Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 58 of 427
Found at i:14217149 original size:11 final size:12
Alignment explanation
Indices: 14217120--14217149 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14217110 TGCTGGTATC
14217120 CCTTCAAAGGTT
1 CCTTCAAAGGTT
14217132 CCTTCAAAGGTT
1 CCTTCAAAGGTT
14217144 -CTTCAA
1 CCTTCAA
14217150 GACGGCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (12 bp):
CCTTCAAAGGTT
Found at i:14222612 original size:2 final size:2
Alignment explanation
Indices: 14222605--14222630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14222595 TAGGGTAAAA
14222605 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14222631 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14223855 original size:44 final size:45
Alignment explanation
Indices: 14223765--14223893 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
14223755 GACAGAACGA
*
14223765 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
14223811 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
14223855 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
14223894 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:14225344 original size:11 final size:11
Alignment explanation
Indices: 14225307--14225353 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
14225297 TTGGTCGGAC
14225307 TTGTACTTATA
1 TTGTACTTATA
*
14225318 AT-TACATTATA
1 TTGTAC-TTATA
14225329 CTTGTACTTATA
1 -TTGTACTTATA
*
14225341 TTGTATTTATA
1 TTGTACTTATA
14225352 TT
1 TT
14225354 TTTAGAAGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 3 0.10
11 18 0.60
12 6 0.20
13 3 0.10
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (11 bp):
TTGTACTTATA
Found at i:14227840 original size:24 final size:23
Alignment explanation
Indices: 14227795--14227840 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14227785 TATTTAATTT
*
14227795 AAATTTAATTATAAAAATATATA
1 AAATTTAATTATAAAAAAATATA
14227818 AAATATTAA-TATAAAAACAATAT
1 AAAT-TTAATTATAAAAA-AATAT
14227841 CTTCAATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATTTAATTATAAAAAAATATA
Found at i:14233518 original size:13 final size:14
Alignment explanation
Indices: 14233487--14233519 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14233477 GTGCATCTAC
14233487 ATTTTTTTTCCTTT
1 ATTTTTTTTCCTTT
*
14233501 CTTTTTTTTCC-TT
1 ATTTTTTTTCCTTT
14233514 ATTTTT
1 ATTTTT
14233520 GAAAATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTTTCCTTT
Found at i:14234125 original size:20 final size:19
Alignment explanation
Indices: 14234093--14234130 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
14234083 TCTTTTGGTA
14234093 CTATTATTATTAATCTATTG
1 CTATTATTATTAA-CTATTG
14234113 CTATT-TTATTTAACTATT
1 CTATTATTA-TTAACTATT
14234131 TTAGGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
CTATTATTATTAACTATTG
Found at i:14238080 original size:47 final size:47
Alignment explanation
Indices: 14238025--14238116 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
14238015 GCTTTGGGTG
14238025 TTAGGGCAAGACCGTATATGTAATTCATTTTATGTAAAAGATTTTGT
1 TTAGGGCAAGACCGTATATGTAATTCATTTTATGTAAAAGATTTTGT
14238072 TTAGGGCAAGACCGTATATGTAATTCATTTTATGTAAAAGATTTT
1 TTAGGGCAAGACCGTATATGTAATTCATTTTATGTAAAAGATTTT
14238117 ATTTTTCAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (47 bp):
TTAGGGCAAGACCGTATATGTAATTCATTTTATGTAAAAGATTTTGT
Found at i:14246390 original size:133 final size:133
Alignment explanation
Indices: 14246150--14246773 Score: 820
Period size: 133 Copynumber: 4.7 Consensus size: 133
14246140 GATTACAGAT
* * * *
14246150 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGTTAAATATAGCAGATCTTATCTTCGC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCT--ATAAACCAGATCTTATCTTCAC
* * * *
14246215 TGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
64 TGAGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCAATGGAGCAGA
14246280 TTCCA
129 TTCCA
*
14246285 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGAAGCAGGCTATAAACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTATAAACCAGATCTTATCTTCACTG
* *
14246350 AGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCAATGGAGCAGATT
14246415 CCA
131 CCA
*
14246418 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA-AATACCAGATCTTATCTTCACT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTATAA-ACCAGATCTTATCTTCACT
* * *
14246482 GAGCAGAAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCAGCAATGGAGCAGAT
65 GAGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCAATGGAGCAGAT
14246547 TCCA
130 TCCA
* * * * * * *
14246551 ATCACCAGCCTTATCTTCACTGAGTAGGAGTGGATCAGACTATATACTAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTATAAACCAGATCTTATCTTCACTG
* * ** * * ** * *
14246616 TGCAGGAGTGAAACAGATCAAATTTTGGCGAGTCTTATCTCTATATATCGGCAATGGAGTAGATT
66 AGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCAATGGAGCAGATT
*
14246681 TCA
131 CCA
** * * * * *
14246684 GCCACCAGCCTTATCTTCATTGAGCAGGAGTGAAGTAGGCTA-AACATACAGATCTTATCTTTAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTATAA-A-CCAGATCTTATCTTCAC
*
14246748 TGAGCAGGAGTAAAGCAGATCAAATT
64 TGAGCAGGAGTGAAGCAGATCAAATT
14246774 ACAGCAGATC
Statistics
Matches: 436, Mismatches: 49, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
132 3 0.01
133 356 0.82
134 38 0.09
135 39 0.09
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (133 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTATAAACCAGATCTTATCTTCACTG
AGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCAATGGAGCAGATT
CCA
Found at i:14247385 original size:13 final size:14
Alignment explanation
Indices: 14247354--14247386 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14247344 GTGCATCTAC
14247354 ATTTTTTTTCCTTT
1 ATTTTTTTTCCTTT
*
14247368 CTTTTTTTTCC-TT
1 ATTTTTTTTCCTTT
14247381 ATTTTT
1 ATTTTT
14247387 GAAAATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTTTCCTTT
Found at i:14247989 original size:20 final size:19
Alignment explanation
Indices: 14247957--14247994 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
14247947 TCTTTTGGTA
14247957 CTATTATTATTAATCTATTG
1 CTATTATTATTAA-CTATTG
14247977 CTATT-TTATTTAACTATT
1 CTATTATTA-TTAACTATT
14247995 TTAGGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
CTATTATTATTAACTATTG
Found at i:14250460 original size:16 final size:16
Alignment explanation
Indices: 14250439--14250475 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
14250429 ATTAATTGGG
*
14250439 TATATAAATTAAAATA
1 TATATAAATGAAAATA
14250455 TATATAAATGAAAATA
1 TATATAAATGAAAATA
*
14250471 AATAT
1 TATAT
14250476 TTAAAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
TATATAAATGAAAATA
Found at i:14250530 original size:21 final size:21
Alignment explanation
Indices: 14250488--14250550 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
14250478 AAAAATTCAG
* *
14250488 AAAATATATAAAATT-TAGAAA
1 AAAAAATAT-AAATTATAAAAA
* *
14250509 ACAACATATAAATTATAAAAA
1 AAAAAATATAAATTATAAAAA
* *
14250530 AAAAAATAAAAATTACAAAAA
1 AAAAAATATAAATTATAAAAA
14250551 CACGATAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAAATATAAATTATAAAAA
Found at i:14250666 original size:29 final size:28
Alignment explanation
Indices: 14250595--14250669 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
14250585 AATAATATTA
* * *
14250595 TAAACAATATAAAAATATTTTAAATTTT
1 TAAAAAATATAAAAATAATGTAAATTTT
* *
14250623 TAAAAATTGTAAAAAATAATGTAAATTTT
1 TAAAAAATAT-AAAAATAATGTAAATTTT
14250652 TAAAAAATAATAAAAATA
1 TAAAAAAT-ATAAAAATA
14250670 TGTTATTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 7 0.18
29 30 0.79
30 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (28 bp):
TAAAAAATATAAAAATAATGTAAATTTT
Found at i:14250668 original size:20 final size:20
Alignment explanation
Indices: 14250623--14250668 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
14250613 TTTAAATTTT
14250623 TAAAAA-TTGTAAAAAATAA
1 TAAAAATTTGTAAAAAATAA
** *
14250642 TGTAAATTTTTAAAAAATAA
1 TAAAAATTTGTAAAAAATAA
14250662 TAAAAAT
1 TAAAAAT
14250669 ATGTTATTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAAAATTTGTAAAAAATAA
Found at i:14250737 original size:39 final size:41
Alignment explanation
Indices: 14250662--14250740 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 41
14250652 TAAAAAATAA
* *
14250662 TAAAAATATGTTATTTATAAGTTTTTAAAAAAATTTAAAAT
1 TAAAAAAATATTATTTATAAGTTTTTAAAAAAATTTAAAAT
*
14250703 TAAAAAAATATTATTTAT-A-TTTTTAATAAAATTTAAAA
1 TAAAAAAATATTATTTATAAGTTTTTAAAAAAATTTAAAA
14250741 ATTTTAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 18 0.51
40 1 0.03
41 16 0.46
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (41 bp):
TAAAAAAATATTATTTATAAGTTTTTAAAAAAATTTAAAAT
Found at i:14250769 original size:49 final size:49
Alignment explanation
Indices: 14250716--14250825 Score: 118
Period size: 48 Copynumber: 2.2 Consensus size: 49
14250706 AAAAATATTA
14250716 TTTATATTTTTAATAAAATT-TAAAAATTTTAAGTATAAT-TTTACAATTT
1 TTTATATTTTTAAT-AAATTAT-AAAATTTTAAGTATAATGTTTACAATTT
* *** *
14250765 TTTATAATTTTT-ATAAATTATTAAATTTTTTTTATAATGTTTACATTTT
1 TTTAT-ATTTTTAATAAATTATAAAATTTTAAGTATAATGTTTACAATTT
*
14250814 TTTACATTTTTA
1 TTTATATTTTTA
14250826 TAATAACATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
48 24 0.47
49 21 0.41
50 6 0.12
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (49 bp):
TTTATATTTTTAATAAATTATAAAATTTTAAGTATAATGTTTACAATTT
Found at i:14250823 original size:30 final size:30
Alignment explanation
Indices: 14250754--14250824 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
14250744 TTAAGTATAA
* * *
14250754 TTTTACA-ATTTTTTATAATTTTTATAAAT
1 TTTTACATTTTTTTTATAATGTTTACAAAT
* * **
14250783 TATTAAATTTTTTTTATAATGTTTACATTT
1 TTTTACATTTTTTTTATAATGTTTACAAAT
14250813 TTTTACATTTTT
1 TTTTACATTTTT
14250825 ATAATAACAT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
29 5 0.16
30 27 0.84
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (30 bp):
TTTTACATTTTTTTTATAATGTTTACAAAT
Found at i:14251659 original size:16 final size:17
Alignment explanation
Indices: 14251628--14251660 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14251618 TTCATAAGTA
14251628 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
14251645 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
14251661 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:14252178 original size:137 final size:137
Alignment explanation
Indices: 14251956--14252209 Score: 355
Period size: 137 Copynumber: 1.9 Consensus size: 137
14251946 TGCCATAGTG
* ** * * *
14251956 TCTTTCAACTATGGTCTTACTTATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * *
14252021 TTCATTTCATGTTACATTGCCATAGTATCTTTCAACCATGGTCTTATTCATTCCCGTCATGTTGT
66 CACATTTCATATCACATTGCCATAGTATCTTTCAACCATGGTCTTATACATTCCCGTCATGTTGT
14252086 CATGGTA
131 CATGGTA
** *
14252093 TCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACTATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
** *
14252158 CACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATT
66 CACATTTCATATCACATTGCCATAGTATCTTTCAACCATGGTCTTATACATT
14252210 TCATTTCAGA
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
137 100 1.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (137 bp):
TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACATTGCCATAGTATCTTTCAACCATGGTCTTATACATTCCCGTCATGTTGT
CATGGTA
Found at i:14252209 original size:46 final size:46
Alignment explanation
Indices: 14251941--14252213 Score: 300
Period size: 46 Copynumber: 6.0 Consensus size: 46
14251931 TTATCTTTGA
* * * * *
14251941 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTTA-TTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA--TACATTTCATGT
* * *
14251987 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
* ** * * **
14252033 TACATTGCCATAGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
* * * *
14252078 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
* * * *
14252124 CCTGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
14252170 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
14252214 TTCAGAAAGC
Statistics
Matches: 191, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.01
45 40 0.21
46 150 0.79
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
Found at i:14255311 original size:19 final size:18
Alignment explanation
Indices: 14255287--14255327 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
14255277 AGTTTAATGT
*
14255287 TTAATTAATTAAGTTTTAA
1 TTAATTAATTAAGATTT-A
14255306 TTAATTAATTAAGATTTA
1 TTAATTAATTAAGATTTA
14255324 TTAA
1 TTAA
14255328 GTTCAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TTAATTAATTAAGATTTA
Found at i:14258817 original size:31 final size:31
Alignment explanation
Indices: 14258777--14258894 Score: 116
Period size: 31 Copynumber: 3.8 Consensus size: 31
14258767 GATATTACTC
*
14258777 AGATTAATATTAAATTAATAAAATACTATCA
1 AGATAAATATTAAATTAATAAAATACTATCA
* **
14258808 AGATAAATATTAAATCAAATTTAATA--ACTC-
1 AGATAAATATTAAAT-TAATAAAATACTA-TCA
* *
14258838 ACATTAATATTAAATTAATAAAATACTATCA
1 AGATAAATATTAAATTAATAAAATACTATCA
* *
14258869 AGATAAACATTAAATTTATTAAAATA
1 AGATAAATATTAAA-TTAATAAAATA
14258895 GTATTATTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
29 7 0.10
30 16 0.24
31 28 0.41
32 17 0.25
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.35
Consensus pattern (31 bp):
AGATAAATATTAAATTAATAAAATACTATCA
Found at i:14271067 original size:21 final size:23
Alignment explanation
Indices: 14271043--14271091 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
14271033 TCGATTTCAA
14271043 GGTTTAATG-G-TTTGAGTTTGG
1 GGTTTAATGTGTTTTGAGTTTGG
*
14271064 GGTTT-TTGTGTTTTGAGTTTGG
1 GGTTTAATGTGTTTTGAGTTTGG
14271086 GGTTTA
1 GGTTTA
14271092 TGATTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.08
21 6 0.25
22 16 0.67
ACGTcount: A:0.10, C:0.00, G:0.37, T:0.53
Consensus pattern (23 bp):
GGTTTAATGTGTTTTGAGTTTGG
Found at i:14274746 original size:3 final size:3
Alignment explanation
Indices: 14274738--14274948 Score: 133
Period size: 3 Copynumber: 68.7 Consensus size: 3
14274728 GTTTATTTAC
* * * *
14274738 TTA TTA TTA -CA TTA TTAA TTAA TCTA TTA TTA CTA TTG TTA TTA TTT
1 TTA TTA TTA TTA TTA TT-A TT-A T-TA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
14274785 TTA CTA TAA CTA TTG TTT TCTG TTA TTA TTA TTA TTA CTG TCA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
14274831 TTA TTA TTA TTA CTA TTA TTT TTA -TA TTA TTA TT- TATA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * *
14274875 TTG TTA TTA TTA TTA TTCC TGA TT- TTA TTA TTA TTAA TGTA TTT TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT-A T-TA TTA TTA
14274922 TTA TTCA TTA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TT
14274949 TTGTTTTATT
Statistics
Matches: 160, Mismatches: 36, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
2 6 0.04
3 133 0.83
4 19 0.12
5 2 0.01
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14274956 original size:35 final size:34
Alignment explanation
Indices: 14274807--14274993 Score: 125
Period size: 35 Copynumber: 5.4 Consensus size: 34
14274797 TTGTTTTCTG
* *
14274807 TTATTATTATTATTACTGTCATTATTATTATTATTA
1 TTATTTTTTTTATTA-T-TCATTATTATTATTATTA
* * *
14274843 CTATTATTTTTA-TATT-ATTATT-TATATTATTG
1 TTATTTTTTTTATTATTCATTATTAT-TATTATTA
* * * * *
14274875 TTGTTATTATTATTATTCCTGATT-TTATTATTA
1 TTATTTTTTTTATTATTCATTATTATTATTATTA
*
14274908 TTAATGTATTTTTATTATTCATTATTATTATTATTA
1 TT-AT-TTTTTTTATTATTCATTATTATTATTATTA
* * *
14274944 TTATTTTGTTTTATTAAAT-ATTGTTATT-TTCTTA
1 TTATTTT-TTTTATT-ATTCATTATTATTATTATTA
14274978 TTTATTTTCTTTTATT
1 -TTATTTT-TTTTATT
14274994 TGTTTAAACT
Statistics
Matches: 124, Mismatches: 18, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
31 1 0.01
32 22 0.18
33 14 0.11
34 14 0.11
35 50 0.40
36 23 0.19
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (34 bp):
TTATTTTTTTTATTATTCATTATTATTATTATTA
Found at i:14284988 original size:11 final size:10
Alignment explanation
Indices: 14284973--14285018 Score: 65
Period size: 11 Copynumber: 4.3 Consensus size: 10
14284963 AAATTTTTAA
14284973 TTTTTTAAAT
1 TTTTTTAAAT
14284983 ATTTTTTAGAAT
1 -TTTTTTA-AAT
14284995 TTTTTTAAAT
1 TTTTTTAAAT
14285005 TTTTTATAAAT
1 TTTTT-TAAAT
14285016 TTT
1 TTT
14285019 AAAAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.24
11 22 0.67
12 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:14285007 original size:9 final size:9
Alignment explanation
Indices: 14284961--14285083 Score: 63
Period size: 9 Copynumber: 13.1 Consensus size: 9
14284951 TATTTATCCA
*
14284961 TAAAATTTT
1 TAAATTTTT
14284970 T-AATTTTT
1 TAAATTTTT
14284978 TAAATATTTTT
1 T-AA-ATTTTT
14284989 TAGAATTTTTT
1 TA-AA-TTTTT
14285000 TAAATTTTT
1 TAAATTTTT
*
14285009 TATAA-ATTT
1 TA-AATTTTT
*** *
14285018 TAAAAAATA
1 TAAATTTTT
**
14285027 TAAATTTGG
1 TAAATTTTT
14285036 T-AATTTTT
1 TAAATTTTT
*
14285044 TAAATATTT
1 TAAATTTTT
*
14285053 TGAATTTTT
1 TAAATTTTT
14285062 TAAAATTATTT
1 T-AAATT-TTT
14285073 TAAATTATTT
1 TAAATT-TTT
14285083 T
1 T
14285084 GTAATTTTTG
Statistics
Matches: 89, Mismatches: 15, Indels: 19
0.72 0.12 0.15
Matches are distributed among these distances:
8 15 0.17
9 34 0.38
10 21 0.24
11 19 0.21
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TAAATTTTT
Found at i:14285075 original size:11 final size:10
Alignment explanation
Indices: 14285037--14285083 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
14285027 TAAATTTGGT
14285037 AATT-TTTTA
1 AATTATTTTA
*
14285046 AA-TATTTTG
1 AATTATTTTA
14285055 AATT-TTTTAA
1 AATTATTTT-A
14285065 AATTATTTTA
1 AATTATTTTA
14285075 AATTATTTT
1 AATTATTTT
14285084 GTAATTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
8 1 0.03
9 12 0.38
10 15 0.47
11 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
AATTATTTTA
Found at i:14299410 original size:15 final size:14
Alignment explanation
Indices: 14299389--14299440 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
14299379 TTTCTCTTAG
14299389 ATTATATTTTAATT
1 ATTATATTTTAATT
* *
14299403 ATTTATATTTAAAAT
1 A-TTATATTTTAATT
*
14299418 ATTATATTTTAATC
1 ATTATATTTTAATT
14299432 ACTTATATT
1 A-TTATATT
14299441 ATCGTATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATATTTTAATT
Found at i:14310052 original size:297 final size:296
Alignment explanation
Indices: 14309477--14310052 Score: 644
Period size: 297 Copynumber: 1.9 Consensus size: 296
14309467 ATCACAAATG
* * *
14309477 TATACAATTGATGGAGGTAATAAAATGTACATAATAAAATTAAAATATAAAATTATCAATATAAA
1 TATACAATTGATAGAGATAATAAAATGTACATAATAAAATTAAAATATAAAATTATCAAAATAAA
* * * *
14309542 GCTTTAGTTATTTGGTAAATTAAAGGTTTTACTAATATAATTAGCGTATGTTCAAATCCCACTAT
66 GCTTTAGTTATTTAGTAAATTAAAGATTTTACTAATATAATTAGCGCAAGTTCAAATCCCACTAT
* * * *
14309607 ATTCATATTTTATTGATTCTTTTTAAAGTGTAAAGATTAAAATACCCTCAAATAATGTTACTTAT
131 ATGCATATTTTATTGATTCTTTTTAAAGTGAAAAGATTAAAATACCCTCAAATAATATTACTAAT
* * * ** * * * *
14309672 TCTCATTACAAAATGGTATTGTCGTAATTTCCTAACTGAGTTGATGCTCAGTTGATTCATGATAC
196 TCTAATTACAAAATGGCATTCTAATAATTTCCTAACTGAGTTGATGCCCAATTGAGTCATGACAC
* *
14309737 CAATTCAATCAGAAGTTTAAATGATAGTAGTATAGA
261 CAACTCAATCAAAAGTTTAAATGATAGTAGTATAGA
* * * *
14309773 TATATAATTGATAGAGATAATAAAGTGTGCATAATAAAATTAAAATGTATATAAA-TATTAAAAT
1 TATACAATTGATAGAGATAATAAAATGTACATAATAAAATTAAAA--TATA-AAATTATCAAAAT
* * * * * *
14309837 AAAGCTTTAGTTGA-TTAGTAAATTAAATATTTTATTAATGTAATTGGTGCAAGTTCGAATCCCA
63 AAAGCTTTAGTT-ATTTAGTAAATTAAAGATTTTACTAATATAATTAGCGCAAGTTCAAATCCCA
* * * * *
14309901 CTGTATGCATAGTTTTATTGA-T-TTTTTAAAGTGAAAATATTAAAATTCTCTCGAATAATATTA
127 CTATATGCATA-TTTTATTGATTCTTTTTAAAGTGAAAAGATTAAAATACCCTCAAATAATATTA
* * * *
14309964 CTAATTTTAATTA-AGAATGAGCATTCTAATAAATTT-TTAA-TCGAGTTGATGCCCAATTGGGT
191 CTAATTCTAATTACAAAATG-GCATTCTAAT-AATTTCCTAACT-GAGTTGATGCCCAATTGAGT
* *
14310026 CGTGACACCAACTCGATCAAAAGTTTA
253 CATGACACCAACTCAATCAAAAGTTTA
14310053 GATAATAATA
Statistics
Matches: 229, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
296 46 0.20
297 92 0.40
298 78 0.34
299 13 0.06
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (296 bp):
TATACAATTGATAGAGATAATAAAATGTACATAATAAAATTAAAATATAAAATTATCAAAATAAA
GCTTTAGTTATTTAGTAAATTAAAGATTTTACTAATATAATTAGCGCAAGTTCAAATCCCACTAT
ATGCATATTTTATTGATTCTTTTTAAAGTGAAAAGATTAAAATACCCTCAAATAATATTACTAAT
TCTAATTACAAAATGGCATTCTAATAATTTCCTAACTGAGTTGATGCCCAATTGAGTCATGACAC
CAACTCAATCAAAAGTTTAAATGATAGTAGTATAGA
Found at i:14311946 original size:2 final size:2
Alignment explanation
Indices: 14311939--14311969 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14311929 TGTATTTAAA
14311939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14311970 AATTTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14316301 original size:93 final size:93
Alignment explanation
Indices: 14316186--14316357 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
14316176 GCCCATAAAT
* *
14316186 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAATTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
14316250 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
14316279 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14316344 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
14316358 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:14316351 original size:46 final size:45
Alignment explanation
Indices: 14316178--14316353 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
14316168 TGTAACCCGC
* *
14316178 CCATAAATGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCAT-AATGAACTCGGACTCAACTCAACGAGTTC-GGACGCTCGCAT
* *
14316224 CCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
14316274 -C-TCACGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
14316317 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGA
14316354 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 6 0.05
46 63 0.57
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:14316372 original size:46 final size:45
Alignment explanation
Indices: 14316231--14316372 Score: 144
Period size: 46 Copynumber: 3.1 Consensus size: 45
14316221 CATCCATAAT
* *
14316231 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCCAG
* * * * *
14316278 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--CAG
*
14316324 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCCAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCCAG
14316370 TGA
1 TGA
14316373 CATGTCACTT
Statistics
Matches: 77, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.48
47 31 0.40
48 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCCAG
Found at i:14322885 original size:37 final size:37
Alignment explanation
Indices: 14322834--14322908 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
14322824 ATAGCAAATA
*
14322834 TTTGACTTATTTTTATTCGACTTAATTTCCAAGCTTG
1 TTTGACTTAATTTTATTCGACTTAATTTCCAAGCTTG
* *
14322871 TTTGACTTAATTTTATTGGACTTAATTTTCAAGCTTG
1 TTTGACTTAATTTTATTCGACTTAATTTCCAAGCTTG
14322908 T
1 T
14322909 ATCCACCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.13, G:0.12, T:0.52
Consensus pattern (37 bp):
TTTGACTTAATTTTATTCGACTTAATTTCCAAGCTTG
Found at i:14326966 original size:75 final size:75
Alignment explanation
Indices: 14326819--14326967 Score: 196
Period size: 75 Copynumber: 2.0 Consensus size: 75
14326809 AATAGACAAA
*
14326819 ATGTGTCAATTAGTTTCACTTTCCAAATTTCTCTTTTAACTTAATTCCCCCAACAGTAAAATAAA
1 ATGTGTCAATTAGTTTCACTTTCCAAATTTCTCTTTTAACTTAATTCCCCCAACAGTAAAACAAA
**
14326884 ATGATAGCTG
66 ACAATAGCTG
* * *
14326894 ATGTGTCAATTTGTTTCAC-TTCTCAAAGTTTCTCTTTTAATTTAATT-CCCCAGA-AGTGAAAC
1 ATGTGTCAATTAGTTTCACTTTC-CAAA-TTTCTCTTTTAACTTAATTCCCCCA-ACAGTAAAAC
14326956 AAAACAATAGCT
63 AAAACAATAGCT
14326968 ACCGTGTCAG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
74 3 0.05
75 43 0.66
76 19 0.29
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (75 bp):
ATGTGTCAATTAGTTTCACTTTCCAAATTTCTCTTTTAACTTAATTCCCCCAACAGTAAAACAAA
ACAATAGCTG
Found at i:14331855 original size:356 final size:356
Alignment explanation
Indices: 14331199--14331917 Score: 1386
Period size: 356 Copynumber: 2.0 Consensus size: 356
14331189 ATTAAAGATC
*
14331199 AAACAGACATTTTTGCTTATTGTGACAATGGCATTTAGCAAGTGGGTAAGACTGATAAAAGCAAT
1 AAACAGACATTTTTGCTTATCGTGACAATGGCATTTAGCAAGTGGGTAAGACTGATAAAAGCAAT
14331264 CAGTATATTTCATATTTGTGCATTTTGCTTTGTCCCAGCCGAACTGGTCAAAATTTTGTACACAT
66 CAGTATATTTCATATTTGTGCATTTTGCTTTGTCCCAGCCGAACTGGTCAAAATTTTGTACACAT
14331329 TTTGGGTTAAGTTTCATAAACTTCTAAAATCCTAATAGTTCATTGGAAATTCAGATAGCTATCTT
131 TTTGGGTTAAGTTTCATAAACTTCTAAAATCCTAATAGTTCATTGGAAATTCAGATAGCTATCTT
14331394 ATAGCAAATGATTGGTATTAGAAGAAGAATTGATGCAACAAAAACAGATGACACAAACTTGCTAT
196 ATAGCAAATGATTGGTATTAGAAGAAGAATTGATGCAACAAAAACAGATGACACAAACTTGCTAT
*
14331459 AAGATATGGCTATCCGAATTGCAAATGTTAGGATATAATCACCTGATGATGTGAAATGTTTTACA
261 AAGATATGGCTATCCGAATTGCAAACGTTAGGATATAATCACCTGATGATGTGAAATGTTTTACA
14331524 TTTCAAAACAAGTTGTTCTATGAGTTGCTAA
326 TTTCAAAACAAGTTGTTCTATGAGTTGCTAA
*
14331555 AAGCAGACATTTTTGCTTATCGTGACAATGGCATTTAGCAAGTGGGTAAGACTGATAAAAGCAAT
1 AAACAGACATTTTTGCTTATCGTGACAATGGCATTTAGCAAGTGGGTAAGACTGATAAAAGCAAT
14331620 CAGTA-ATTTTCATATTTGTGCATTTTGCTTTGTCCCAGCCGAACTGGTCAAAATTTTGTACACA
66 CAGTATA-TTTCATATTTGTGCATTTTGCTTTGTCCCAGCCGAACTGGTCAAAATTTTGTACACA
14331684 TTTTGGGTTAAGTTTCATAAACTTCTAAAATCCTAATAGTTCATTGGAAATTCAGATAGCTATCT
130 TTTTGGGTTAAGTTTCATAAACTTCTAAAATCCTAATAGTTCATTGGAAATTCAGATAGCTATCT
14331749 TATAGCAAATGATTGGTATTAGAAGAAGAATTGATGCAACAAAAACAGATGACACAAACTTGCTA
195 TATAGCAAATGATTGGTATTAGAAGAAGAATTGATGCAACAAAAACAGATGACACAAACTTGCTA
*
14331814 TAAGATATGGCTATCTGAATTGCAAACGTTAGGATATAATCACCTGATGATGTGAAATGTTTTAC
260 TAAGATATGGCTATCCGAATTGCAAACGTTAGGATATAATCACCTGATGATGTGAAATGTTTTAC
14331879 ATTTCAAAACAAGTTGTTCTATGAGTTGCTAA
325 ATTTCAAAACAAGTTGTTCTATGAGTTGCTAA
14331911 AAACAGA
1 AAACAGA
14331918 TCTATAACGT
Statistics
Matches: 357, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
355 1 0.00
356 356 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (356 bp):
AAACAGACATTTTTGCTTATCGTGACAATGGCATTTAGCAAGTGGGTAAGACTGATAAAAGCAAT
CAGTATATTTCATATTTGTGCATTTTGCTTTGTCCCAGCCGAACTGGTCAAAATTTTGTACACAT
TTTGGGTTAAGTTTCATAAACTTCTAAAATCCTAATAGTTCATTGGAAATTCAGATAGCTATCTT
ATAGCAAATGATTGGTATTAGAAGAAGAATTGATGCAACAAAAACAGATGACACAAACTTGCTAT
AAGATATGGCTATCCGAATTGCAAACGTTAGGATATAATCACCTGATGATGTGAAATGTTTTACA
TTTCAAAACAAGTTGTTCTATGAGTTGCTAA
Found at i:14337790 original size:21 final size:21
Alignment explanation
Indices: 14337764--14337817 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
14337754 CAGCGGTGGT
* * *
14337764 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATAATGTAAC
*
14337785 GGTGAGATTGGATAATGTAAC
1 GGTGAGATTAGATAATGTAAC
14337806 GGTGAGATTAGA
1 GGTGAGATTAGA
14337818 AACAATGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.06, G:0.35, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATAATGTAAC
Found at i:14339836 original size:32 final size:32
Alignment explanation
Indices: 14339798--14339921 Score: 194
Period size: 32 Copynumber: 3.9 Consensus size: 32
14339788 GCATAAAAAT
14339798 ATCATACATTAGTTTTACATATAAAAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTTG
*
14339830 ATCATACATTAGATTTACATATAAAAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTTG
** **
14339862 ATCATACATTAGTTTGGCATATAAAAAAGTAC
1 ATCATACATTAGTTTTACATATAAAAAAGTTG
*
14339894 ATCATTCATTAGTTTTACATATAAAAAA
1 ATCATACATTAGTTTTACATATAAAAAA
14339922 AGTAGTATAA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 83 1.00
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.35
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTTG
Found at i:14340657 original size:7 final size:7
Alignment explanation
Indices: 14340645--14340671 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14340635 CCTACAAAAC
14340645 ATGTTAA
1 ATGTTAA
14340652 ATGTTAA
1 ATGTTAA
14340659 ATGTTAA
1 ATGTTAA
14340666 ATGTTA
1 ATGTTA
14340672 TACTCAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
ATGTTAA
Found at i:14342693 original size:5 final size:5
Alignment explanation
Indices: 14342683--14342739 Score: 60
Period size: 5 Copynumber: 11.4 Consensus size: 5
14342673 AGCTACAATC
* * ** *
14342683 ATTAG ATTAG ATTGG ATTAG ACTAG ATTAG ATTAG AAGAG AATAG ATTAG
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG
*
14342733 AATAG AT
1 ATTAG AT
14342740 GTTTATCTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.32
Consensus pattern (5 bp):
ATTAG
Found at i:14344550 original size:35 final size:35
Alignment explanation
Indices: 14344511--14344609 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 35
14344501 TTTGGTACCT
*
14344511 ATACAAGTAAAAATCTCAATGTTAGGTACAGACCC
1 ATACAAGTAGAAATCTCAATGTTAGGTACAGACCC
*
14344546 ATACAAGTAGAAATCTC-A-GCTT--G--CA-ACCT
1 ATACAAGTAGAAATCTCAATG-TTAGGTACAGACCC
*
14344575 ATACAAGTAGAAATCTCAATGTTAGGTATAGACCC
1 ATACAAGTAGAAATCTCAATGTTAGGTACAGACCC
14344610 CCAACATTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
29 20 0.38
30 5 0.10
31 1 0.02
32 2 0.04
33 1 0.02
34 4 0.08
35 19 0.37
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (35 bp):
ATACAAGTAGAAATCTCAATGTTAGGTACAGACCC
Found at i:14345567 original size:41 final size:40
Alignment explanation
Indices: 14345499--14345585 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 40
14345489 CAAATACATT
*
14345499 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * **
14345540 TAAAACAACTCTTAAAACAATG-CACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAA-GAAACAAATAAAAAATATAA
14345580 TAAAAC
1 TAAAAC
14345586 GTGATTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
40 9 0.23
41 29 0.74
42 1 0.03
ACGTcount: A:0.63, C:0.13, G:0.05, T:0.20
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:14346326 original size:12 final size:12
Alignment explanation
Indices: 14346300--14346371 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
14346290 AAATAAAATG
*
14346300 TTAATATTA-TA
1 TTAAAATTATTA
14346311 TTAAAATTATTA
1 TTAAAATTATTA
14346323 TT-AAA-TATTA
1 TTAAAATTATTA
14346333 TTAATAATTA-TA
1 TTAA-AATTATTA
*
14346345 TTAAGAA-TGTTA
1 TTAA-AATTATTA
14346357 TT-AAATTATATA
1 TTAAAATTAT-TA
14346369 TTA
1 TTA
14346372 TTTTATTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
10 9 0.18
11 16 0.33
12 22 0.45
13 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
TTAAAATTATTA
Found at i:14346346 original size:34 final size:35
Alignment explanation
Indices: 14346300--14346371 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
14346290 AAATAAAATG
14346300 TTAATATTATATTAA-AATTATTATTAAA-TAT-TA
1 TTAATATTATATTAAGAA-TATTATTAAATTATATA
*
14346333 TTAATAATTATATTAAGAATGTTATTAAATTATATA
1 TTAAT-ATTATATTAAGAATATTATTAAATTATATA
14346369 TTA
1 TTA
14346372 TTTTATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
33 5 0.15
34 19 0.56
35 5 0.15
36 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (35 bp):
TTAATATTATATTAAGAATATTATTAAATTATATA
Found at i:14346617 original size:44 final size:46
Alignment explanation
Indices: 14346562--14346650 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 46
14346552 ACATCTATTC
14346562 CATTCAACCAAACACA-AGAATT-TT-ATTACAGCTCTATTCCATTT
1 CATTCAACCAAACA-ATAGAATTATTGATTACAGCTCTATTCCATTT
* * *
14346606 CATTTAACCAAACAATTGAATTATTGATTACAGTTCTATTCCATT
1 CATTCAACCAAACAATAGAATTATTGATTACAGCTCTATTCCATT
14346651 ACAACTCTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.46
45 2 0.05
46 18 0.46
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (46 bp):
CATTCAACCAAACAATAGAATTATTGATTACAGCTCTATTCCATTT
Found at i:14346659 original size:16 final size:16
Alignment explanation
Indices: 14346640--14346686 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
14346630 TGATTACAGT
14346640 TCTATTCCATTACAAC
1 TCTATTCCATTACAAC
* * *
14346656 TCTACTCAATTCCAAC
1 TCTATTCCATTACAAC
*
14346672 CCTATTCCATTACAA
1 TCTATTCCATTACAA
14346687 TGAGCCAAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (16 bp):
TCTATTCCATTACAAC
Found at i:14351306 original size:46 final size:44
Alignment explanation
Indices: 14351202--14351309 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
14351192 TGTCTTTGAC
** * * *
14351202 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
14351246 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
14351292 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
14351310 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:14358681 original size:46 final size:44
Alignment explanation
Indices: 14358577--14358684 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
14358567 TGTCTTTGAC
** * * *
14358577 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
14358621 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
14358667 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
14358685 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:14364509 original size:44 final size:45
Alignment explanation
Indices: 14364456--14364557 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 45
14364446 TGTCTTTGAC
* * *
14364456 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
14364500 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
14364546 ATGGACTTACAT
1 ATGGACTTACAT
14364558 TTCTGTTCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
44 33 0.66
46 17 0.34
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:14371287 original size:46 final size:44
Alignment explanation
Indices: 14371183--14371290 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
14371173 TGTCTTTGAC
** * * *
14371183 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
14371227 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
14371273 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
14371291 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:14378666 original size:46 final size:44
Alignment explanation
Indices: 14378562--14378669 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
14378552 TGTCTTTGAC
** * * *
14378562 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
14378606 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
14378652 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
14378670 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:14382095 original size:10 final size:10
Alignment explanation
Indices: 14382068--14382116 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
14382058 TTAAATTCTA
14382068 AAAGATAAAT
1 AAAGATAAAT
14382078 ACAA-ATAAAT
1 A-AAGATAAAT
*
14382088 AAAGATAATT
1 AAAGATAAAT
*
14382098 AAGGATAAAT
1 AAAGATAAAT
14382108 AAAGATAAA
1 AAAGATAAA
14382117 AGCTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14384415 original size:25 final size:25
Alignment explanation
Indices: 14384382--14384429 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
14384372 TTATAAATAA
*
14384382 GAAAAATATCTCTAGA-AATTTTTT
1 GAAAAATATATCTAGATAATTTTTT
*
14384406 GAAATAATATATTTAGATAATTTT
1 GAAA-AATATATCTAGATAATTTT
14384430 CTCTTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (25 bp):
GAAAAATATATCTAGATAATTTTTT
Found at i:14388630 original size:74 final size:74
Alignment explanation
Indices: 14388509--14388657 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
14388499 GACCCAAATA
14388509 ATCGAATCAAACAATTCACAATCTTCTAAAGCATTACAAAACTGTTCCATACGTTGTTCATCCAT
1 ATCGAATCAAACAATTCACAATCTTCTAAAGCATTACAAAACTGTTCCATACGTTGTTCATCCAT
14388574 CGGAAGCCC
66 CGGAAGCCC
14388583 ATCGAATCAAACAATTCACAATCTTCTAAAGCATTACAAAACTGTTCCATACGTTGTTCATCCAT
1 ATCGAATCAAACAATTCACAATCTTCTAAAGCATTACAAAACTGTTCCATACGTTGTTCATCCAT
14388648 CGGAAGCCC
66 CGGAAGCCC
14388657 A
1 A
14388658 CCTCTCTTCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (74 bp):
ATCGAATCAAACAATTCACAATCTTCTAAAGCATTACAAAACTGTTCCATACGTTGTTCATCCAT
CGGAAGCCC
Found at i:14393065 original size:30 final size:31
Alignment explanation
Indices: 14393011--14393077 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
14393001 ACATCTGAGG
** * *
14393011 TATTTATACTTTTGGTCCTTTAAATTTTCCA
1 TATTTATACTTTTGACCCTATAAATTTTCAA
*
14393042 TATTTATA-TTTTGACCCTATAAATTTTGAA
1 TATTTATACTTTTGACCCTATAAATTTTCAA
14393072 TATTTA
1 TATTTA
14393078 CATTAAGGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.54
Consensus pattern (31 bp):
TATTTATACTTTTGACCCTATAAATTTTCAA
Found at i:14393402 original size:78 final size:78
Alignment explanation
Indices: 14393271--14393423 Score: 236
Period size: 78 Copynumber: 2.0 Consensus size: 78
14393261 TTAAACTATG
* * *
14393271 CCATTTGTTTGAATTAGGTACCTAAATATTTTTTTGGTCAAAATCGGTGCCTAAACTTTATTCTA
1 CCATTTGTTTGAATTAGGTACCTAAACATTTTTTTGGTCAAAATCGGTACCTAAACTTTATTCCA
14393336 TAATTGAAATTGA
66 TAATTGAAATTGA
* * *
14393349 CCATTTGTTTGAGTTATGTACCTAAACATTTTTTTGGTCGAAA-CGAGTACCTAAACTTTATTCC
1 CCATTTGTTTGAATTAGGTACCTAAACATTTTTTTGGTCAAAATCG-GTACCTAAACTTTATTCC
14393413 ATAATTGAAAT
65 ATAATTGAAAT
14393424 CGACACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
77 2 0.03
78 66 0.97
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (78 bp):
CCATTTGTTTGAATTAGGTACCTAAACATTTTTTTGGTCAAAATCGGTACCTAAACTTTATTCCA
TAATTGAAATTGA
Found at i:14393948 original size:20 final size:18
Alignment explanation
Indices: 14393906--14393940 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14393896 TATGAAATCA
* *
14393906 TAATTTTTTAATATCTTT
1 TAATTTTTTAAAATATTT
14393924 TAATTTTTTAAAATATT
1 TAATTTTTTAAAATATT
14393941 AATTAATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TAATTTTTTAAAATATTT
Found at i:14394418 original size:40 final size:40
Alignment explanation
Indices: 14394363--14394442 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
14394353 GTTTGTTTGA
*
14394363 TTCTTTCTAGTATTGGAAATTAGTATTTTATCTAGAGAAG
1 TTCTTTCTAGAATTGGAAATTAGTATTTTATCTAGAGAAG
*
14394403 TTCTTTCTAGAATTGGGAATTAGTATTTTATCTAGAGAAG
1 TTCTTTCTAGAATTGGAAATTAGTATTTTATCTAGAGAAG
14394443 ATTCAAGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (40 bp):
TTCTTTCTAGAATTGGAAATTAGTATTTTATCTAGAGAAG
Found at i:14397635 original size:22 final size:24
Alignment explanation
Indices: 14397609--14397675 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 24
14397599 TTTAGAAAAT
* *
14397609 TTTTAAAATTTCTTTATATAT-TA
1 TTTTAAAATTTCTTTAAATATAAA
* *
14397632 -TTTAGAATTTTTTTAAATATAAA
1 TTTTAAAATTTCTTTAAATATAAA
* *
14397655 TTTTAAAATTTGTATAAATAT
1 TTTTAAAATTTCTTTAAATAT
14397676 TTTGAAATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
22 17 0.49
23 1 0.03
24 17 0.49
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (24 bp):
TTTTAAAATTTCTTTAAATATAAA
Found at i:14399242 original size:60 final size:59
Alignment explanation
Indices: 14399145--14399407 Score: 295
Period size: 59 Copynumber: 4.5 Consensus size: 59
14399135 AATTAGAAAA
* * * *
14399145 GAAAAA-TGCCAAGTTTAGGTACCAAATTGGGTCCAAAAAAGGTTTAGGTATCAAATTAG
1 GAAAAAGTGTCAAGTTCAGGTACCAAATTGGCT-CAAAAAAAGTTTAGGTATCAAATTAG
* *
14399204 GAAAAAGTGTCAAGTTCAGGTGCCAAATTGGACTCAAAAAAAGTTTAGGTATTAAATTA-
1 GAAAAAGTGTCAAGTTCAGGTACCAAATTGG-CTCAAAAAAAGTTTAGGTATCAAATTAG
* * * * * *
14399263 AAAAAAGTGTTAAGTTTAGGTACTAAATTGGGCTCAAAAAAA-TATAAGTATCAAATTAG
1 GAAAAAGTGTCAAGTTCAGGTACCAAATT-GGCTCAAAAAAAGTTTAGGTATCAAATTAG
*
14399322 GAAAAAATGTCAAGTTCAGGTACCAAATTAGG-T-AAAAAAAGTTTAGGTA-CTAAATTAG
1 GAAAAAGTGTCAAGTTCAGGTACCAAATT-GGCTCAAAAAAAGTTTAGGTATC-AAATTAG
* * *
14399380 TAAAAAGTGTCAAGCTCAAGTACCAAAT
1 GAAAAAGTGTCAAGTTCAGGTACCAAAT
14399408 GTTATATTAA
Statistics
Matches: 172, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
57 8 0.05
58 51 0.30
59 66 0.38
60 46 0.27
61 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.26
Consensus pattern (59 bp):
GAAAAAGTGTCAAGTTCAGGTACCAAATTGGCTCAAAAAAAGTTTAGGTATCAAATTAG
Found at i:14399278 original size:59 final size:59
Alignment explanation
Indices: 14399098--14399407 Score: 292
Period size: 60 Copynumber: 5.2 Consensus size: 59
14399088 TTAATAAATT
* * * * * * *
14399098 AGGTACCAAATTGAAC-CTAAAAAAAGCTTAGATACCAAATTAGAAAAGAAAAATGCCAAGTTT
1 AGGTACCAAATTG-GCTC-AAAAAAAGTTTAGGTATCAAATTAG--AA-AAAAGTGTCAAGTTC
* * *
14399161 AGGTACCAAATTGGGTCCAAAAAAGGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTC
1 AGGTACCAAATTGGCT-CAAAAAAAGTTTAGGTATCAAATTAGAAAAAAGTGTCAAGTTC
* * * *
14399221 AGGTGCCAAATTGGACTCAAAAAAAGTTTAGGTATTAAATTA-AAAAAAGTGTTAAGTTT
1 AGGTACCAAATTGG-CTCAAAAAAAGTTTAGGTATCAAATTAGAAAAAAGTGTCAAGTTC
* * *
14399280 AGGTACTAAATTGGGCTCAAAAAAA-TATAAGTATCAAATTAGGAAAAAA-TGTCAAGTTC
1 AGGTACCAAATT-GGCTCAAAAAAAGTTTAGGTATCAAATTA-GAAAAAAGTGTCAAGTTC
* *
14399339 AGGTACCAAATTAGG-T-AAAAAAAGTTTAGGTA-CTAAATTAGTAAAAAGTGTCAAGCTC
1 AGGTACCAAATT-GGCTCAAAAAAAGTTTAGGTATC-AAATTAGAAAAAAGTGTCAAGTTC
*
14399397 AAGTACCAAAT
1 AGGTACCAAAT
14399408 GTTATATTAA
Statistics
Matches: 207, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
57 14 0.07
58 45 0.22
59 55 0.27
60 56 0.27
61 2 0.01
63 34 0.16
64 1 0.00
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.25
Consensus pattern (59 bp):
AGGTACCAAATTGGCTCAAAAAAAGTTTAGGTATCAAATTAGAAAAAAGTGTCAAGTTC
Found at i:14399326 original size:118 final size:118
Alignment explanation
Indices: 14399155--14399407 Score: 334
Period size: 118 Copynumber: 2.1 Consensus size: 118
14399145 GAAAAATGCC
* * * *
14399155 AAGTTTAGGTACCAAATTGGGTCCAAAAAAGGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTT
1 AAGTTTAGGTACCAAATTGGGTCCAAAAAAGATATAAGTATCAAATTAGGAAAAAATGTCAAGTT
* *
14399220 CAGGTGCCAAATT-GGACTCAAAAAAAGTTTAGGTATTAAATTA-AAAAAAGTGTT
66 CAGGTACCAAATTAGG--T-AAAAAAAGTTTAGGTACTAAATTAGAAAAAAGTGTT
*
14399274 AAGTTTAGGTACTAAATTGGG-CTCAAAAAA-ATATAAGTATCAAATTAGGAAAAAATGTCAAGT
1 AAGTTTAGGTACCAAATTGGGTC-CAAAAAAGATATAAGTATCAAATTAGGAAAAAATGTCAAGT
* *
14399337 TCAGGTACCAAATTAGGTAAAAAAAGTTTAGGTACTAAATTAGTAAAAAGTGTC
65 TCAGGTACCAAATTAGGTAAAAAAAGTTTAGGTACTAAATTAGAAAAAAGTGTT
* * *
14399391 AAGCTCAAGTACCAAAT
1 AAGTTTAGGTACCAAAT
14399408 GTTATATTAA
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
116 23 0.19
117 23 0.19
118 43 0.36
119 29 0.25
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (118 bp):
AAGTTTAGGTACCAAATTGGGTCCAAAAAAGATATAAGTATCAAATTAGGAAAAAATGTCAAGTT
CAGGTACCAAATTAGGTAAAAAAAGTTTAGGTACTAAATTAGAAAAAAGTGTT
Found at i:14399349 original size:31 final size:31
Alignment explanation
Indices: 14399314--14399407 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 31
14399304 ATATAAGTAT
14399314 CAAATTAGGAAAAAATGTCAAGTTCAGGTAC
1 CAAATTAGGAAAAAATGTCAAGTTCAGGTAC
* *
14399345 CAAATTAGGTAAAAA----AAGTTTAGGTAC
1 CAAATTAGGAAAAAATGTCAAGTTCAGGTAC
* * * * *
14399372 TAAATTAGTAAAAAGTGTCAAGCTCAAGTAC
1 CAAATTAGGAAAAAATGTCAAGTTCAGGTAC
14399403 CAAAT
1 CAAAT
14399408 GTTATATTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
27 22 0.45
31 27 0.55
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (31 bp):
CAAATTAGGAAAAAATGTCAAGTTCAGGTAC
Found at i:14405455 original size:24 final size:24
Alignment explanation
Indices: 14405410--14405460 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
14405400 CTTCAACTTC
**
14405410 TTTAGATTCTTGCTTGGCTTCTGG
1 TTTAGATTCTTGCTTAACTTCTGG
* *
14405434 TTTAGATTCTTGTTTAATTTCTGG
1 TTTAGATTCTTGCTTAACTTCTGG
14405458 TTT
1 TTT
14405461 TCCATCTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.57
Consensus pattern (24 bp):
TTTAGATTCTTGCTTAACTTCTGG
Found at i:14406441 original size:13 final size:13
Alignment explanation
Indices: 14406423--14406456 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
14406413 TAATATATTA
14406423 TTTAATATTTAA-G
1 TTTAAT-TTTAATG
14406436 TTTAATTTTAATG
1 TTTAATTTTAATG
14406449 TTTAATTT
1 TTTAATTT
14406457 AGTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
TTTAATTTTAATG
Found at i:14406784 original size:26 final size:25
Alignment explanation
Indices: 14406738--14406786 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
14406728 TTTAATAAAT
* **
14406738 AAAAATAAAAATTTATTTAATTTTA
1 AAAAATAAAAATTGAACTAATTTTA
14406763 AAAAATAAAAAATTGAACTAATTT
1 AAAAAT-AAAAATTGAACTAATTT
14406787 AAGTACATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAAATAAAAATTGAACTAATTTTA
Found at i:14413900 original size:16 final size:16
Alignment explanation
Indices: 14413879--14413909 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14413869 CATGTTAGAG
14413879 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
14413895 CATATATATTTGAAA
1 CATATAAATTTGAAA
14413910 ATTTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:14418021 original size:21 final size:23
Alignment explanation
Indices: 14417974--14418027 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
14417964 CATTCAAGAT
**
14417974 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
14417997 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
14418018 AAAAT-ATATA
1 AAAATAATATA
14418028 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:14418257 original size:23 final size:23
Alignment explanation
Indices: 14418231--14418299 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
14418221 AGTATATAAA
14418231 TAGAAATAGAAATATAATAATAG
1 TAGAAATAGAAATATAATAATAG
* *
14418254 TAGAAATATAAATA-GATAA-A-
1 TAGAAATAGAAATATAATAATAG
*
14418274 TAAAAATTAGATAA-ATAATAATAG
1 TAGAAA-TAGA-AATATAATAATAG
14418298 TA
1 TA
14418300 TTAGAATAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 10 0.28
23 14 0.39
24 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (23 bp):
TAGAAATAGAAATATAATAATAG
Found at i:14418284 original size:15 final size:14
Alignment explanation
Indices: 14418226--14418297 Score: 65
Period size: 15 Copynumber: 5.0 Consensus size: 14
14418216 ATATTAGTAT
*
14418226 ATAAATAGAAATAG
1 ATAAATAAAAATAG
*
14418240 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
14418254 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
14418269 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
14418284 ATAAATAATAATAG
1 ATAAATAAAAATAG
14418298 TATTAGAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.04
14 21 0.45
15 22 0.47
16 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:14418289 original size:29 final size:29
Alignment explanation
Indices: 14418225--14418290 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
14418215 AATATTAGTA
*
14418225 TATAAATAGAAATAGAAATATAATAATAG
1 TATAAATAGAAATAGAAATATAAAAATAG
* *
14418254 TAGAAATATAAATAGATAA-ATAAAAATTAG
1 TATAAATAGAAATAGA-AATATAAAAA-TAG
14418284 -ATAAATA
1 TATAAATA
14418291 ATAATAGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (29 bp):
TATAAATAGAAATAGAAATATAAAAATAG
Found at i:14418865 original size:12 final size:12
Alignment explanation
Indices: 14418850--14418888 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
14418840 TAAATAATTT
14418850 AATAAAAAATAA
1 AATAAAAAATAA
14418862 AAT-AAAAATAAA
1 AATAAAAAAT-AA
14418874 AATAAATAAATAA
1 AATAAA-AAATAA
14418887 AA
1 AA
14418889 ACAAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.25
12 8 0.33
13 6 0.25
14 4 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:14418869 original size:6 final size:6
Alignment explanation
Indices: 14418854--14418902 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
14418844 TAATTTAATA
* *
14418854 AAAAAT -AAAAT AAAAAT AAAAAT AAATAAAT AAAAAC AAAAAC AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AA-AAAT AAAAAT AAAAAT AAAAAT
14418903 CATATCCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 5 0.13
6 25 0.66
7 4 0.11
8 4 0.11
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:14418884 original size:20 final size:21
Alignment explanation
Indices: 14418856--14418895 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
14418846 ATTTAATAAA
*
14418856 AAATAAAATAAAAATAAAAAT
1 AAATAAAATAAAAACAAAAAT
14418877 AAAT-AAATAAAAACAAAAA
1 AAATAAAATAAAAACAAAAA
14418896 CAAAAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (21 bp):
AAATAAAATAAAAACAAAAAT
Found at i:14418886 original size:32 final size:32
Alignment explanation
Indices: 14418841--14418902 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
14418831 AAAATAGCCT
* * *
14418841 AAATAATTTAATAAAAA-ATAAAATAAAAATAA
1 AAATAAATAAATAAAAACA-AAAACAAAAATAA
14418873 AAATAAATAAATAAAAACAAAAACAAAAAT
1 AAATAAATAAATAAAAACAAAAACAAAAAT
14418903 CATATCCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (32 bp):
AAATAAATAAATAAAAACAAAAACAAAAATAA
Found at i:14421707 original size:13 final size:13
Alignment explanation
Indices: 14421689--14421715 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14421679 GTTTTGGGTT
14421689 CCCTAACCTTGAA
1 CCCTAACCTTGAA
14421702 CCCTAACCTTGAA
1 CCCTAACCTTGAA
14421715 C
1 C
14421716 ATAAGTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.41, G:0.07, T:0.22
Consensus pattern (13 bp):
CCCTAACCTTGAA
Found at i:14422905 original size:22 final size:21
Alignment explanation
Indices: 14422857--14422898 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
14422847 CCAACATTCC
14422857 TTTCAACTATATATTTATATTT
1 TTTCAACTATATA-TTATATTT
14422879 TTTCAACTATATA-TATATTT
1 TTTCAACTATATATTATATTT
14422899 ATATTCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTCAACTATATATTATATTT
Found at i:14427260 original size:22 final size:19
Alignment explanation
Indices: 14427235--14427274 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
14427225 TCATTATAGA
14427235 TTCTTTTATATATATATATATG
1 TTCTTTT-TA-ATATA-ATATG
14427257 TTCTTTTTAATATAATAT
1 TTCTTTTTAATATAATAT
14427275 CTAAAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 2 0.11
22 7 0.39
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (19 bp):
TTCTTTTTAATATAATATG
Found at i:14433723 original size:32 final size:32
Alignment explanation
Indices: 14433682--14433745 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
14433672 TTAAAATGAT
14433682 GATTCAACGTACTACGTCAATTTACTGTTACA
1 GATTCAACGTACTACGTCAATTTACTGTTACA
14433714 GATTCAACGTACTACGTCAATTTACTGTTACA
1 GATTCAACGTACTACGTCAATTTACTGTTACA
14433746 CCGTTAACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (32 bp):
GATTCAACGTACTACGTCAATTTACTGTTACA
Found at i:14437234 original size:17 final size:17
Alignment explanation
Indices: 14437214--14437291 Score: 99
Period size: 17 Copynumber: 4.6 Consensus size: 17
14437204 GGGAAGCAAA
14437214 AAAAAAAAAATTCCAGC
1 AAAAAAAAAATTCCAGC
14437231 ---AAAAAAATTCCAGC
1 AAAAAAAAAATTCCAGC
14437245 ACCAAAAAAAAATTTCCAGC
1 A--AAAAAAAAA-TTCCAGC
*
14437265 AAAAAAAAATTTCCAGC
1 AAAAAAAAAATTCCAGC
14437282 AAAAAAAAAA
1 AAAAAAAAAA
14437292 AACCAAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
14 14 0.26
17 16 0.30
18 8 0.15
19 7 0.13
20 8 0.15
ACGTcount: A:0.64, C:0.18, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAAAAAAATTCCAGC
Found at i:14437256 original size:34 final size:35
Alignment explanation
Indices: 14437212--14437293 Score: 114
Period size: 34 Copynumber: 2.3 Consensus size: 35
14437202 AGGGGAAGCA
14437212 AAAAAAAAAAAATTCCAGC-AAAAAAA-TTCCAGC
1 AAAAAAAAAAAATTCCAGCAAAAAAAATTTCCAGC
* *
14437245 ACCAAAAAAAAATTTCCAGCAAAAAAAAATTTCCAGC
1 A-AAAAAAAAAAATTCCAGC-AAAAAAAATTTCCAGC
14437282 AAAAAAAAAAAA
1 AAAAAAAAAAAA
14437294 CCAAAAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 1 0.02
34 16 0.39
36 16 0.39
37 8 0.20
ACGTcount: A:0.66, C:0.17, G:0.05, T:0.12
Consensus pattern (35 bp):
AAAAAAAAAAAATTCCAGCAAAAAAAATTTCCAGC
Found at i:14437564 original size:11 final size:11
Alignment explanation
Indices: 14437548--14437586 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
14437538 CGACCGGATT
14437548 TCCCTTCTCTC
1 TCCCTTCTCTC
14437559 TCCCTTCTCTC
1 TCCCTTCTCTC
14437570 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
14437581 TTCCTT
1 TCCCTT
14437587 TTTTTCTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.72
12 4 0.16
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:14438175 original size:2 final size:2
Alignment explanation
Indices: 14438105--14438159 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
14438095 ATCATTTCTA
* * *
14438105 AT AT GT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14438145 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
14438160 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:14438338 original size:2 final size:2
Alignment explanation
Indices: 14438326--14438363 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
14438316 TTTTATGTAC
*
14438326 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14438364 TTTGCACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14438494 original size:3 final size:3
Alignment explanation
Indices: 14438455--14438480 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14438445 TTATTGTAGA
14438455 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
14438481 CATACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14444790 original size:87 final size:88
Alignment explanation
Indices: 14444682--14444848 Score: 282
Period size: 87 Copynumber: 1.9 Consensus size: 88
14444672 TTTATTTCTG
* *
14444682 TTTCAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCA
1 TTTCAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCA
14444747 ATTTCCGTTTTTCAATTTATGCT
66 ATTTCCGTTTTTCAATTTATGCT
**
14444770 TTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCA
1 TTTCAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCA
*
14444834 ATTTCTGTTTTTCAA
66 ATTTCCGTTTTTCAA
14444849 AAATCAGCTC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 65 0.88
88 9 0.12
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (88 bp):
TTTCAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCA
ATTTCCGTTTTTCAATTTATGCT
Found at i:14444960 original size:81 final size:80
Alignment explanation
Indices: 14444774--14445656 Score: 676
Period size: 71 Copynumber: 11.5 Consensus size: 80
14444764 TATGCTTTTC
*
14444774 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAA----
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
14444835 -T-TTCTGTTTTTC--
66 TTATTCTG-TTTTCAA
* * *
14444847 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
*
14444912 TTCTTCTGCTTTTCAA
66 TTATTCTG-TTTTCAA
*
14444928 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA---T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
14444990 TTA---TGTTTGTCAA
66 TTATTCTGTTT-TCAA
* * *
14445003 AAGTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA---
14445068 CTGCTTTTTAATTCATGTTTTCCAA
62 -T--TTTTT-ATTC-TGTTTT-CAA
* * * *
14445093 GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA---T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
*
14445155 TTA---AG-TTTC--
66 TTATTCTGTTTTCAA
** * * *
14445164 AAAAATCAACTCATATCCCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA---T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
14445226 TTA---TG-TTTC--
66 TTATTCTGTTTTCAA
* * * *
14445235 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
** *
14445300 TGCTT-T-TTAATTCAT
66 TTATTCTGTT--TTCAA
* ** * *
14445315 GAAAATCGGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA---T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
14445377 TTA---TG-TTTC--
66 TTATTCTGTTTTCAA
* * *
14445386 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA----
14445451 TGCTTTTTAATTCATGTTTTCCAA
62 T--TTTTT-ATTC-TGTTTT-CAA
* * * * *
14445475 GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCGA---T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
14445537 TTA---TG-TTTC--
66 TTATTCTGTTTTCAA
* * * * * * * *
14445546 AAAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCGGGGCACGCTGAGGTAGTTTCAA-TTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
* ***
14445610 CTA-T-T-AAATC--
66 TTATTCTGTTTTCAA
*
14445620 TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
14445657 TGCGGCACGC
Statistics
Matches: 667, Mismatches: 85, Indels: 115
0.77 0.10 0.13
Matches are distributed among these distances:
71 222 0.33
73 64 0.10
74 45 0.07
75 13 0.02
76 57 0.09
77 1 0.00
78 7 0.01
79 12 0.02
80 62 0.09
81 58 0.09
85 5 0.01
86 4 0.01
87 1 0.00
89 107 0.16
90 9 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (80 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
TTATTCTGTTTTCAA
Found at i:14445410 original size:222 final size:223
Alignment explanation
Indices: 14445093--14445725 Score: 635
Period size: 222 Copynumber: 2.8 Consensus size: 223
14445083 TGTTTTCCAA
14445093 GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTA
1 GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTA
* ** * *
14445158 AGTTTCAAAAATCAACTCATATCCCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
66 TGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
*
14445223 AATTTATG-TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGG
131 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
14445287 TATTTTCAATTTCTGCTTTTTAATTCAT
196 TATTTTCAATTTCTGCTTTTTAATTCAT
*
14445315 GAAAATCGGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTA
1 GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTA
*
14445380 TGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
66 TGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG-----T-
* *
14445445 AATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGC
125 AA-TT-T-C-----AATTTATGTTTT-C-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * * *
14445510 CTCAAGACACGTTGAGGTAATTTCGATTTATG-----T--TTCA-
179 CTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCAT
* * * * * ** * * *
14445547 -AAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCGGGGCACGCTGAGGTAGTTTCAATTCC
1 GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT--
* * * *
14445611 TAT-TAAATCTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGC-GG-CACGCTAAGGT
64 TATGT--TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC-T-CAGGACACGCTGAGGT
* * * * * * *
14445673 ATTTTCAAATTCTATTTTCAAAAGTTAATTCATATTGCGAGAGGTGAGTTGAG
125 AATTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
14445726 TCTTTTTAAT
Statistics
Matches: 347, Mismatches: 40, Indels: 53
0.79 0.09 0.12
Matches are distributed among these distances:
217 29 0.08
218 1 0.00
219 1 0.00
220 8 0.02
222 116 0.33
225 1 0.00
226 1 0.00
227 3 0.01
228 3 0.01
229 3 0.01
230 1 0.00
231 52 0.15
232 1 0.00
233 7 0.02
234 45 0.13
235 4 0.01
236 8 0.02
237 3 0.01
238 1 0.00
239 1 0.00
240 58 0.17
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (223 bp):
GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTA
TGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
TATTTTCAATTTCTGCTTTTTAATTCAT
Found at i:14445428 original size:151 final size:151
Alignment explanation
Indices: 14445165--14445725 Score: 749
Period size: 151 Copynumber: 3.7 Consensus size: 151
14445155 TTAAGTTTCA
* ** *
14445165 AAAATCAACTCATATCCCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
14445230 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
14445295 ATTTCTGCTTTTTAATTCATG
131 ATTTCTGCTTTTTAATTCATG
*
14445316 AAAATCGGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
14445381 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
14445446 ATTTCTGCTTTTTAATTCATGTTTTCCAAG
131 ATTTCTGCTTTTTAATTCA-----T----G
*
14445476 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCGATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* * * * *
14445541 GTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCGGGGCACGCTGAGGTAGTTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
* *
14445606 A-TTC--C-TATTAAATC-T-
131 ATTTCTGCTTTTTAATTCATG
* *** * * * *
14445621 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC-AATT-T
* * * *
14445686 AT-TTTCAAAAGTTAATTCATATTGCGAGAGGTGAGTTGAG
64 ATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
14445726 TCTTTTTAAT
Statistics
Matches: 369, Mismatches: 30, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
145 50 0.14
146 34 0.09
147 3 0.01
150 1 0.00
151 144 0.39
156 8 0.02
157 1 0.00
159 3 0.01
160 125 0.34
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (151 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
ATTTCTGCTTTTTAATTCATG
Found at i:14445484 original size:382 final size:386
Alignment explanation
Indices: 14444756--14445685 Score: 1408
Period size: 382 Copynumber: 2.4 Consensus size: 386
14444746 AATTTCCGTT
* * *
14444756 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTCAATTTATG--TTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGACACGC
* *
14444821 TGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA
64 TGAGGTAATTTCAATTTATG--TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
14444886 GGGCACGCTGAGGTATTTTCAATTTTTTCTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGA
127 GGGCACGCTGAGGTATTTTCAATTTCTGCTTCT-CTTTTCAAAAAAATCAACTCATATTGCGAGA
*
14444951 GATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTGTCAAAAGTAATCAACTC
191 GATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTGTCAAAAG-AATCAACTC
*
14445016 ATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATT
255 ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATT
14445081 CATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
320 CATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
14445146 AA
385 AA
* * * *
14445148 TTTCAATTTAAGTTTCAAAAATCAACTCATATCCCGAGAAGTGAGTTGAGCCTCAAGACACGTTG
1 TTTCAATTTATGTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG
*
14445213 AGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGC
66 AGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
** ** *
14445278 ACGCTGAGGTATTTTCAATTTCTGCTT-T-TTAATTCATGAAAATCGGCTCATATTGCGAGAGGT
131 ACGCTGAGGTATTTTCAATTTCTGCTTCTCTT--TTCAAAAAAATCAACTCATATTGCGAGAGAT
*
14445341 GAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATG-TT-TC-AAA-AATCAACTCATAT
194 GAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTGTCAAAAGAATCAACTCATAT
14445402 TGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATG
259 TGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATG
14445467 TTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
324 TTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
* * * * *
14445530 TTTCGATTTATGTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCGGGGCACGCTG
1 TTTCAATTTATGTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG
* * * *
14445595 AGGTAGTTTCAATTCCTAT-TAAATCTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-T
66 AGGTAATTTCAATT--TATGT--TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
14445658 GCGGCACGCTAAGGTATTTTCAAATTCT
127 G-GGCACGCTGAGGTATTTTCAATTTCT
14445686 ATTTTCAAAA
Statistics
Matches: 495, Mismatches: 36, Indels: 21
0.90 0.07 0.04
Matches are distributed among these distances:
382 209 0.42
383 1 0.00
384 7 0.01
385 65 0.13
386 2 0.00
387 66 0.13
388 70 0.14
390 64 0.13
392 11 0.02
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (386 bp):
TTTCAATTTATGTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG
AGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
ACGCTGAGGTATTTTCAATTTCTGCTTCTCTTTTCAAAAAAATCAACTCATATTGCGAGAGATGA
GTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTGTCAAAAGAATCAACTCATATTG
CGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTT
TTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
Found at i:14445490 original size:311 final size:306
Alignment explanation
Indices: 14445165--14445725 Score: 820
Period size: 311 Copynumber: 1.8 Consensus size: 306
14445155 TTAAGTTTCA
14445165 AAAATCAACTCATATCCCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATCCCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* * * *
14445230 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
66 GTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCAGGGCACGCTGAGGTAGTTTCA
* * **
14445295 ATTTCTGCTTTTTAATTCATGAAAATCGGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
131 A-TTC--C-TATTAAATC-T-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* *
14445360 GTTGAGGTAATTTC-AATT-TATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
190 GCTAAGGTAATTTCAAATTCTAT-TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
14445423 CAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAG
254 CAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAG
* ** * *
14445476 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCGATTTAT
1 AAAATCAACTCATATCCCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
14445541 GTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCGGGGCACGCTGAGGTAGTTTCA
66 GTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCAGGGCACGCTGAGGTAGTTTCA
*** *
14445606 ATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGCGGCACGCTAAG
131 ATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAG
* * * * *
14445671 GTATTTTCAAATTCTATTTTCAAAAGTTAATTCATATTGCGAGAGGTGAGTTGAG
196 GTAATTTCAAATTCTATTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
14445726 TCTTTTTAAT
Statistics
Matches: 223, Mismatches: 25, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
305 49 0.22
306 39 0.17
307 10 0.04
308 1 0.00
310 3 0.01
311 121 0.54
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (306 bp):
AAAATCAACTCATATCCCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCAGGGCACGCTGAGGTAGTTTCA
ATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAG
GTAATTTCAAATTCTATTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCA
CGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAG
Found at i:14445597 original size:71 final size:71
Alignment explanation
Indices: 14445476--14445725 Score: 268
Period size: 74 Copynumber: 3.5 Consensus size: 71
14445466 GTTTTCCAAG
* * * * *
14445476 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCGATT-TA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
14445540 TGTTTCA
66 T-TTTCA
* * * * * *
14445547 AAAATCAACTCATATCGCGAGAAGTGAGTCGAACCTCGGGGCACGCTGAGGTAGTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATT-CT
* *
14445612 ATTAAATCT
65 ATT--TTCA
* * * *
14445621 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTC-AATTCT
14445686 ATTTTCA
65 ATTTTCA
* * *
14445693 AAAGTTAATTCATATTGCGAGAGGTGAGTTGAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG
14445726 TCTTTTTAAT
Statistics
Matches: 148, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
71 51 0.34
72 33 0.22
73 3 0.02
74 57 0.39
75 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
TTTTCA
Found at i:14447220 original size:17 final size:17
Alignment explanation
Indices: 14447200--14447276 Score: 97
Period size: 17 Copynumber: 4.6 Consensus size: 17
14447190 AGGGGAAGCA
14447200 AAAAAAAAAATTCCAGC
1 AAAAAAAAAATTCCAGC
14447217 ---AAAAAAATTCCAGC
1 AAAAAAAAAATTCCAGC
*
14447231 ACCAAAAAAAATTTCCAGC
1 A--AAAAAAAAATTCCAGC
*
14447250 AAAAAAAAATTTCCAGC
1 AAAAAAAAAATTCCAGC
14447267 AAAAAAAAAA
1 AAAAAAAAAA
14447277 ACCAAAAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
14 14 0.26
17 25 0.47
19 14 0.26
ACGTcount: A:0.64, C:0.18, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAAAAAAATTCCAGC
Found at i:14447270 original size:33 final size:31
Alignment explanation
Indices: 14447201--14447276 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 31
14447191 GGGGAAGCAA
14447201 AAAAAAAAATTCCAGCAAAAAAATTCCAGCACC
1 AAAAAAAAATTCCAGCAAAAAAATTCCAG--CC
* *
14447234 AAAAAAAATTTCCAGCAAAAAAAAATTTCCAGCA
1 AAAAAAAAATTCCAGC--AAAAAAA-TTCCAGCC
14447268 AAAAAAAAA
1 AAAAAAAAA
14447277 ACCAAAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 15 0.41
34 9 0.24
35 7 0.19
36 6 0.16
ACGTcount: A:0.63, C:0.18, G:0.05, T:0.13
Consensus pattern (31 bp):
AAAAAAAAATTCCAGCAAAAAAATTCCAGCC
Found at i:14447562 original size:11 final size:11
Alignment explanation
Indices: 14447533--14447571 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14447523 CGACCGGATT
* *
14447533 TCCCTTCCCCC
1 TCCCTTCTCTC
14447544 TCCCTTCTCTC
1 TCCCTTCTCTC
14447555 TCCCTTCTCTC
1 TCCCTTCTCTC
14447566 TTCCCT
1 -TCCCT
14447572 CCCTCTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:14448133 original size:20 final size:21
Alignment explanation
Indices: 14448102--14448149 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
14448092 ATTTCTAATA
14448102 TGTATATATATATATATTATG
1 TGTATATATATATATATTATG
14448123 TGTAT-TATATATATATTATG
1 TGTATATATATATATATTATG
*
14448143 TATATAT
1 TGTATAT
14448150 GCCATTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (21 bp):
TGTATATATATATATATTATG
Found at i:14448512 original size:19 final size:21
Alignment explanation
Indices: 14448478--14448516 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
14448468 TATATGCATA
14448478 TACATATATATGTATTTTATG
1 TACATATATATGTATTTTATG
14448499 TACATAT-TAT-TATTTTAT
1 TACATATATATGTATTTTAT
14448517 ATTATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TACATATATATGTATTTTATG
Found at i:14449553 original size:20 final size:19
Alignment explanation
Indices: 14449524--14449569 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
14449514 AACTAATGGC
*
14449524 ATATATACATAATATATAT
1 ATATACACATAATATATAT
14449543 ATAATACACATAATATATAT
1 AT-ATACACATAATATATAT
14449563 ATATACA
1 ATATACA
14449570 TATTAGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATACACATAATATATAT
Found at i:14450666 original size:13 final size:13
Alignment explanation
Indices: 14450648--14450672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14450638 TTTGAAACAT
14450648 AGAAATTAAAAGC
1 AGAAATTAAAAGC
14450661 AGAAATTAAAAG
1 AGAAATTAAAAG
14450673 GCTCAACTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:14450699 original size:67 final size:67
Alignment explanation
Indices: 14450604--14450780 Score: 216
Period size: 68 Copynumber: 2.6 Consensus size: 67
14450594 AGGTGAACTG
** * *
14450604 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAACA-TAGAAATT-AAAAGC-AGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAA-AGTAGAAATTGAAAAACGA-AAA
14450666 TTAAA
64 TT-AA
* * **
14450671 AGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAAAAACGAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-ATTTGAAAAGTAGAAATTGAAAAACGAAAAT
14450736 TAA
65 TAA
*
14450739 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAA
14450781 ATTAAAAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
67 38 0.40
68 46 0.48
69 10 0.11
70 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (67 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAAGTAGAAATTGAAAAACGAAAATT
AA
Found at i:14450749 original size:68 final size:67
Alignment explanation
Indices: 14450604--14450804 Score: 207
Period size: 68 Copynumber: 3.0 Consensus size: 67
14450594 AGGTGAACTG
** * * *
14450604 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAACATAGAAATTAAAAGCAGAAATTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATATTTGAAACATAGAAATTAAAAACAGAAATTA
14450669 AA
66 AA
* **
14450671 AGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAA-AGTAGATTTTGAAAAAC-GAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAAT-ATTTGAAACA-TAGAAATT-AAAAACAG-AA
14450734 ATT-AA
62 ATTAAA
* * * *
14450739 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAAT-TAAA--AAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATATTTGAAACATAGAAATTAAAAACAGAAATT-
14450801 AAA
65 AAA
14450804 A
1 A
14450805 TAGAAATTAA
Statistics
Matches: 112, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
63 11 0.10
64 1 0.01
65 3 0.03
66 1 0.01
67 38 0.34
68 48 0.43
69 10 0.09
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.27
Consensus pattern (67 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTAATATTTGAAACATAGAAATTAAAAACAGAAATTA
AA
Found at i:14450956 original size:74 final size:70
Alignment explanation
Indices: 14450820--14451069 Score: 286
Period size: 71 Copynumber: 3.5 Consensus size: 70
14450810 ATTAAAAAGA
* * *
14450820 CTCAACTCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAAAATACCTTAGCGTGC
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAATAGAA-TTGAAATTACCTCAGCGTGC
*
14450885 CACAAGG
64 CACGAGG
* *
14450892 CTCAACTCACCTCTCGCAATACGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT-GA--AAATA-GAATTGAAATTACCTCAGCGT
*
14450957 GCCCCGAGG
62 GCCACGAGG
* * * * *
14450966 TTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACGTGT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAA-ATAGAATTGAAATTACCTCAGCGTGC
**
14451030 CTTGAGG
64 CACGAGG
*
14451037 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
14451070 CTTAGAAAAC
Statistics
Matches: 152, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
70 4 0.03
71 54 0.36
72 30 0.20
73 3 0.02
74 54 0.36
75 7 0.05
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (70 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAATAGAATTGAAATTACCTCAGCGTGCCA
CGAGG
Found at i:14451052 original size:71 final size:71
Alignment explanation
Indices: 14450820--14451069 Score: 295
Period size: 74 Copynumber: 3.5 Consensus size: 71
14450810 ATTAAAAAGA
* * * *
14450820 CTCAACTCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAAAATACCTTAGCGTGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA-TTGAAATTACCTCAGCGTGC
*
14450885 CACAAGG
65 CACGAGG
* * *
14450892 CTCAACTCACCTCTCGCAATACGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAGCGT
*
14450957 GCCCCGAGG
63 GCCACGAGG
* * * * *
14450966 TTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACGTGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCGTGC
**
14451030 CTTGAGG
65 CACGAGG
*
14451037 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
14451070 CTTAGAAAAC
Statistics
Matches: 151, Mismatches: 23, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
71 54 0.36
72 33 0.22
73 3 0.02
74 58 0.38
75 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGTGCC
ACGAGG
Found at i:14451201 original size:160 final size:160
Alignment explanation
Indices: 14450937--14451631 Score: 1228
Period size: 160 Copynumber: 4.4 Consensus size: 160
14450927 ATTTAATAGG
* * * *
14450937 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
14451002 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
*
14451067 TTTCTTAGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
14451097 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
14451162 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGA-
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
14451226 -TT-TT------CATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
14451248 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
14451313 AACATAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
14451378 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
*
14451408 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTATTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
14451473 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
*
14451538 TTTCTTGGAAAACATGAATTAAAAAGCAAA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
* *
14451568 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATATGGGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
14451632 GAAAAAACAA
Statistics
Matches: 514, Mismatches: 12, Indels: 18
0.94 0.02 0.03
Matches are distributed among these distances:
151 146 0.28
153 2 0.00
154 2 0.00
157 2 0.00
158 2 0.00
160 360 0.70
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:14451212 original size:71 final size:71
Alignment explanation
Indices: 14451096--14451372 Score: 365
Period size: 71 Copynumber: 3.8 Consensus size: 71
14451086 TAAAAAGCAG
* *
14451096 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
14451161 AAACAT
66 AAACAT
* * * **
14451167 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCA
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--
*
14451232 TGAATTAAAAAGCAG
64 TG------AAA-CAT
* *
14451247 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
14451312 AAACAT
66 AAACAT
* *
14451318 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
14451373 CCGATTTTCT
Statistics
Matches: 177, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
71 109 0.62
72 3 0.02
73 2 0.01
78 2 0.01
79 3 0.02
80 58 0.33
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAACAT
Found at i:14451500 original size:311 final size:310
Alignment explanation
Indices: 14450820--14451631 Score: 1233
Period size: 311 Copynumber: 2.6 Consensus size: 310
14450810 ATTAAAAAGA
* * * * *
14450820 CTCAACTCACCTCTCGCAATATGAATTGACTTTTGAAA-ATAGAATTTGAAAATACCTTAGCGTG
1 CTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAACATA-AA-TTGAAATTACCTCAACGTG
* *** * ** * *
14450884 CCACAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT-A-G-ATTTAATAG--G-AATTGA
63 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCATGAATTAAAAAGCAGAAATTGA
* * * *
14450943 AATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA
128 AAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATA
* *
14451008 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTT
193 AATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCTT
14451073 AGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGG
258 AGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGG
14451126 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTC
14451191 TTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCATGAATTAAAAAGCAGAAATTGAAA
65 TTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCATGAATTAAAAAGCAGAAATTGAAA
14451256 ATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAA
130 ATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAA
*
14451321 TTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCTTGG
195 TTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCTTAG
14451386 AAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGG
260 AAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGG
14451437 CTCAACTCACTTCTCGCAATATGAGTTGATTATTGAAACATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACTTCTCGCAATATGAGTTGATT-TTGAAACATAAATTGAAATTACCTCAACGTGTC
*
14451502 TTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCTTGGAAAACATGAATTAAAAAGCAA
65 TTGAGGCTCAACTCACCTCTCGCAATATGAGCCGA--TT-TT------CATGAATTAAAAAGCAG
* *
14451567 AAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATATGGGTTGATTTTTG
121 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
14451632 GAAAAAACAA
Statistics
Matches: 464, Mismatches: 25, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
305 50 0.11
306 38 0.08
307 4 0.01
308 7 0.02
310 3 0.01
311 279 0.60
313 2 0.00
314 2 0.00
320 79 0.17
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (310 bp):
CTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
TGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCATGAATTAAAAAGCAGAAATTGAAAA
TACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAAT
TGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTCTTAGA
AAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGG
Found at i:14457558 original size:12 final size:12
Alignment explanation
Indices: 14457541--14457566 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14457531 TTTCAACGGC
14457541 TCTCTCATCGCG
1 TCTCTCATCGCG
14457553 TCTCTCATCGCG
1 TCTCTCATCGCG
14457565 TC
1 TC
14457567 GTAATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.42, G:0.15, T:0.35
Consensus pattern (12 bp):
TCTCTCATCGCG
Found at i:14463529 original size:2 final size:2
Alignment explanation
Indices: 14463522--14463553 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14463512 TATGTGCAAA
*
14463522 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14463554 GTACATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14463662 original size:2 final size:2
Alignment explanation
Indices: 14463649--14463741 Score: 63
Period size: 2 Copynumber: 49.0 Consensus size: 2
14463639 GGAATTTGAA
* * * *
14463649 AT AT AC AT AT AT AT AT AT GT AT AT A- AT AGT AT TT A- AG A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * *
14463689 AT AT AC AT A- AT AT AT AT AT A- AT AC AC AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14463728 AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT
14463742 TAGAAATGAT
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
1 6 0.08
2 64 0.89
3 2 0.03
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (2 bp):
AT
Found at i:14466216 original size:19 final size:21
Alignment explanation
Indices: 14466179--14466229 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
14466169 TATCCAAACA
14466179 ATAATAATGAAATAGTAGCAAC
1 ATAATAATG-AATAGTAGCAAC
14466201 ATAATAATGAA-A-TAGCAAC
1 ATAATAATGAATAGTAGCAAC
*
14466220 AAAATAATGA
1 ATAATAATGA
14466230 GAAAACAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 16 0.57
20 1 0.04
21 2 0.07
22 9 0.32
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.22
Consensus pattern (21 bp):
ATAATAATGAATAGTAGCAAC
Found at i:14466226 original size:22 final size:22
Alignment explanation
Indices: 14466178--14466227 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
14466168 ATATCCAAAC
* *
14466178 AATAATAATGAAATAGTAGCAA
1 AATAATAATGAAATAGCAACAA
*
14466200 CATAATAATGAAATAGCAACAA
1 AATAATAATGAAATAGCAACAA
14466222 AATAAT
1 AATAAT
14466228 GAGAAAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.22
Consensus pattern (22 bp):
AATAATAATGAAATAGCAACAA
Found at i:14466238 original size:19 final size:19
Alignment explanation
Indices: 14466175--14466240 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
14466165 ATAATATCCA
14466175 AACAATAATAATGAAATAGTAGC
1 AACAA-AATAATGAAATA--A-C
* *
14466198 AACATAATAATGAAATAGC
1 AACAAAATAATGAAATAAC
14466217 AACAAAATAATGAGAA-AAC
1 AACAAAATAATGA-AATAAC
14466236 AACAA
1 AACAA
14466241 TTTTTTTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 20 0.53
20 2 0.05
22 12 0.32
23 4 0.11
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.17
Consensus pattern (19 bp):
AACAAAATAATGAAATAAC
Found at i:14466819 original size:13 final size:13
Alignment explanation
Indices: 14466798--14466866 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
14466788 TAAATATCTT
* *
14466798 GTTTGAAAAGTAA
1 GTTTAAAAAATAA
14466811 GTTTAAAAAATAA
1 GTTTAAAAAATAA
14466824 GTTTAGGAAAAA-AA
1 GTTTA--AAAAATAA
14466838 ---TAAAAATATAA
1 GTTTAAAAA-ATAA
*
14466849 GTTCAAAAAATAA
1 GTTTAAAAAATAA
14466862 GTTTA
1 GTTTA
14466867 GGTAAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
9 4 0.09
10 1 0.02
11 4 0.09
13 24 0.53
14 7 0.16
15 5 0.11
ACGTcount: A:0.57, C:0.01, G:0.13, T:0.29
Consensus pattern (13 bp):
GTTTAAAAAATAA
Found at i:14466875 original size:17 final size:17
Alignment explanation
Indices: 14466814--14466875 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
14466804 AAAGTAAGTT
14466814 TAAAAAATAAGTTTAGG
1 TAAAAAATAAGTTTAGG
* * * *
14466831 AAAAAAATAAAAATATAAGT
1 TAAAAAAT--AAGT-TTAGG
14466851 TCAAAAAATAAGTTTAGG
1 T-AAAAAATAAGTTTAGG
14466869 TAAAAAA
1 TAAAAAA
14466876 AAAGACCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
17 13 0.39
18 4 0.12
19 6 0.18
20 3 0.09
21 7 0.21
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (17 bp):
TAAAAAATAAGTTTAGG
Found at i:14466997 original size:22 final size:22
Alignment explanation
Indices: 14466959--14467004 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14466949 AAAGAAATTG
* *
14466959 TTGTTTTGTTTCTATTTTTCTA
1 TTGTTTTGTATCTATTTTACTA
14466981 TTGTTTTGCTATC-ATTTTACTA
1 TTGTTTTG-TATCTATTTTACTA
14467003 TT
1 TT
14467005 ATGTTATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGTTTTGTATCTATTTTACTA
Found at i:14472670 original size:21 final size:22
Alignment explanation
Indices: 14472644--14472685 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
14472634 AAAATAAATA
*
14472644 ATTTAATCATA-TTTTAATATT
1 ATTTAATAATATTTTTAATATT
14472665 ATTTAATAATATTTTTAATAT
1 ATTTAATAATATTTTTAATAT
14472686 AATTATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTAATAATATTTTTAATATT
Found at i:14473531 original size:15 final size:15
Alignment explanation
Indices: 14473511--14473564 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
14473501 ATACTACAAA
14473511 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
14473526 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
14473543 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
14473560 ATATT
1 ATATT
14473565 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:14473628 original size:16 final size:16
Alignment explanation
Indices: 14473597--14473633 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14473587 ATGTGAATAA
14473597 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
14473613 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
14473629 TATTA
1 TATTA
14473634 AAACAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Done.