAGACATTAAACATG
1 GTATAATGTGTAAGACCTTAGCTCGACTATGGCAACATAAAGAGTCCGTCAAGACATTAAACATG
** * * * *
16014720 GGCTATGGTGTGTAAGACCATAGCTCAACTAAGGCAACATTGAGAGTCTGCCAGAACATTAAACA
66 GGCTATAATATGTAAGACCAGAGCTCAACTAAGGCAACATAGAGAGTCCGCCAGAACATTAAACA
* *
16014785 TTGG
131 TAGA
* *
16014789 GTATGATTTGTAAGA-CTATAGCTCGACTATGGCAA
1 GTATAATGTGTAAGACCT-TAGCTCGACTATGGCAA
16014824 AATATGAAGT
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
132 2 0.01
133 107 0.78
134 28 0.20
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (134 bp):
GTATAATGTGTAAGACCTTAGCTCGACTATGGCAACATAAAGAGTCCGTCAAGACATTAAACATG
GGCTATAATATGTAAGACCAGAGCTCAACTAAGGCAACATAGAGAGTCCGCCAGAACATTAAACA
TAGA
Found at i:16028191 original size:30 final size:30
Alignment explanation
Indices: 16028151--16028231 Score: 153
Period size: 30 Copynumber: 2.7 Consensus size: 30
16028141 TCTTTAACCG
*
16028151 TTAATCGAACCGAAATTTTTTTCAAAAAAA
1 TTAACCGAACCGAAATTTTTTTCAAAAAAA
16028181 TTAACCGAACCGAAATTTTTTTCAAAAAAA
1 TTAACCGAACCGAAATTTTTTTCAAAAAAA
16028211 TTAACCGAACCGAAATTTTTT
1 TTAACCGAACCGAAATTTTTT
16028232 CGGTTAATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (30 bp):
TTAACCGAACCGAAATTTTTTTCAAAAAAA
Found at i:16028317 original size:9 final size:9
Alignment explanation
Indices: 16028305--16028336 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
16028295 AAATTTACTA
16028305 AATTACCCG
1 AATTACCCG
*
16028314 AATTAACCG
1 AATTACCCG
16028323 AATTACCCG
1 AATTACCCG
16028332 AATTA
1 AATTA
16028337 ACCAAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:16028317 original size:18 final size:18
Alignment explanation
Indices: 16028304--16028344 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
16028294 AAAATTTACT
16028304 AAATTACCCGAATTAACC
1 AAATTACCCGAATTAACC
*
16028322 GAATTACCCGAATTAACC
1 AAATTACCCGAATTAACC
16028340 AAATT
1 AAATT
16028345 GAATCACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.24
Consensus pattern (18 bp):
AAATTACCCGAATTAACC
Found at i:16028344 original size:9 final size:9
Alignment explanation
Indices: 16028305--16028344 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
16028295 AAATTTACTA
*
16028305 AATTACCCG
1 AATTAACCG
16028314 AATTAACCG
1 AATTAACCG
*
16028323 AATTACCCG
1 AATTAACCG
*
16028332 AATTAACCA
1 AATTAACCG
16028341 AATT
1 AATT
16028345 GAATCACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:16032765 original size:10 final size:10
Alignment explanation
Indices: 16032747--16032790 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
16032737 AGATAAAAAC
*
16032747 GAAACAGAAA
1 GAAAAAGAAA
16032757 GAAAAAGAAA
1 GAAAAAGAAA
*
16032767 GAAAGA-AAA
1 GAAAAAGAAA
16032776 GAAAAAGGAAA
1 GAAAAA-GAAA
16032787 GAAA
1 GAAA
16032791 GGAAGGAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.28
10 14 0.48
11 7 0.24
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:16032802 original size:20 final size:20
Alignment explanation
Indices: 16032754--16032791 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
16032744 AACGAAACAG
16032754 AAAGAAAAA-GAAAGAAAGA
1 AAAGAAAAAGGAAAGAAAGA
16032773 AAAGAAAAAGGAAAGAAAG
1 AAAGAAAAAGGAAAGAAAG
16032792 GAAGGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGGAAAGAAAGA
Found at i:16033733 original size:41 final size:40
Alignment explanation
Indices: 16033688--16033801 Score: 99
Period size: 38 Copynumber: 2.9 Consensus size: 40
16033678 TTTCGAGTCG
*
16033688 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTAATTCA
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTAACT-A
* * * * ** * *
16033729 ATGAGGCACTAGGT-ACCAA-T-TTACTTCGGTTTAGCTG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTAACTA
* *
16033766 ATGAGAAACTGGGTGTCAATTTATTACTTCGAATTA
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
16033802 TCCGATTAGG
Statistics
Matches: 53, Mismatches: 17, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
37 11 0.21
38 14 0.26
39 2 0.04
40 14 0.26
41 12 0.23
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAAATTATTACTTCGAATTAACTA
Found at i:16033817 original size:40 final size:39
Alignment explanation
Indices: 16033686--16033820 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 39
16033676 GATTTCGAGT
* *
16033686 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAATT
1 CGATGAGGCACTGGGTGTC-AATTATTACTTCGAATT-ATC
* * ** ** *
16033727 CAATGAGGCACTAGGTACCAA-T-TTACTTCGGTTTAGC
1 CGATGAGGCACTGGGTGTCAATTATTACTTCGAATTATC
* **
16033764 TGATGAGAAACTGGGTGTCAATTTATTACTTCGAATTATC
1 CGATGAGGCACTGGGTGTCAA-TTATTACTTCGAATTATC
*
16033804 CGATTAGGCACTGGGTG
1 CGATGAGGCACTGGGTG
16033821 CTAAACTGGT
Statistics
Matches: 68, Mismatches: 23, Indels: 7
0.69 0.23 0.07
Matches are distributed among these distances:
37 15 0.22
38 10 0.15
39 2 0.03
40 27 0.40
41 14 0.21
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGTCAATTATTACTTCGAATTATC
Found at i:16035060 original size:39 final size:40
Alignment explanation
Indices: 16035017--16035093 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
16035007 TAAAAAAAGG
16035017 AAAAAATATTTT-AAAAAATCATTAAAATTATTTAAAATA
1 AAAAAATATTTTAAAAAAATCATTAAAATTATTTAAAATA
*
16035056 AAAAATTATTTTAAAAAAATCATTAAAATTATTTAAAA
1 AAAAAATATTTTAAAAAAATCATTAAAATTATTTAAAA
16035094 ATTATAACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 11 0.31
40 25 0.69
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (40 bp):
AAAAAATATTTTAAAAAAATCATTAAAATTATTTAAAATA
Found at i:16035105 original size:23 final size:22
Alignment explanation
Indices: 16035018--16035109 Score: 61
Period size: 22 Copynumber: 4.4 Consensus size: 22
16035008 AAAAAAAGGA
* * * *
16035018 AAAAATATTTTAAAAAATCATT
1 AAAATTATTTAAAAAAATAACT
16035040 AAAATTATTT---AAAATAA--
1 AAAATTATTTAAAAAAATAACT
* *
16035057 AAAATTATTTTAAAAAAATCATT
1 AAAATTA-TTTAAAAAAATAACT
*
16035080 AAAATTATTTAAAAATTATAACT
1 AAAATTATTTAAAAA-AATAACT
16035103 -AAATTAT
1 AAAATTAT
16035110 AAAAGTTGTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
17 7 0.12
18 3 0.05
19 6 0.11
21 6 0.11
22 24 0.42
23 11 0.19
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATTATTTAAAAAAATAACT
Found at i:16045731 original size:30 final size:31
Alignment explanation
Indices: 16045683--16045744 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
16045673 AAGGATGGGG
16045683 TGAGAGGAGAGCAAAAGTTATGGGAAAAAAA
1 TGAGAGGAGAGCAAAAGTTATGGGAAAAAAA
* * *
16045714 TGAGAGG-GAGTAAAAGTTTTGGGAAGAAAA
1 TGAGAGGAGAGCAAAAGTTATGGGAAAAAAA
16045744 T
1 T
16045745 AAAAAAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.47, C:0.02, G:0.34, T:0.18
Consensus pattern (31 bp):
TGAGAGGAGAGCAAAAGTTATGGGAAAAAAA
Found at i:16046223 original size:14 final size:14
Alignment explanation
Indices: 16046205--16046287 Score: 82
Period size: 14 Copynumber: 6.1 Consensus size: 14
16046195 AAAAATTATT
16046205 TTAAAAATAAAAAA
1 TTAAAAATAAAAAA
* * *
16046219 AT-AAAA-AAATAT
1 TTAAAAATAAAAAA
* *
16046231 TTTAAAATTAAAAA
1 TTAAAAATAAAAAA
*
16046245 TTAAAAATTAAAAA
1 TTAAAAATAAAAAA
16046259 TTAAAAATTAAAAAA
1 TTAAAAA-TAAAAAA
16046274 -TAAAAATAAAAAA
1 TTAAAAATAAAAAA
16046287 T
1 T
16046288 ATATATTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
12 5 0.09
13 15 0.27
14 30 0.54
15 6 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TTAAAAATAAAAAA
Found at i:16046231 original size:27 final size:27
Alignment explanation
Indices: 16046176--16046279 Score: 97
Period size: 26 Copynumber: 3.9 Consensus size: 27
16046166 AACCCGGCCC
* * * *
16046176 ATTTTTAAAA-TAAACATTAAAAAATT
1 ATTTTAAAAATTAAAAAATAAAAAAAT
*
16046202 ATTTTAAAAATAAAAAAATAAAAAAAT
1 ATTTTAAAAATTAAAAAATAAAAAAAT
*
16046229 ATTTT-AAAATTAAAAATTAAAAATTAA-
1 ATTTTAAAAATTAAAAAATAAAAA--AAT
**
16046256 AAATTAAAAATTAAAAAATAAAAA
1 ATTTTAAAAATTAAAAAATAAAAA
16046280 TAAAAAATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 25 0.39
27 20 0.31
28 19 0.30
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (27 bp):
ATTTTAAAAATTAAAAAATAAAAAAAT
Found at i:16046288 original size:7 final size:7
Alignment explanation
Indices: 16046234--16046287 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
16046224 AAAATATTTT
16046234 AAAATTA
1 AAAATTA
16046241 AAAATTA
1 AAAATTA
16046248 AAAATTA
1 AAAATTA
16046255 AAAATTA
1 AAAATTA
16046262 AAAATTA
1 AAAATTA
*
16046269 AAAAATA
1 AAAATTA
*
16046276 AAAATAA
1 AAAATTA
16046283 AAAAT
1 AAAAT
16046288 ATATATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:16055033 original size:14 final size:13
Alignment explanation
Indices: 16055008--16055065 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
16054998 AGAGAAAAAA
16055008 AAGAGAGAAAGGAG
1 AAGAGAG-AAGGAG
16055022 AAGAGGAGAAGGAG
1 AAGA-GAGAAGGAG
16055036 AAGA-AGAAGAAGAG
1 AAGAGAGAAG--GAG
*
16055050 AAGA-AGAAGAAG
1 AAGAGAGAAGGAG
16055062 AAGA
1 AAGA
16055066 AAGTTTATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
12 11 0.28
14 26 0.65
15 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGAGAGAAGGAG
Found at i:16055042 original size:3 final size:3
Alignment explanation
Indices: 16055028--16055066 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
16055018 GGAGAAGAGG
*
16055028 AGA AGG AGA AGA AGA AGA AG- AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
16055067 AGTTTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16055045 original size:20 final size:20
Alignment explanation
Indices: 16055020--16055066 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
16055010 GAGAGAAAGG
* *
16055020 AGAAGAGGAGAAGGAGAAGA
1 AGAAGAAGAGAAGAAGAAGA
16055040 AGAAGAAGAGAAGAAGAAGA
1 AGAAGAAGAGAAGAAGAAGA
16055060 AGAAGAA
1 AGAAGAA
16055067 AGTTTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAGAAGAAGAAGA
Found at i:16055262 original size:22 final size:21
Alignment explanation
Indices: 16055237--16055422 Score: 163
Period size: 22 Copynumber: 9.0 Consensus size: 21
16055227 TAGATTAGAA
*
16055237 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTGT-AATT
*
16055259 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
16055280 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
16055298 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
16055319 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
16055341 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
16055362 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
16055381 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGT-AATT
16055403 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
16055423 AATATTATAG
Statistics
Matches: 131, Mismatches: 20, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.02
19 30 0.23
20 23 0.18
21 26 0.20
22 41 0.31
23 8 0.06
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:16055308 original size:19 final size:19
Alignment explanation
Indices: 16055261--16055317 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
16055251 TTTAAATTTT
* *
16055261 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
16055281 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
16055300 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
16055318 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:16055403 original size:41 final size:40
Alignment explanation
Indices: 16055237--16055422 Score: 175
Period size: 41 Copynumber: 4.5 Consensus size: 40
16055227 TAGATTAGAA
*
16055237 TTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGT-AA--TTTTGTATGAATATTATAATT
* *
16055280 TTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
16055319 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
16055362 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATT
16055403 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
16055423 AATATTATAG
Statistics
Matches: 118, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
39 22 0.19
40 6 0.05
41 44 0.37
42 33 0.28
43 10 0.08
44 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:16055544 original size:19 final size:19
Alignment explanation
Indices: 16055520--16055577 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
16055510 TGAATGTTGT
16055520 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
16055539 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
16055561 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
16055578 ATTTTGCATG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:16055548 original size:97 final size:99
Alignment explanation
Indices: 16055371--16055593 Score: 369
Period size: 97 Copynumber: 2.3 Consensus size: 99
16055361 TTTTTGTATG
*
16055371 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTTT
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTG--ATAATATTATAATTT
16055436 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
64 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * *
16055472 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATGTTG-TAATATTATAATTTTG
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTTG
16055535 TATGAATATTGCAATTTTTTTGTATGAATATTGT
66 TATGAATATTGCAATTTTTTTGTATGAATATTGT
*
16055569 AATATTGTAATTTTGCATGAATATT
1 AATATTGTAATTTTGTATGAATATT
16055594 GTAATGTGAG
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
97 72 0.62
100 18 0.16
101 26 0.22
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (99 bp):
AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTTG
TATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:16055594 original size:49 final size:49
Alignment explanation
Indices: 16055371--16055594 Score: 319
Period size: 49 Copynumber: 4.5 Consensus size: 49
16055361 TTTTTGTATG
** *
16055371 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
16055420 AATAATAT-TATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AAT-AT-TGTA-A-TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
16055472 AATTTTGTAATTTTGTATGAATATT--ATATTTTTTTGTATGAATGTTGT
1 AATATTGTAATTTTGTATGAATATTGCA-ATTTTTTTGTATGAATATTGT
*
16055520 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
16055569 AATATTGTAATTTTGCATGAATATTG
1 AATATTGTAATTTTGTATGAATATTG
16055595 TAATGTGAGG
Statistics
Matches: 157, Mismatches: 10, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
47 1 0.01
48 43 0.27
49 62 0.39
50 7 0.04
51 5 0.03
52 39 0.25
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:16059134 original size:19 final size:19
Alignment explanation
Indices: 16059112--16059454 Score: 128
Period size: 19 Copynumber: 18.5 Consensus size: 19
16059102 ATTGCAAAAT
*
16059112 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
16059131 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
*
16059153 TACAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
16059169 TACAACATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
16059184 -A-AAAAATATAATATTCA
1 TACAAAATTACAATATTCA
*
16059201 TACAAAATTACAA-AAT--
1 TACAAAATTACAATATTCA
*
16059217 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
16059232 -AAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
* *
16059250 TACAAAACTATAATATT-A
1 TACAAAATTACAATATTCA
*
16059268 TTACAATATT-C-ATA--CA
1 -TACAAAATTACAATATTCA
*
16059284 -A-AAAATTTATAATATTCA
1 TACAAAA-TTACAATATTCA
16059302 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
16059321 TACAAAAAATTACTA-ATCCAA
1 TAC--AAAATTACAATATTC-A
*
16059342 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
16059365 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
16059385 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
16059404 TAAAAAAATTATAATATTCA
1 T-ACAAAATTACAATATTCA
*
16059424 TACAAAAAATTTAAAATATTCA
1 TAC--AAAA-TTACAATATTCA
16059446 TACAAAATT
1 TACAAAATT
16059455 CTAATCTAAA
Statistics
Matches: 240, Mismatches: 40, Indels: 88
0.65 0.11 0.24
Matches are distributed among these distances:
13 7 0.03
14 14 0.06
15 6 0.03
16 23 0.10
17 5 0.02
18 9 0.04
19 75 0.31
20 37 0.15
21 21 0.09
22 36 0.15
23 5 0.02
25 2 0.01
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:16059160 original size:49 final size:49
Alignment explanation
Indices: 16059106--16059318 Score: 306
Period size: 49 Copynumber: 4.3 Consensus size: 49
16059096 ATAAAAATTG
16059106 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
* *
16059155 CAAAATTATAATATTACAACATTCATACAAAAAAATAT--AATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAAT-TGCAATATTCATA
*
16059203 CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
* **
16059252 CAAAACTATA-ATATTATTACAATATTCATACAAAAAATTTATAATATTCATA
1 CAAAA-T-TACA-A-TATTACAATATTCATACAAAAAAATTGCAATATTCATA
16059304 CAAAATTACAATATT
1 CAAAATTACAATATT
16059319 CATACAAAAA
Statistics
Matches: 147, Mismatches: 9, Indels: 16
0.85 0.05 0.09
Matches are distributed among these distances:
47 1 0.01
48 43 0.29
49 53 0.36
50 6 0.04
51 5 0.03
52 39 0.27
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (49 bp):
CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
Found at i:16059207 original size:97 final size:101
Alignment explanation
Indices: 16059106--16059318 Score: 362
Period size: 97 Copynumber: 2.1 Consensus size: 101
16059096 ATAAAAATTG
16059106 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAA-T-T-ATAATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAATA
16059168 TTACAACATTCATACAAAAAA-ATATAATATTCATA
66 TTACAACATTCATACAAAAAATATATAATATTCATA
* *
16059203 CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAATA
* *
16059268 TTACAATATTCATACAAAAAATTTATAATATTCATA
66 TTACAACATTCATACAAAAAATATATAATATTCATA
16059304 CAAAATTACAATATT
1 CAAAATTACAATATT
16059319 CATACAAAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
97 53 0.50
98 1 0.01
99 1 0.01
100 25 0.23
101 27 0.25
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (101 bp):
CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAATA
TTACAACATTCATACAAAAAATATATAATATTCATA
Found at i:16059297 original size:22 final size:21
Alignment explanation
Indices: 16059267--16059452 Score: 133
Period size: 22 Copynumber: 9.0 Consensus size: 21
16059257 CTATAATATT
*
16059267 ATTACAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
16059288 ATTTATAATATTCATAC--AAA
1 A-TTATAATATTCATACAAAAA
*
16059308 ATTACAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
**
16059329 ATTACTAATCCAAAACTATA-AATACAA
1 ATTA-TAAT---ATTC-ATACAA-A-AA
*
16059356 ATT-T-A-ATT-ATA-AAATA
1 ATTATAATATTCATACAAAAA
* *
16059372 ATTACAATATTCATAC--AAC
1 ATTATAATATTCATACAAAAA
*
16059391 ATTACAATATTCATA-AAAAA
1 ATTATAATATTCATACAAAAA
16059411 ATTATAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
*
16059432 ATTTAAAATATTCATACAAAA
1 A-TTATAATATTCATACAAAA
16059453 TTCTAATCTA
Statistics
Matches: 132, Mismatches: 14, Indels: 37
0.72 0.08 0.20
Matches are distributed among these distances:
16 4 0.03
17 1 0.01
18 6 0.05
19 33 0.25
20 24 0.18
21 14 0.11
22 35 0.27
24 1 0.01
25 5 0.04
26 4 0.03
27 5 0.04
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTATAATATTCATACAAAAA
Found at i:16059312 original size:41 final size:41
Alignment explanation
Indices: 16059267--16059452 Score: 170
Period size: 41 Copynumber: 4.5 Consensus size: 41
16059257 CTATAATATT
16059267 ATTACAATATTCATACAAAAAATTTATAATATTCATAC-AAA
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAA
* * *
16059308 ATTACAATATTCATACAAAAAATTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTA-TAATATTC-ATAC-AAAA
* * * *
16059350 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-AAC
1 ATTACAATA-TTCA-TACAAAA-AATTATAATATTCATACAAAA
16059391 ATTACAATATTCATA-AAAAAATTATAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATAC-AAAA
*
16059432 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
16059453 TTCTAATCTA
Statistics
Matches: 116, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
39 19 0.16
40 12 0.10
41 38 0.33
42 30 0.26
43 14 0.12
44 3 0.03
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAA
Found at i:16059453 original size:83 final size:84
Alignment explanation
Indices: 16059272--16059453 Score: 198
Period size: 83 Copynumber: 2.2 Consensus size: 84
16059262 ATATTATTAC
*
16059272 AATATTCATACAAAA-AATTTATAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
1 AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
* *
16059336 ATCCAAAACTATAAATACA
66 ATCCAAAACAAAAAATACA
* * *
16059355 AAT-TTAATTATAAAATAA-TTACAATATTCATACAACATTACAATATTCATA-AAAAAATTA-T
1 AATATTCA-TACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACT
* *
16059416 AATATTC-ATACAAAAAATTTA-A
65 -A-ATCCAAAACAAAAAA--TACA
16059438 AATATTCATACAAAAT
1 AATATTCATACAAAAT
16059454 TCTAATCTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
81 1 0.01
82 20 0.24
83 54 0.66
84 7 0.09
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (84 bp):
AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
ATCCAAAACAAAAAATACA
Found at i:16059624 original size:3 final size:3
Alignment explanation
Indices: 16059616--16059658 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
16059606 TTTATAAACT
*
16059616 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
16059659 CCTCTTCTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:16060631 original size:22 final size:21
Alignment explanation
Indices: 16060606--16060675 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
16060596 AAATTCAATA
16060606 TCAATTTCCTTCAAAAATTCTC
1 TCAA-TTCCTTCAAAAATTCTC
16060628 TCAATTCCGTTCAAAAATTCTC
1 TCAATTCC-TTCAAAAATTCTC
** *
16060650 TCAAATTCCTTTTAAAATTATC
1 TC-AATTCCTTCAAAAATTCTC
16060672 TCAA
1 TCAA
16060676 ACTCTCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.14
22 31 0.72
23 6 0.14
ACGTcount: A:0.34, C:0.24, G:0.01, T:0.40
Consensus pattern (21 bp):
TCAATTCCTTCAAAAATTCTC
Found at i:16060682 original size:30 final size:30
Alignment explanation
Indices: 16060647--16060705 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
16060637 TTCAAAAATT
**
16060647 CTCTCAAATTCCTTTTAAAATTATCTCAAA
1 CTCTCAAATTCCTTCCAAAATTATCTCAAA
*
16060677 CTCTCAAATTCCTTCCAAAATTCTCTCAA
1 CTCTCAAATTCCTTCCAAAATTATCTCAA
16060706 TTTCCTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATTATCTCAAA
Found at i:16060702 original size:22 final size:22
Alignment explanation
Indices: 16060677--16060728 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
16060667 TTATCTCAAA
* *
16060677 CTCTCAAATTCCTTCCAAAATT
1 CTCTCAAATTCCTTCAAAAAAT
*
16060699 CTCTCAATTTCCTTCAAAAAAT
1 CTCTCAAATTCCTTCAAAAAAT
16060721 CTC-CAAAT
1 CTCTCAAAT
16060729 CCATATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAAAT
Found at i:16060915 original size:14 final size:15
Alignment explanation
Indices: 16060886--16060919 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16060876 AAATTTTAAA
16060886 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
16060901 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
16060915 TTTTA
1 TTTTA
16060920 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:16063105 original size:28 final size:28
Alignment explanation
Indices: 16063065--16063556 Score: 468
Period size: 28 Copynumber: 17.3 Consensus size: 28
16063055 TTTTGACATT
*
16063065 ATTTGATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
16063093 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
16063116 ATTTAGTTAAAACCCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * *
16063145 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAA-CCTAACTTA
*
16063174 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16063202 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16063230 ATTTAATTAAAAACCCTAACCCTAGCCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* *
16063259 TTTTACA-TGAAAACCCTAACCCTAA-TATA
1 ATTTA-ATTAAAAACCCTAA-CCTAACT-TA
*
16063288 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16063316 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
16063344 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
16063372 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * *
16063401 TTTTACATGAAAACCCTAACCCTAACCTAATTTA
1 ATTTA-AT-TAAA----AACCCTAACCTAACTTA
*
16063435 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
16063463 ATTTAATTTAATTAAA----AACCCTAACATA
1 ATTTAA-TTAA--AAACCCTAA-CCTAACTTA
* * *
16063491 ATTTAGTTAAAAACCTTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
*
16063520 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
16063549 ATTTAATT
1 ATTTAATT
16063557 TAATTAAATA
Statistics
Matches: 398, Mismatches: 38, Indels: 55
0.81 0.08 0.11
Matches are distributed among these distances:
23 19 0.05
25 5 0.01
27 8 0.02
28 188 0.47
29 145 0.36
30 3 0.01
31 6 0.02
32 3 0.01
33 2 0.01
34 11 0.03
35 8 0.02
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.33
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACTTA
Found at i:16063128 original size:22 final size:24
Alignment explanation
Indices: 16063084--16063232 Score: 72
Period size: 23 Copynumber: 5.7 Consensus size: 24
16063074 AAAACCCTAA
*
16063084 CCTAACTTAATTTAATTAAAAA-C
1 CCTAACATAATTTAATTAAAAACC
*
16063107 CCTAACATAATTTAGTT-AAAACC
1 CCTAACATAATTTAATTAAAAACC
* * *
16063130 CCTAACCCTAACCTATTTTACATGAAAACCCTAAC
1 CCTAA--C--A--TAATTTA-ATTAAAA----ACC
*
16063165 CCTAACCTAATTTAATTAAAAA-C
1 CCTAACATAATTTAATTAAAAACC
16063188 CCTAACCTAATTTAATTTAATTAAAAA-C
1 CCTAA-C--A--TAATTTAATTAAAAACC
16063216 CCTAACATAATTTAATT
1 CCTAACATAATTTAATT
16063233 TAATTAAAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 36
0.68 0.07 0.25
Matches are distributed among these distances:
22 4 0.04
23 37 0.38
24 2 0.02
25 2 0.02
27 2 0.02
28 27 0.28
29 12 0.12
30 1 0.01
31 3 0.03
33 1 0.01
35 7 0.07
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (24 bp):
CCTAACATAATTTAATTAAAAACC
Found at i:16063269 original size:114 final size:114
Alignment explanation
Indices: 16063065--16063556 Score: 610
Period size: 114 Copynumber: 4.3 Consensus size: 114
16063055 TTTTGACATT
* * *
16063065 ATTTGATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAAC---A--TAATTTAGTTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTA
* * *
16063125 AAACCCCTAACCCTAACCTATTTTACATGAAAACCCTAACCCTAACCTA
66 AAAACCCTAACCCTAACCTAATTTACATAAAAACCCTAACCCTAACCTA
16063174 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTA
* * * **
16063239 AAAACCCTAACCCTAGCCTATTTTACATGAAAACCCTAACCCTAATATA
66 AAAACCCTAACCCTAACCTAATTTACATAAAAACCCTAACCCTAACCTA
16063288 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTA
**
16063353 AAAACCCTAA-CCTAATTTAATTTA-ATTAAAAACCCTAACCCTAACCTA
66 AAAACCCTAACCCTAACCTAATTTACA-TAAAAACCCTAACCCTAACCTA
* * *
16063401 TTTTACATGAAAACCCTAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAATTTAATT
1 ATTTA-AT-TAAA----AACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAATT
* ** *
16063466 TAATTTAATTAAA----AACCCTAACATAATTTAGTTAAAAACCTTAACCCTAACCTA
60 TAA-TTAA--AAACCCTAACCCTAACCTAATTTACATAAAAACCCTAACCCTAACCTA
**
16063520 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
1 ATTTAATTAAAAACCCTAA-CCTAATTTAATTTAATT
16063557 TAATTAAATA
Statistics
Matches: 340, Mismatches: 25, Indels: 31
0.86 0.06 0.08
Matches are distributed among these distances:
109 46 0.14
112 2 0.01
113 41 0.12
114 147 0.43
115 3 0.01
117 3 0.01
118 4 0.01
119 87 0.26
120 4 0.01
122 3 0.01
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.33
Consensus pattern (114 bp):
ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTA
AAAACCCTAACCCTAACCTAATTTACATAAAAACCCTAACCCTAACCTA
Found at i:16063363 original size:142 final size:141
Alignment explanation
Indices: 16063065--16063553 Score: 588
Period size: 142 Copynumber: 3.4 Consensus size: 141
16063055 TTTTGACATT
* *
16063065 ATTTGATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAA--C--A--TAATTTA-GT
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTACAT
* ** * * **
16063123 TAAAACCCCTAACCCTAACCTATTTTACA-TGAAAACCCTAACCCTAACCTAATTTAATTAAAAA
66 GAAAA-CCCTAACCCTAATATAATTTA-ATTAAAAACCCTAA-CCTAATTTAATTTAATTAAAAA
16063187 CCCTAACCTAATTTA
128 CCCTAA-CTAATTTA
* * * *
16063202 ATTTAATTAAAAACCCTAACATAATTTAATTTAATTAAAAACCCTAACCCTAGCCTATTTTACAT
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTACAT
16063267 GAAAACCCTAACCCTAATATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCC
66 GAAAACCCTAACCCTAATATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCC
16063332 TAACATAATTTA
131 TAAC-TAATTTA
* *
16063344 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTACAT
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTACAT
16063409 GAAAACCCTAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTTAA
66 GAAAACCCTAACCCTAA--T-A--TAATTTAATTAAAAACCCTAACC-----TAATTTAATTTAA
16063474 TTAAAAACCCTAAC--A--TA
121 TTAAAAACCCTAACTAATTTA
* * *
16063491 ATTTAGTTAAAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
16063554 ATTTAATTAA
Statistics
Matches: 312, Mismatches: 20, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
137 44 0.14
139 1 0.00
141 1 0.00
142 114 0.37
143 35 0.11
144 6 0.02
145 1 0.00
147 42 0.13
148 40 0.13
149 1 0.00
152 27 0.09
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.32
Consensus pattern (141 bp):
ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTACAT
GAAAACCCTAACCCTAATATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCC
TAACTAATTTA
Found at i:16063540 original size:23 final size:23
Alignment explanation
Indices: 16063466--16063540 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 23
16063456 TAATTTAATT
*
16063466 TAATTTAATTAAAAACCCTAACA
1 TAATTTAATTAAAAACCCTAACC
*
16063489 TAATTTAGTTAAAAACCTTAACCCTAACC
1 TAATTTAATT--AAA----AACCCTAACC
16063518 TAATTTAATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
16063541 CTAACCTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
23 19 0.44
25 3 0.07
27 3 0.07
29 18 0.42
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (23 bp):
TAATTTAATTAAAAACCCTAACC
Found at i:16063574 original size:119 final size:113
Alignment explanation
Indices: 16063154--16063574 Score: 473
Period size: 119 Copynumber: 3.6 Consensus size: 113
16063144 ATTTTACATG
16063154 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCT
1 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCT
* * * * *
16063219 AACATAATTTAATTTAA-TTAA--AAACCCTAACCCTAGCCTATTTTACA-TG
66 AACCTAATTTAATTTAATTTAATTAAA----AACCCTAACATAATTTA-ATTA
**
16063268 AAAACCCTAACCCTAATATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCT
1 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCT
16063333 AA-C--A--TAATTTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTA
66 AACCTAATTTAATTTAATTTAATTAAAAACCCTAA-C--A--TAATTTAATTA
* *
16063381 AAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACCCTAACCTAATTTAATTTAATTAAA
1 AAAACCCTAACCCTAACCTAATTTA-AT-TAAA----AACCCTAACCTAATTTAATTTAATTAAA
*
16063446 AACCCTAACCTAATTTAATTTAATTTAATTAAAAACCCTAACATAATTTAGTTA
60 AACCCTAACCTAATTTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTA
*
16063500 AAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTTAATTAAA
1 AAAACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAACCTAATTTAATTTAATTAAA
*
16063565 TACCCTAACC
60 AACCCTAACC
16063575 CAGCTCGTAT
Statistics
Matches: 269, Mismatches: 16, Indels: 39
0.83 0.05 0.12
Matches are distributed among these distances:
108 7 0.03
109 9 0.03
110 4 0.01
111 1 0.00
112 4 0.01
113 29 0.11
114 67 0.25
115 3 0.01
118 2 0.01
119 113 0.42
120 1 0.00
121 1 0.00
122 1 0.00
123 1 0.00
124 26 0.10
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (113 bp):
AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCT
AACCTAATTTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTA
Found at i:16064446 original size:125 final size:123
Alignment explanation
Indices: 16064226--16064491 Score: 399
Period size: 125 Copynumber: 2.1 Consensus size: 123
16064216 CCACGAGGGC
*
16064226 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGA
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATATTTCCTACATGACCAACTGTAGCGA
* * * **
16064291 AATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * *
16064349 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAAAATATTTCTTACATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAACGTC--AAAAAAAATATTTCCTACATGACCAACTGTAG
16064413 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
63 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
**
16064474 GCGATTTCCCACTATTTG
1 GCGATTTGACACTATTTG
16064492 ACCAGATACA
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
123 21 0.16
124 7 0.05
125 78 0.61
126 22 0.17
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (123 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATATTTCCTACATGACCAACTGTAGCGA
AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:16072317 original size:18 final size:19
Alignment explanation
Indices: 16072294--16072334 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
16072284 TTTAAATACA
16072294 TTTATTTTAT-TATATCAT
1 TTTATTTTATCTATATCAT
*
16072312 TTTA-TTTATCTATATCCT
1 TTTATTTTATCTATATCAT
16072330 TTTAT
1 TTTAT
16072335 ATATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTATCTATATCAT
Found at i:16072372 original size:3 final size:3
Alignment explanation
Indices: 16072357--16072443 Score: 66
Period size: 3 Copynumber: 29.0 Consensus size: 3
16072347 TTTAAGATTT
* * ** * * * *
16072357 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * **
16072405 TCA TTA TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16072444 AATTGTTTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.54
Consensus pattern (3 bp):
TTA
Found at i:16074170 original size:9 final size:10
Alignment explanation
Indices: 16074156--16074189 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
16074146 TTTTACATAC
16074156 TTTTTTAATTTT
1 TTTTTTAA--TT
16074168 TTTTTTAATT
1 TTTTTTAATT
16074178 TTTTTTAATT
1 TTTTTTAATT
16074188 TT
1 TT
16074190 AAAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.64
12 8 0.36
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:16074171 original size:12 final size:12
Alignment explanation
Indices: 16074156--16074183 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16074146 TTTTACATAC
16074156 TTTTTTAATTTT
1 TTTTTTAATTTT
16074168 TTTTTTAATTTT
1 TTTTTTAATTTT
16074180 TTTT
1 TTTT
16074184 AATTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTAATTTT
Found at i:16074189 original size:41 final size:41
Alignment explanation
Indices: 16074162--16074278 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 41
16074152 ATACTTTTTT
16074162 AATTTTTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAA
1 AATTTTTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAA
**
16074203 AATACTTTTTTTAA--TTTTTTAATTTTAAAATATTTTTAA
1 AATTTTTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAA
**
16074242 AATACTTTTTTTTTAATTTTTTAAAATTTTTAAAATA
1 AAT--TTTTTTTTTAATTTTTTTTAA-TTTTAAAATA
16074279 AAAATGGGCC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
39 28 0.43
41 21 0.32
43 6 0.09
44 10 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (41 bp):
AATTTTTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAA
Found at i:16074200 original size:11 final size:11
Alignment explanation
Indices: 16074186--16074251 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
16074176 TTTTTTTTAA
16074186 TTTTAAAATAT
1 TTTTAAAATAT
16074197 TTTTAAAATACT
1 TTTTAAAATA-T
**
16074209 TTTTTTAAT-T
1 TTTTAAAATAT
16074219 TTTT---A-A-
1 TTTTAAAATAT
16074225 TTTTAAAATAT
1 TTTTAAAATAT
16074236 TTTTAAAATACT
1 TTTTAAAATA-T
16074248 TTTT
1 TTTT
16074252 TTTTAATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
6 4 0.09
7 1 0.02
9 1 0.02
10 6 0.13
11 20 0.44
12 13 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16074250 original size:28 final size:28
Alignment explanation
Indices: 16074197--16074250 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
16074187 TTTAAAATAT
** *
16074197 TTTTAAAATACTTTTTTTAATTTTTTAA
1 TTTTAAAATACTTTTTAAAATCTTTTAA
16074225 TTTTAAAATA-TTTTTAAAATACTTTT
1 TTTTAAAATACTTTTTAAAAT-CTTTT
16074251 TTTTTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATACTTTTTAAAATCTTTTAA
Found at i:16074429 original size:18 final size:17
Alignment explanation
Indices: 16074387--16074420 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16074377 GGGCCTAGGA
16074387 CTCGGGCCAAAATTTTT
1 CTCGGGCCAAAATTTTT
16074404 CTCGGGCCAAAATTTTT
1 CTCGGGCCAAAATTTTT
16074421 TTATGGGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (17 bp):
CTCGGGCCAAAATTTTT
Found at i:16083008 original size:21 final size:21
Alignment explanation
Indices: 16082982--16083092 Score: 131
Period size: 21 Copynumber: 5.3 Consensus size: 21
16082972 ATGTTTTACT
16082982 TTCTGTTCAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* *
16083003 TTCTGTTCAACTCTTAT-GAGT
1 TTCTGTTCAGCTCTT-TCGAGC
16083024 TTCTGTTCAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTTCGAGC
*
16083045 TTCTGTTCAACTCTTAT-GAG-
1 TTCTGTTCAGCTCTT-TCGAGC
*
16083065 TGTCTGTTCAGCTC-TTCAAGC
1 T-TCTGTTCAGCTCTTTCGAGC
16083086 TTCTGTT
1 TTCTGTT
16083093 GGTGTTTTTG
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
19 1 0.01
20 11 0.14
21 63 0.82
22 2 0.03
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTTCGAGC
Found at i:16083029 original size:42 final size:42
Alignment explanation
Indices: 16082981--16083092 Score: 199
Period size: 42 Copynumber: 2.7 Consensus size: 42
16082971 CATGTTTTAC
16082981 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
16083023 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* *
16083065 TGTCTGTTCAGCTC-TTCAAGCTTCTGTT
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTT
16083093 GGTGTTTTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 13 0.19
42 55 0.81
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
Found at i:16088800 original size:39 final size:38
Alignment explanation
Indices: 16088723--16088807 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 38
16088713 TTTTTATGTT
16088723 TTAAATATATTATTTTATTATATAATATAATATAATATA
1 TTAAATATATTATTTTATTATAT-ATATAATATAATATA
* * *
16088762 TTAATTATATTATATTATATTATAT-TATATTATTATATA
1 TTAAATATATTAT-TT-TATTATATATATAATATAATATA
16088801 TTAAATA
1 TTAAATA
16088808 AAGTAAATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 30 0.75
40 2 0.05
41 8 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (38 bp):
TTAAATATATTATTTTATTATATATATAATATAATATA
Found at i:16088801 original size:10 final size:10
Alignment explanation
Indices: 16088727--16088803 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 10
16088717 TATGTTTTAA
16088727 ATATATTATT
1 ATATATTATT
16088737 -T-TATTATAT
1 ATATATTAT-T
* *
16088746 AATATAATATA
1 -ATATATTATT
*
16088757 ATATATTAAT
1 ATATATTATT
16088767 -TATATTA-T
1 ATATATTATT
16088775 ATTATATTA-T
1 A-TATATTATT
16088785 ATTATATTATT
1 A-TATATTATT
16088796 ATATATTA
1 ATATATTA
16088804 AATAAAGTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.13
9 9 0.16
10 31 0.56
11 3 0.05
12 5 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATATTATT
Found at i:16089026 original size:11 final size:11
Alignment explanation
Indices: 16088994--16089026 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
16088984 AAATAAAAAG
16088994 AAAAAGAAACA
1 AAAAAGAAACA
16089005 AAAGAAG-AACA
1 AAA-AAGAAACA
16089016 AAAAAGAAACA
1 AAAAAGAAACA
16089027 GAGAACGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.15
11 14 0.70
12 3 0.15
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAAACA
Found at i:16089411 original size:22 final size:24
Alignment explanation
Indices: 16089383--16089426 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
16089373 TATGGCAAGA
16089383 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
16089405 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
16089427 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:16090025 original size:27 final size:28
Alignment explanation
Indices: 16089967--16090025 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
16089957 ATCTAATGCT
**
16089967 TTATTGGTGTGTTTGGGAGGATATGATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
*
16089995 -TATTGGTGTGTTAAGGAGGAT-TTATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
16090021 TTATT
1 TTATT
16090026 CCGGGTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (28 bp):
TTATTGGTGTGTTAAGGAGGATATGATA
Found at i:16100803 original size:43 final size:43
Alignment explanation
Indices: 16100740--16100865 Score: 150
Period size: 43 Copynumber: 2.9 Consensus size: 43
16100730 AGGACTCCGA
16100740 TATGTGTTTTTGTGTAAGACCACGTCTGGGAC-GTCGGCATCGAC
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACAGT-GGCATCG-C
*
16100784 T-TGTGTTTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTTGTGTAAGACCAC-GTCTGGGACAGTGGCATCGC
* *** *
16100826 TATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACAGTGGCAT
16100866 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.03
43 66 0.92
44 4 0.06
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
TATGTGTTTTTGTGTAAGACCACGTCTGGGACAGTGGCATCGC
Found at i:16101543 original size:14 final size:15
Alignment explanation
Indices: 16101519--16101553 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
16101509 TACTTTAATC
16101519 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
16101534 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
16101549 ATGGT
1 ATGGT
16101554 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:16102267 original size:325 final size:325
Alignment explanation
Indices: 16101677--16102610 Score: 1575
Period size: 325 Copynumber: 2.9 Consensus size: 325
16101667 TAGGTTATGT
* * * * *
16101677 ATTATATATGTATATGCTGTCAATTTTTGATGTA-TAAGGCAGTCCAATTATATATATATATGCT
1 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* * * * *
16101741 GTTAATTTTTTATGTAT-AAGGCAATCCAATTATATATGTATATGCTGTCAATTTTTGACGTATA
66 GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAA-TTTTGATGTACA
* * * *
16101805 AATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATAT
130 AATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTA-TAATGCAGTCCAATTATAT
*
16101870 ATGTATATGCTGTCAATTTTTGATGTATAAGGCAGGCCAATTATATATGTATATGCTGTTAATTT
194 ATGTATATGCTGTCAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTT
16101935 TTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTC
259 TTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTC
16102000 CA
324 CA
16102002 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
16102067 GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
66 GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
* *
16102132 ATGCAGTCCAAATATATATGTATATGTTGTCAATTTTTGATGTATAAGGCAGTCCAATTATATAT
131 ATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTATAATGCAGTCCAATTATATAT
*
16102197 GTATATGCTGTTAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTT
196 GTATATGCTGTCAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTT
*
16102262 GATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCA
261 GATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTCCA
16102327 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
*
16102392 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
66 GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
*
16102457 ATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATA
131 ATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTAT-AATGCAGTCCAATTATATA
* * * *
16102522 TGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTT
195 TGTATATGCTGTCAATTTTTGATGTA-TAAGGCAGTCCAATTATATATGTATATGCTGTTAATTT
*
16102587 TTGATGTATAAATGCAGTCCAATT
259 TTGATGTAT-AAGGCAGTCCAATT
16102611 TTGTAAATAT
Statistics
Matches: 575, Mismatches: 29, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
325 350 0.61
326 137 0.24
327 75 0.13
328 13 0.02
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (325 bp):
ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
ATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTATAATGCAGTCCAATTATATAT
GTATATGCTGTCAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTT
GATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTCCA
Found at i:16102634 original size:47 final size:47
Alignment explanation
Indices: 16101677--16102610 Score: 1472
Period size: 47 Copynumber: 20.1 Consensus size: 47
16101667 TAGGTTATGT
*
16101677 ATTATATATGTATATGCTGTCAATTTTTGATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* * * * *
16101723 ATTATATATATATATGCTGTTAATTTTTTATGTAT-AAGGCAATCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16101769 ATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16101816 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* * *
16101863 AATATATATGTATATGCTGTCAATTTTTGATGTAT-AAGGCAGGCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16101909 ATTATATATGTATATGCTGTTAATTTTTGATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
**
16101955 ATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16102002 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16102049 AATATATATGTATATGCTGTCAATTTTTTATGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16102096 ATTATATATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* * *
16102142 AATATATATGTATATGTTGTCAATTTTTGATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16102188 ATTATATATGTATATGCTGTTAATTTTTGATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16102234 ATTATATATGTATATGCTGTTAATTTTTGATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16102280 ATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16102327 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16102374 AATATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16102421 ATTATATATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16102467 AATATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16102514 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16102561 AATATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
16102608 ATT
1 ATT
16102611 TTGTAAATAT
Statistics
Matches: 820, Mismatches: 63, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
46 375 0.46
47 445 0.54
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (47 bp):
ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
Found at i:16102673 original size:140 final size:141
Alignment explanation
Indices: 16101677--16102610 Score: 1463
Period size: 140 Copynumber: 6.7 Consensus size: 141
16101667 TAGGTTATGT
* * *
16101677 ATTATATATGTATATGCTGTCAATTTTTGATGTA-TAAGGCAGTCCAATTATATATATATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCT
* * * * *
16101741 GTTAATTTTTTATGTAT-AAGGCAATCCAATTATATATGTATATGCTGTCAATTTTTGACGTATA
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
16101805 AATGCAGTCCA
131 AATGCAGTCCA
* *
16101816 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCT
* * *
16101881 GTCAATTTTTGATGTAT-AAGGCAGGCCAATTATATATGTATATGCTGTTAATTTTTGATGTAT-
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
*
16101944 AAGGCAGTCCA
131 AATGCAGTCCA
** *
16101955 ATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTCCAATTATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCT
* * * *
16102020 GTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTTATGTATA
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
16102085 AATGCAGTCCA
131 AATGCAGTCCA
* *
16102096 ATTATATATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCAAATATATATGTATATGTT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCT
* *
16102160 GTCAATTTTTGATGTAT-AAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTTGATGTAT-
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
*
16102223 AAGGCAGTCCA
131 AATGCAGTCCA
* * *
16102234 ATTATATATGTATATGCTGTTAATTTTTGATGTA-TAAGGCAGTCCAATTATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCT
* * *
16102298 GTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTACA
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
16102363 AATGCAGTCCA
131 AATGCAGTCCA
* *
16102374 AATATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCT
* * *
16102439 GTCAA-TTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGACGTATA
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
16102503 AATGCAGTCCA
131 AATGCAGTCCA
*
16102514 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCT
16102579 GTCAATTTTTGATGTATAAATGCAGTCCAATT
66 GTCAATTTTTGATGTATAAATGCAGTCCAATT
16102611 TTGTAAATAT
Statistics
Matches: 724, Mismatches: 63, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
138 74 0.10
139 212 0.29
140 348 0.48
141 90 0.12
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (141 bp):
ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCT
GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
AATGCAGTCCA
Found at i:16102968 original size:12 final size:12
Alignment explanation
Indices: 16102951--16102975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16102941 GTTATCTGTT
16102951 TATATATATATG
1 TATATATATATG
16102963 TATATATATATG
1 TATATATATATG
16102975 T
1 T
16102976 GGAATGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:16103343 original size:17 final size:17
Alignment explanation
Indices: 16103321--16103359 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
16103311 AAATTATTGG
16103321 AAGCTCTGACGGGTTGA
1 AAGCTCTGACGGGTTGA
*
16103338 AAGCTCTGATGGGTTGA
1 AAGCTCTGACGGGTTGA
16103355 AAGCT
1 AAGCT
16103360 TGTCGGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (17 bp):
AAGCTCTGACGGGTTGA
Found at i:16105115 original size:12 final size:11
Alignment explanation
Indices: 16105088--16105125 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
16105078 GAAAATAGTC
16105088 AAAATTAATA-
1 AAAATTAATAT
16105098 AAAATTAACTAT
1 AAAATTAA-TAT
16105110 AAAATTAAT-T
1 AAAATTAATAT
16105120 AAAATT
1 AAAATT
16105126 CATCATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:16107410 original size:40 final size:40
Alignment explanation
Indices: 16107289--16107428 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 40
16107279 GACTTCGAGT
* *
16107289 CGATGAGACACTTGGTGTC-AATTATTTACTTTGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTA-TTACTTTGGATT-ATC
* * * * *
16107330 TGATGAGGCACTGGGTG-CCAA-T-TTACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* *
16107367 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* * *
16107407 CGATAAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
16107429 CTAGTGTGTT
Statistics
Matches: 79, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 16 0.20
38 14 0.18
39 1 0.01
40 32 0.41
41 16 0.20
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
Found at i:16110999 original size:26 final size:26
Alignment explanation
Indices: 16110963--16111016 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16110953 ACATATTTAC
16110963 TTAATTCTCCCATTTTTGTCTTATGT
1 TTAATTCTCCCATTTTTGTCTTATGT
16110989 TTAATTCTCCCATTTTTGTCTTATGT
1 TTAATTCTCCCATTTTTGTCTTATGT
16111015 TT
1 TT
16111017 TTCTATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.07, T:0.59
Consensus pattern (26 bp):
TTAATTCTCCCATTTTTGTCTTATGT
Found at i:16116336 original size:3 final size:3
Alignment explanation
Indices: 16116330--16116357 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16116320 ATGAACTTTA
16116330 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
16116358 TCATATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:16116976 original size:59 final size:59
Alignment explanation
Indices: 16116908--16117022 Score: 230
Period size: 59 Copynumber: 1.9 Consensus size: 59
16116898 ATTTATTAAC
16116908 ATTGTTTGTGAACATGTTCAATTATATGTTCATGAACGTGTTCGTTTAATGTTCGTTTA
1 ATTGTTTGTGAACATGTTCAATTATATGTTCATGAACGTGTTCGTTTAATGTTCGTTTA
16116967 ATTGTTTGTGAACATGTTCAATTATATGTTCATGAACGTGTTCGTTTAATGTTCGT
1 ATTGTTTGTGAACATGTTCAATTATATGTTCATGAACGTGTTCGTTTAATGTTCGT
16117023 AAATATTAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.47
Consensus pattern (59 bp):
ATTGTTTGTGAACATGTTCAATTATATGTTCATGAACGTGTTCGTTTAATGTTCGTTTA
Found at i:16116984 original size:24 final size:25
Alignment explanation
Indices: 16116956--16117016 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
16116946 TGTTCGTTTA
**
16116956 ATGTTCGTTTAAT-TGTTTGTGAAC
1 ATGTTCGTTTAATATGTTCATGAAC
**
16116980 ATGTTCAATT-ATATGTTCATGAAC
1 ATGTTCGTTTAATATGTTCATGAAC
*
16117004 GTGTTCGTTTAAT
1 ATGTTCGTTTAAT
16117017 GTTCGTAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 2 0.07
24 24 0.86
25 2 0.07
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.48
Consensus pattern (25 bp):
ATGTTCGTTTAATATGTTCATGAAC
Found at i:16120610 original size:25 final size:25
Alignment explanation
Indices: 16120582--16120631 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
16120572 ATATAGTTTT
16120582 TATATTAT-TTATAAATGTTATAATA
1 TATATTATATTAT-AATGTTATAATA
16120607 TATATTATATTATAATGTTATAATA
1 TATATTATATTATAATGTTATAATA
16120632 AAACAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TATATTATATTATAATGTTATAATA
Found at i:16121110 original size:43 final size:43
Alignment explanation
Indices: 16121036--16121165 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 43
16121026 ACATAGGATT
*
16121036 TCGATATGTGTTTTCGTGTAAGAC-CTCGTCTGGGACGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACACT-GTCTGGGACGTTGGCA
16121079 TCGACT-TGTGTTTACGTGTAAGACACTGTCTGGGACAG-TGGCA
1 TCGA-TATGTGTTTACGTGTAAGACACTGTCTGGGAC-GTTGGCA
** * * *
16121122 TCGATATGTGAGTACATGTAAGACCAC-GTCCGGGATGTTGGCA
1 TCGATATGTGTTTACGTGTAAGA-CACTGTCTGGGACGTTGGCA
16121165 T
1 T
16121166 TGTACGAGCC
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.03
43 66 0.88
44 7 0.09
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
TCGATATGTGTTTACGTGTAAGACACTGTCTGGGACGTTGGCA
Found at i:16124952 original size:82 final size:82
Alignment explanation
Indices: 16124770--16124953 Score: 287
Period size: 82 Copynumber: 2.2 Consensus size: 82
16124760 ACCGACAATT
* * *
16124770 AGCCTGTTAGACGTAAAGCCCGAAATATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCCAAAATATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
*
16124835 ACATTTCACCGGCATCA
66 ACATTTCACCAGCATCA
* * **
16124852 AGCCTGCTAGACATAAAGTCCAAAATATTTCACTGGCATCAAGCCTGCTAGATGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCCAAAATATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
*
16124917 ACATTTCACCAGCATTA
66 ACATTTCACCAGCATCA
16124934 AGCCTGCTAGACGTAAAGTC
1 AGCCTGCTAGACGTAAAGTC
16124954 TGAATCATCT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 92 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (82 bp):
AGCCTGCTAGACGTAAAGTCCAAAATATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
ACATTTCACCAGCATCA
Found at i:16124954 original size:41 final size:41
Alignment explanation
Indices: 16124770--16124957 Score: 259
Period size: 41 Copynumber: 4.6 Consensus size: 41
16124760 ACCGACAATT
* * * *
16124770 AGCCTGTTAGACGTAAAGCCCGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
16124811 AGCCTGCTAGACATAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* ** * *
16124852 AGCCTGCTAGACATAAAGTCCAAAATATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* * *
16124893 AGCCTGCTAGATGTAAAGTCTGAAACATTTCACCAGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
16124934 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
16124958 TCATCTTACT
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:16128653 original size:23 final size:23
Alignment explanation
Indices: 16128638--16128719 Score: 78
Period size: 23 Copynumber: 3.5 Consensus size: 23
16128628 TTAATGTTCA
16128638 CGAACATGTTCATTTAACTTAAT
1 CGAACATGTTCATTTAACTTAAT
* *
16128661 CGAACATGTTCA-TGAACATTAAA
1 CGAACATGTTCATTTAAC-TTAAT
* *
16128684 CAAACATGTTCA-TGAACATATAAT
1 CGAACATGTTCATTTAAC-T-TAAT
*
16128708 TGAACATGTTCA
1 CGAACATGTTCA
16128720 CGAATAATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.08
23 34 0.67
24 13 0.25
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (23 bp):
CGAACATGTTCATTTAACTTAAT
Found at i:16128810 original size:23 final size:23
Alignment explanation
Indices: 16128780--16128838 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
16128770 ACACTTATAC
*
16128780 ACAAACATGTTCATTTAAC-TTAA
1 ACAAACATGTTCA-TGAACATTAA
* *
16128803 TCGAACATGTTCATGAACATTAA
1 ACAAACATGTTCATGAACATTAA
16128826 ACAAACATGTTCA
1 ACAAACATGTTCA
16128839 CGAATAATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (23 bp):
ACAAACATGTTCATGAACATTAA
Found at i:16128852 original size:119 final size:121
Alignment explanation
Indices: 16128663--16128912 Score: 416
Period size: 119 Copynumber: 2.1 Consensus size: 121
16128653 AACTTAATCG
***
16128663 AACATGTTCA-TGAACATTAAACAAACATGTTCATGAACATATAATTGAACATGTTCACGAATAA
1 AACATGTTCATTGAACATTAAACAAACATGTTCATGAACATATAAACAAACATGTTCACGAATAA
16128727 TGTTAATAAATAATAAACAAACAAACAATAAATACATGCGTACACACTTATACACA
66 TGTTAATAAATAATAAACAAACAAACAATAAATACATGCGTACACACTTATACACA
* * *
16128783 AACATGTTCATTTAAC-TTAATCGAACATGTTCATGAACAT-TAAACAAACATGTTCACGAATAA
1 AACATGTTCATTGAACATTAAACAAACATGTTCATGAACATATAAACAAACATGTTCACGAATAA
*
16128846 TGTTAATAAATAATAAACAAACAAACAATAAATACATGCGTACACACTTATACACG
66 TGTTAATAAATAATAAACAAACAAACAATAAATACATGCGTACACACTTATACACA
16128902 AACATGTTCAT
1 AACATGTTCAT
16128913 CGAATGCTCT
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
119 86 0.70
120 32 0.26
121 4 0.03
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (121 bp):
AACATGTTCATTGAACATTAAACAAACATGTTCATGAACATATAAACAAACATGTTCACGAATAA
TGTTAATAAATAATAAACAAACAAACAATAAATACATGCGTACACACTTATACACA
Found at i:16136749 original size:20 final size:21
Alignment explanation
Indices: 16136715--16136755 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
16136705 GACCGAAAGG
16136715 CTGTTCGGATCTCTG-CACAT
1 CTGTTCGGATCTCTGTCACAT
* *
16136735 CTGTTCGGTTTTCTGTCACAT
1 CTGTTCGGATCTCTGTCACAT
16136756 TTTATATAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.41
Consensus pattern (21 bp):
CTGTTCGGATCTCTGTCACAT
Found at i:16146441 original size:15 final size:15
Alignment explanation
Indices: 16146421--16146451 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16146411 CCAACCTTCA
*
16146421 AATTTTAGGTCAATT
1 AATTTTACGTCAATT
16146436 AATTTTACGTCAATT
1 AATTTTACGTCAATT
16146451 A
1 A
16146452 TACATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (15 bp):
AATTTTACGTCAATT
Found at i:16150269 original size:88 final size:89
Alignment explanation
Indices: 16150099--16150303 Score: 279
Period size: 88 Copynumber: 2.3 Consensus size: 89
16150089 TTGATTTTAG
* * *
16150099 TAAATTCATATAATACCATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAATA-AAATTTATTATCAAGAATTTTATGAAATTATATAT--CTATTAAATTAT
* *
16150164 ATTTAATATTAATTATTTTAAATTGTA
63 ATGTAATATTAATTATTTTAAATTATA
*
16150191 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATAT-TATTAAATTATATG
1 TAAATTCATATAATAAAATTTATTATCAAGAATTTTATGAAATTATATATCTATTAAATTATATG
16150255 TAATAATT-ATTATTTTAAATTATA
66 TAAT-ATTAATTATTTTAAATTATA
* * *
16150279 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAATAAAATTTATTA
16150304 GTTATAATTA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
88 53 0.52
89 3 0.03
91 32 0.31
92 14 0.14
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (89 bp):
TAAATTCATATAATAAAATTTATTATCAAGAATTTTATGAAATTATATATCTATTAAATTATATG
TAATATTAATTATTTTAAATTATA
Found at i:16150440 original size:66 final size:65
Alignment explanation
Indices: 16150370--16150564 Score: 191
Period size: 66 Copynumber: 3.1 Consensus size: 65
16150360 TATTATTTCA
16150370 AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAA
1 AATTTTATTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAA
16150435 G
65 G
* * * * *
16150436 AATTTTA--TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TTAATAATAATTATGT--
1 AATTTTATTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTAT-TAA
*
16150488 T
65 G
* *
16150489 AATTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTA
1 AATTT-TATTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTA
16150554 AG
64 AG
16150556 AATTTTATT
1 AATTTTATT
16150565 AAATTATATA
Statistics
Matches: 99, Mismatches: 14, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
53 5 0.05
54 14 0.14
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.10
60 7 0.07
61 10 0.10
62 1 0.01
63 3 0.03
64 4 0.04
65 5 0.05
66 22 0.22
67 5 0.05
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (65 bp):
AATTTTATTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
Found at i:16150476 original size:15 final size:15
Alignment explanation
Indices: 16150441--16150492 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16150431 TTAAGAATTT
*
16150441 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16150455 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16150469 TATTTAATAATAAT-
1 TATTTAATTATAATA
16150483 TATGTTAATT
1 TAT-TTAATT
16150493 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16150477 original size:54 final size:54
Alignment explanation
Indices: 16150419--16150605 Score: 155
Period size: 54 Copynumber: 3.2 Consensus size: 54
16150409 ATTCATATAA
*
16150419 TAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATT
1 TAATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATT
* * *
16150473 TAATAATAATTATGT--TAATTTATATTTTACAGTATCATATATTATGGTTTGAGTA-AATTCAT
1 TAATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTATAA-T-AT
*
16150535 ATAA
52 AT-T
* *
16150539 GAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATT
1 TAATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATT
16150593 TAATAATAATTAT
1 TAATAATAATTAT
16150606 GTTTAAATAT
Statistics
Matches: 102, Mismatches: 13, Indels: 36
0.68 0.09 0.24
Matches are distributed among these distances:
53 5 0.05
54 25 0.25
55 5 0.05
56 10 0.10
57 3 0.03
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 3 0.03
64 10 0.10
65 5 0.05
66 13 0.13
67 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (54 bp):
TAATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATT
Found at i:16150536 original size:120 final size:120
Alignment explanation
Indices: 16150319--16150613 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
16150309 AATTATTTTA
* *
16150319 AATTTTATTAAATCATATATTTTAATTAAAATATATTT-AT-AT-ATTAT-TTCAAATTTTATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTATTT
* *
16150380 TATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
16150436 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TATTT
*
16150500 TACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
16150556 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
16150614 ATGATTAAAT
Statistics
Matches: 166, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
117 36 0.22
118 2 0.01
119 7 0.04
120 114 0.69
121 4 0.02
122 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:16150561 original size:61 final size:59
Alignment explanation
Indices: 16150376--16150562 Score: 161
Period size: 61 Copynumber: 3.1 Consensus size: 59
16150366 TTCAAATTTT
16150376 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAGA
1 ATTTTA-AGTATCATATATTATG-TTTGAGTAAATTCATATAATAATATTAATTATTAAGA
* * * * * * * *
16150437 ATTTT-ATTA-AAT-TATATAT-TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-T
1 ATTTTAAGTATCATATAT-TATGTTTGAGTA-AAT-TCATATAATAAT-ATTA-ATT-ATTAAGA
*
16150496 ATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 ATTTTA-AGTATCATATATTAT-GTTTGAGTAAATTCATATAATAATATTAATTATTAAGA
16150557 ATTTTA
1 ATTTTA
16150563 TTAAATTATA
Statistics
Matches: 95, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 6 0.06
57 15 0.16
58 10 0.11
59 10 0.11
60 8 0.08
61 16 0.17
62 10 0.11
63 14 0.15
64 6 0.06
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (59 bp):
ATTTTAAGTATCATATATTATGTTTGAGTAAATTCATATAATAATATTAATTATTAAGA
Found at i:16150591 original size:16 final size:16
Alignment explanation
Indices: 16150570--16150611 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16150560 TTATTAAATT
*
16150570 ATATATTTTAATTATA
1 ATATATTTTAATAATA
16150586 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
16150601 AT-TATGTTTAA
1 ATATAT-TTTAA
16150612 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:16150596 original size:15 final size:15
Alignment explanation
Indices: 16150561--16150602 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16150551 TTAAGAATTT
*
16150561 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16150575 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16150589 TATTTAATAATAAT
1 TATTTAATTATAAT
16150603 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16150705 original size:147 final size:147
Alignment explanation
Indices: 16150545--16150817 Score: 503
Period size: 147 Copynumber: 1.9 Consensus size: 147
16150535 ATAAGAATAT
* *
16150545 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
*
16150610 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAA-AATAATTT
66 AAATATGATTAAATAATTTATTATTGATATTAATAATCTTATTAAAATTT-AATAACAATAATTT
16150674 ACCAAAATAAATTTCTGC
130 ACCAAAATAAATTTCTGC
16150692 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
16150757 AAATATGATTAAATAATTTATTATTGATATTAATAATCTTATTAAAATTTAATAACAATAA
66 AAATATGATTAAATAATTTATTATTGATATTAATAATCTTATTAAAATTTAATAACAATAA
16150818 CAATAATCAT
Statistics
Matches: 122, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
146 5 0.04
147 117 0.96
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
AAATATGATTAAATAATTTATTATTGATATTAATAATCTTATTAAAATTTAATAACAATAATTTA
CCAAAATAAATTTCTGC
Found at i:16150732 original size:18 final size:17
Alignment explanation
Indices: 16150704--16150738 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16150694 ATTATTAAGA
*
16150704 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16150721 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16150739 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16150947 original size:44 final size:45
Alignment explanation
Indices: 16150898--16150992 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
16150888 TTACACCTCT
*
16150898 ATTACATTCAACCAAACA-TAGGA-TTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGT-GGATTTACTATTACACCTCTATTCC
* *
16150942 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGTGGATTTACTATTACACCTCTATTCC
16150987 ATTACA
1 ATTACA
16150993 CCTCTATTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 20 0.43
45 26 0.57
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGTGGATTTACTATTACACCTCTATTCC
Found at i:16150992 original size:16 final size:16
Alignment explanation
Indices: 16150971--16151040 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
16150961 TTGATTTGCT
*
16150971 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
16150987 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
16151003 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
16151019 AATACACTTCTAATCC
1 ATTACACCTCTAATCC
*
16151035 AATACA
1 ATTACA
16151041 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.33, C:0.34, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:16153370 original size:19 final size:19
Alignment explanation
Indices: 16153348--16153384 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16153338 TCTCAAAAAT
*
16153348 TGACCAAATTACCATTTTA
1 TGACAAAATTACCATTTTA
16153367 TGACAAAATTACCATTTT
1 TGACAAAATTACCATTTT
16153385 GCCCCCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (19 bp):
TGACAAAATTACCATTTTA
Found at i:16155961 original size:27 final size:27
Alignment explanation
Indices: 16155928--16155984 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
16155918 AAGTGCCAAA
*
16155928 ATTAAGGTTGATGAAAGATTGAGCATC
1 ATTAAGGTTGATGAAAGATGGAGCATC
16155955 ATTAAGGTTGATGAAAGATGGAGCATC
1 ATTAAGGTTGATGAAAGATGGAGCATC
16155982 ATT
1 ATT
16155985 GTCAGTGGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (27 bp):
ATTAAGGTTGATGAAAGATGGAGCATC
Found at i:16168929 original size:18 final size:17
Alignment explanation
Indices: 16168896--16168934 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16168886 TTGTATAAAT
16168896 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
16168914 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
16168931 TGTG
1 TGTG
16168935 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:16169187 original size:23 final size:23
Alignment explanation
Indices: 16169160--16169257 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
16169150 AGTGTTATTG
16169160 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
16169183 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
16169206 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16169228 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16169251 ATCAGTG
1 ATCAGTG
16169258 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16169226 original size:45 final size:45
Alignment explanation
Indices: 16169162--16169250 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
16169152 TGTTATTGAT
* *
16169162 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
16169207 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
16169251 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:16176292 original size:18 final size:17
Alignment explanation
Indices: 16176259--16176297 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16176249 TTGTATAAAT
16176259 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
16176277 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
16176294 TGTG
1 TGTG
16176298 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:16176549 original size:23 final size:23
Alignment explanation
Indices: 16176522--16176619 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
16176512 AGTGTTATTG
16176522 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
16176545 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
16176568 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16176590 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16176613 ATCAGTG
1 ATCAGTG
16176620 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16176588 original size:45 final size:45
Alignment explanation
Indices: 16176524--16176612 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
16176514 TGTTATTGAT
* *
16176524 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
16176569 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
16176613 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:16179738 original size:24 final size:21
Alignment explanation
Indices: 16179678--16179745 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
16179668 CAGAAGGAGT
*
16179678 GAGTAGTACTTCGCAGCAGGTG
1 GAGT-GTACTCCGCAGCAGGTG
16179700 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
*
16179721 GAGTGTACTCCGCAGCAGGTA
1 GAGTGTACTCCGCAGCAGGTG
16179742 GAGT
1 GAGT
16179746 TTGAGCAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 40 0.91
22 4 0.09
ACGTcount: A:0.22, C:0.21, G:0.37, T:0.21
Consensus pattern (21 bp):
GAGTGTACTCCGCAGCAGGTG
Found at i:16188036 original size:5 final size:5
Alignment explanation
Indices: 16188028--16188052 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16188018 TGCTGTACTG
16188028 TGCTT TGCTT TGCTT TGCTT TGCTT
1 TGCTT TGCTT TGCTT TGCTT TGCTT
16188053 GGATGTGCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.20, T:0.60
Consensus pattern (5 bp):
TGCTT
Found at i:16197256 original size:5 final size:5
Alignment explanation
Indices: 16197246--16197273 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16197236 AAAGGCCAGT
16197246 TGAGG TGAGG TGAGG TGAGG TGAGG TGA
1 TGAGG TGAGG TGAGG TGAGG TGAGG TGA
16197274 CAGTCACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.57, T:0.21
Consensus pattern (5 bp):
TGAGG
Found at i:16202785 original size:21 final size:21
Alignment explanation
Indices: 16202759--16202799 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16202749 CAAATAGATA
16202759 TCAATCTCATCT-TTACAGTAT
1 TCAATCTCAT-TGTTACAGTAT
16202780 TCAATCTCATTGTTACAGTA
1 TCAATCTCATTGTTACAGTA
16202800 AATAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (21 bp):
TCAATCTCATTGTTACAGTAT
Found at i:16212198 original size:59 final size:59
Alignment explanation
Indices: 16212088--16212243 Score: 156
Period size: 59 Copynumber: 2.6 Consensus size: 59
16212078 AACAATTCAA
* * * *
16212088 TATAATTGGATGACTAAAAAAGAAAAAATTA-AATAGTTAAGTGATCGTTTTGCAACCTTT
1 TATAGTTGGATGACTAAAAAAGAAAAAA--ACAATAATTAAGTAATCATTTTGCAACCTTT
* * **
16212148 TATAGTTGGATGACTAAAAAAGAAAAAAACTATAATTAAGTAA-CTATTTTGTAATTTTT
1 TATAGTTGGATGACTAAAAAAGAAAAAAACAATAATTAAGTAATC-ATTTTGCAACCTTT
* * *
16212207 TATAGTT-GAGTGACAAAAAAAGAAAATAACCATAATT
1 TATAGTTGGA-TGACTAAAAAAGAAAAAAACAATAATT
16212244 GGGTAAGTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
58 4 0.05
59 51 0.62
60 27 0.33
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (59 bp):
TATAGTTGGATGACTAAAAAAGAAAAAAACAATAATTAAGTAATCATTTTGCAACCTTT
Found at i:16218931 original size:61 final size:61
Alignment explanation
Indices: 16218836--16218959 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
16218826 CTATCTACTT
16218836 TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
1 TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
16218897 TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
1 TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
16218958 TT
1 TT
16218960 CCTATTCATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (61 bp):
TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
Found at i:16220939 original size:99 final size:99
Alignment explanation
Indices: 16220804--16220984 Score: 281
Period size: 99 Copynumber: 1.8 Consensus size: 99
16220794 TTTATTTTGA
* * **
16220804 TTTATGTTTCACTATATATGGACTTTGTGTAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
1 TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
*
16220869 GATTAATTTTGATTATAGTTGTGATTGTACTTGG
66 GATTAATTCTGATTATAGTTGTGATTGTACTTGG
* * * *
16220903 TTTATGTTGCACTATATATAGACTTTGCATATGTTTTGATTATCAATCTAATCATGTTTTGTAAT
1 TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
16220968 GATTAATTCTGATTATA
66 GATTAATTCTGATTATA
16220985 TATATTCAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (99 bp):
TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
GATTAATTCTGATTATAGTTGTGATTGTACTTGG
Found at i:16232803 original size:2 final size:2
Alignment explanation
Indices: 16232798--16232822 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16232788 ACCTCTCTGT
16232798 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16232823 CACATTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16238896 original size:46 final size:45
Alignment explanation
Indices: 16238789--16238904 Score: 173
Period size: 46 Copynumber: 2.6 Consensus size: 45
16238779 TACATATGAT
* *
16238789 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAA
*
16238832 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAA
*
16238878 CACTTGTCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
16238905 AGTACTCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 10 0.15
44 4 0.06
45 20 0.31
46 31 0.48
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAA
Found at i:16244707 original size:20 final size:20
Alignment explanation
Indices: 16244682--16244722 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16244672 TTAAGCTACA
*
16244682 AGTTTTAAATTAAAAAAATT
1 AGTTTTAAAATAAAAAAATT
*
16244702 AGTTTTAAAATATAAAAATT
1 AGTTTTAAAATAAAAAAATT
16244722 A
1 A
16244723 AATCTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
AGTTTTAAAATAAAAAAATT
Found at i:16248865 original size:75 final size:75
Alignment explanation
Indices: 16248737--16248880 Score: 175
Period size: 75 Copynumber: 1.9 Consensus size: 75
16248727 GCAATCACCA
* * * *
16248737 TTGGTTCATCCAACTGGAGCTGGGCTCACAATTATTATCGTCGGTATACCCGACTAGCACTGGGT
1 TTGGTTCATCCAACTAGAGCTAGGCTCACAATTATTACCGTCGGTATACCCGACTAGCACTGGGC
16248802 GCAAATATTG
66 GCAAATATTG
* * * * *
16248812 TTGGTTTATCCAACTAGAGCTAGGCTCAC-CTTCATTACCGTCAGT-TAATCCGACTAGCGCTGG
1 TTGGTTCATCCAACTAGAGCTAGGCTCACAATT-ATTACCGTCGGTAT-ACCCGACTAGCACTGG
16248875 GCGCAA
64 GCGCAA
16248881 CCTTTCTGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
74 3 0.05
75 55 0.95
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (75 bp):
TTGGTTCATCCAACTAGAGCTAGGCTCACAATTATTACCGTCGGTATACCCGACTAGCACTGGGC
GCAAATATTG
Found at i:16249631 original size:30 final size:30
Alignment explanation
Indices: 16249596--16249692 Score: 185
Period size: 30 Copynumber: 3.2 Consensus size: 30
16249586 GTATCTCAGC
16249596 CGTGTGTGACACACGGCCAGGTAACACGGT
1 CGTGTGTGACACACGGCCAGGTAACACGGT
16249626 CGTGTGTGACACACGGCCAGGTAACACGGT
1 CGTGTGTGACACACGGCCAGGTAACACGGT
16249656 CGTGTGTGACACACGGCCAGGTAACACGGT
1 CGTGTGTGACACACGGCCAGGTAACACGGT
*
16249686 TGTGTGT
1 CGTGTGT
16249693 CCCCTGTAAC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.20
Consensus pattern (30 bp):
CGTGTGTGACACACGGCCAGGTAACACGGT
Found at i:16249641 original size:17 final size:17
Alignment explanation
Indices: 16249619--16249671 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
16249609 CGGCCAGGTA
16249619 ACACGGTCGTGTGTGAC
1 ACACGGTCGTGTGTGAC
**
16249636 ACACGG-CCAG-GT-A-
1 ACACGGTCGTGTGTGAC
16249649 ACACGGTCGTGTGTGAC
1 ACACGGTCGTGTGTGAC
16249666 ACACGG
1 ACACGG
16249672 CCAGGTAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 4 0.14
16 3 0.11
17 12 0.43
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (17 bp):
ACACGGTCGTGTGTGAC
Found at i:16249682 original size:15 final size:14
Alignment explanation
Indices: 16249604--16249684 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 14
16249594 GCCGTGTGTG
16249604 ACACACGGCCAGGT
1 ACACACGGCCAGGT
**
16249618 A-ACACGGTCGTGTGT
1 ACACACGG-CCAG-GT
16249633 GACACACGGCCAGGT
1 -ACACACGGCCAGGT
**
16249648 A-ACACGGTCGTGTGT
1 ACACACGG-CCAG-GT
16249663 GACACACGGCCAGGT
1 -ACACACGGCCAGGT
16249678 A-ACACGG
1 ACACACGG
16249685 TTGTGTGTCC
Statistics
Matches: 51, Mismatches: 8, Indels: 17
0.67 0.11 0.22
Matches are distributed among these distances:
13 18 0.35
14 7 0.14
15 8 0.16
16 6 0.12
17 12 0.24
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.14
Consensus pattern (14 bp):
ACACACGGCCAGGT
Found at i:16250618 original size:15 final size:15
Alignment explanation
Indices: 16250581--16250626 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
16250571 TTATTGTATA
*
16250581 TTATTTTTAAATAT-
1 TTATTTTTAAATTTG
16250595 TTATATTTTAAATTTG
1 TTAT-TTTTAAATTTG
*
16250611 TTATTTTTATATTTG
1 TTATTTTTAAATTTG
16250626 T
1 T
16250627 ACATGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TTATTTTTAAATTTG
Done.