Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 42 of 163
Found at i:13698142 original size:41 final size:41
Alignment explanation
Indices: 13698083--13698163 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
13698073 AATGCGTACT
*
13698083 CCAATTCTTCTATAATCTTTTTCATTTCTTCAATCTTGCAA
1 CCAATTCTTCTACAATCTTTTTCATTTCTTCAATCTTGCAA
*
13698124 CCAATTCTTCTACCATCTTTTTCATTTCTTCAATCTTGCA
1 CCAATTCTTCTACAATCTTTTTCATTTCTTCAATCTTGCA
13698164 CAGACTTGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.22, C:0.27, G:0.02, T:0.48
Consensus pattern (41 bp):
CCAATTCTTCTACAATCTTTTTCATTTCTTCAATCTTGCAA
Found at i:13707047 original size:47 final size:47
Alignment explanation
Indices: 13706955--13707047 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
13706945 CTTTAGCCGA
*
13706955 CTGAGTCTTAACTCGACCAGCATAAATATTGTAATCAATATAGGAGC
1 CTGAGTCTTAACTCGACCAGCATAAATATTGTAATCAATACAGGAGC
* * *
13707002 CTGAGTCTTAACTCGATCGGCATAAATATTGTAATCAATGCAGGAG
1 CTGAGTCTTAACTCGACCAGCATAAATATTGTAATCAATACAGGAG
13707048 AACGTGAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (47 bp):
CTGAGTCTTAACTCGACCAGCATAAATATTGTAATCAATACAGGAGC
Found at i:13707801 original size:22 final size:22
Alignment explanation
Indices: 13707776--13707818 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13707766 CAAGTTATGT
13707776 CCAAGAAATCAAACTTA-AATTA
1 CCAAGAAATCAAA-TTAGAATTA
*
13707798 CCAAGAATTCAAATTAGAATT
1 CCAAGAAATCAAATTAGAATT
13707819 GAACAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (22 bp):
CCAAGAAATCAAATTAGAATTA
Found at i:13719889 original size:20 final size:20
Alignment explanation
Indices: 13719864--13719903 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13719854 TAATGCAAAT
* *
13719864 ACAGAGGCACTGAAGTGCGA
1 ACAGAGACACCGAAGTGCGA
13719884 ACAGAGACACCGAAGTGCGA
1 ACAGAGACACCGAAGTGCGA
13719904 TCCCGTACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.33, T:0.07
Consensus pattern (20 bp):
ACAGAGACACCGAAGTGCGA
Found at i:13720950 original size:16 final size:18
Alignment explanation
Indices: 13720910--13720951 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
13720900 TTTTTTAATG
*
13720910 TTTTACTTATTATTATAA
1 TTTTAATTATTATTATAA
*
13720928 TTATAATTATT-TT-TAA
1 TTTTAATTATTATTATAA
13720944 TTTTAATT
1 TTTTAATT
13720952 TAATGAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 10 0.48
17 2 0.10
18 9 0.43
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAATTATTATTATAA
Found at i:13729195 original size:23 final size:23
Alignment explanation
Indices: 13729169--13729217 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
13729159 TTCTTTTTTA
*
13729169 TTTTTTATTTTTTTTC-CTTCTCC
1 TTTTTCATTTTTTTTCTC-TCTCC
*
13729192 TTTTTCCTTTTTTTTCTCTCTCC
1 TTTTTCATTTTTTTTCTCTCTCC
13729215 TTT
1 TTT
13729218 CCTTTTCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTCATTTTTTTTCTCTCTCC
Found at i:13729218 original size:21 final size:22
Alignment explanation
Indices: 13729176--13729223 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
13729166 TTATTTTTTA
13729176 TTTTTTTTCCTTCTCCTTTTTCC
1 TTTTTTTTCCTTCTCC-TTTTCC
13729199 TTTTTTTT-CTCTCTCC-TTTCC
1 TTTTTTTTCCT-TCTCCTTTTCC
13729220 TTTT
1 TTTT
13729224 CCTCATCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 2 0.08
23 13 0.54
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTTTCCTTCTCCTTTTCC
Found at i:13730248 original size:25 final size:25
Alignment explanation
Indices: 13730219--13730271 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
13730209 TAATAATTTA
13730219 TGTTAAATAGATTTTGGTAAACCTT
1 TGTTAAATAGATTTTGGTAAACCTT
13730244 TGTTAAATAGATTTTGGTAAACCTT
1 TGTTAAATAGATTTTGGTAAACCTT
13730269 TGT
1 TGT
13730272 GCTTTGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (25 bp):
TGTTAAATAGATTTTGGTAAACCTT
Found at i:13733192 original size:16 final size:18
Alignment explanation
Indices: 13733156--13733192 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13733146 ATCTTTATTT
*
13733156 AAATAAAATATATAGGTA
1 AAATAAAATATATAAGTA
13733174 AAATAAAATA-A-AAGTA
1 AAATAAAATATATAAGTA
13733190 AAA
1 AAA
13733193 ATCCCTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (18 bp):
AAATAAAATATATAAGTA
Found at i:13745152 original size:19 final size:21
Alignment explanation
Indices: 13745050--13745146 Score: 153
Period size: 21 Copynumber: 4.7 Consensus size: 21
13745040 ATCTTCAAGG
*
13745050 ATATGCAATCTTAGATATG--
1 ATATTCAATCTTAGATATGAT
*
13745069 ATATGCAATCTTAGATATGAT
1 ATATTCAATCTTAGATATGAT
*
13745090 ATATTCATTCTTAGATATGAT
1 ATATTCAATCTTAGATATGAT
13745111 ATATTCAATCTTAGATATGAT
1 ATATTCAATCTTAGATATGAT
13745132 ATATTCAATCTTAGA
1 ATATTCAATCTTAGA
13745147 ATATATGATT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
19 19 0.26
21 54 0.74
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.41
Consensus pattern (21 bp):
ATATTCAATCTTAGATATGAT
Found at i:13745417 original size:23 final size:23
Alignment explanation
Indices: 13745373--13745417 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13745363 TCTTATTTTG
* *
13745373 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
13745396 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
13745418 CAAATCTCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:13747769 original size:33 final size:33
Alignment explanation
Indices: 13747731--13747796 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
13747721 AAGTTTTCTA
* *
13747731 AATGTAATTAAATCAGAATCAACGTCTCTTTAG
1 AATGTAATTAAATCAAAATCAACGTCACTTTAG
13747764 AATGTAATTAAATCAAAATCAACGTCACTTTAG
1 AATGTAATTAAATCAAAATCAACGTCACTTTAG
13747797 GCATTCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (33 bp):
AATGTAATTAAATCAAAATCAACGTCACTTTAG
Found at i:13752325 original size:44 final size:44
Alignment explanation
Indices: 13752275--13752966 Score: 1066
Period size: 44 Copynumber: 15.8 Consensus size: 44
13752265 ATTAGTCTTG
** *
13752275 TCTCCCTGGAAAGCAGTGGAATAGGTTCAAGATTGT-AAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTA
** * *
13752319 TCTCCCTAATCAGTAGCGGAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* * *
13752363 TCTCCCTAGTTAGCAGTGGAATAGGTTTAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* *
13752407 TCTCCCTGGACAGCAGTGTAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* *
13752451 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTGAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
13752495 TCTCCCTGGTCAGCAGT-GAATAGGTTGAAGATTGT-AAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTA
* *
13752538 TCTCCCTGGTCAGCAGTGAAATAGGTTGAAGATTGTGAATCGTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
13752582 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* * *
13752626 TCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTATGAATCATA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
** *
13752670 TCTCCCCAGTCAGTAGTGGAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
*
13752714 TCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* *
13752758 TCTCCCTGGCCAGCAGTGGAATAGGTTGAAGATTTTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* * *
13752802 TCTCCCTAGTCAGCAGTGGAATATGTTGAAGATTTTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* *
13752846 TCTCCCTAGTCAGCAGTGGAATATGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
13752890 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
*
13752934 TTTCCCTGGTCAGCAGTGGAATAGGTTGAAGAT
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGAT
13752967 GGAGCAGATC
Statistics
Matches: 595, Mismatches: 49, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
42 1 0.00
43 39 0.07
44 551 0.93
45 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
Found at i:13753309 original size:44 final size:44
Alignment explanation
Indices: 13753246--13753367 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
13753236 TAAAAATTAC
* * ** *
13753246 AGATTTTATCTCCCT-AAGTTGCAGTGGAGTAGATTGAAGCCAGT
1 AGATCTTATCTCACTGAAGTTGCAGTGGAGTAGATT-AAAACAAT
* * ** *
13753290 A-ATCTTATCTCACTGAAGTTACAATGGAACAGATTAAAATAAT
1 AGATCTTATCTCACTGAAGTTGCAGTGGAGTAGATTAAAACAAT
* *
13753333 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 AGATCTTATCTCACTGAAGTTGCAGTGGAGTAGAT
13753368 CGTATCAGGT
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
43 16 0.27
44 44 0.73
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (44 bp):
AGATCTTATCTCACTGAAGTTGCAGTGGAGTAGATTAAAACAAT
Found at i:13753791 original size:21 final size:21
Alignment explanation
Indices: 13753766--13753809 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
13753756 ATCTTCGAGG
13753766 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
13753787 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
13753808 AT
1 AT
13753810 GTAATCTTAN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:13753815 original size:19 final size:19
Alignment explanation
Indices: 13753765--13753818 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 19
13753755 AATCTTCGAG
13753765 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13753784 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
13753805 GATATGTAATCTTA
1 GATATGCAATCTTA
13753819 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.41
21 19 0.59
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13756446 original size:20 final size:20
Alignment explanation
Indices: 13756423--13756461 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13756413 AATTAAGGGT
*
13756423 AAAATTGGAATATTGCAAAA
1 AAAATTGGAATATTACAAAA
13756443 AAAATTGGAATATTACAAA
1 AAAATTGGAATATTACAAA
13756462 CTTTGCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (20 bp):
AAAATTGGAATATTACAAAA
Found at i:13766399 original size:25 final size:25
Alignment explanation
Indices: 13766365--13766414 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
13766355 CATATGGCAT
*
13766365 CAATTACCAAACCAACCAAAATAAC
1 CAATTACCAAACCAACAAAAATAAC
13766390 CAATTACCAAACCAACAAAAATAAC
1 CAATTACCAAACCAACAAAAATAAC
13766415 ATTAAGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (25 bp):
CAATTACCAAACCAACAAAAATAAC
Found at i:13767007 original size:13 final size:13
Alignment explanation
Indices: 13766991--13767079 Score: 90
Period size: 13 Copynumber: 6.6 Consensus size: 13
13766981 ATATAACTGA
13766991 TTCATATAACCAT
1 TTCATATAACCAT
* *
13767004 TTCATATATCTATT
1 TTCATATAACCA-T
*
13767018 TTCATATACCCAT
1 TTCATATAACCAT
*
13767031 TTCATAT-ATCATTT
1 TTCATATAACCA--T
*
13767045 TTCCATATAACCAG
1 TT-CATATAACCAT
13767059 TTCATATAACCAT
1 TTCATATAACCAT
13767072 TTCATATA
1 TTCATATA
13767080 TTATTTTTCT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
12 2 0.03
13 36 0.58
14 16 0.26
15 5 0.08
16 3 0.05
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.44
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:13767013 original size:41 final size:41
Alignment explanation
Indices: 13766923--13767019 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
13766913 CAATGTTTTA
* *
13766923 TTCATATATC-TATTTCCATATAACTGATTCATATAACCAT
1 TTCATATATCATTTTTACATATAACTGATTCATATAACCAT
*
13766963 TAT-ACATATCATTTTTACATATAACTGATTCATATAACCAT
1 T-TCATATATCATTTTTACATATAACTGATTCATATAACCAT
13767004 TTCATATATCTATTTT
1 TTCATATATC-ATTTT
13767020 CATATACCCA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 8 0.16
41 36 0.73
42 5 0.10
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (41 bp):
TTCATATATCATTTTTACATATAACTGATTCATATAACCAT
Found at i:13767023 original size:27 final size:26
Alignment explanation
Indices: 13766991--13767079 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
13766981 ATATAACTGA
13766991 TTCATATAACCATTTCATATATCTATT
1 TTCATATAACCATTTCATATATC-ATT
*
13767018 TTCATATACCCATTTCATATATCATTT
1 TTCATATAACCATTTCATATATCA-TT
* *
13767045 TTCCATATAACCAGTTCATATAACCA-T
1 TT-CATATAACCATTTCATAT-ATCATT
13767072 TTCATATA
1 TTCATATA
13767080 TTATTTTTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.13
27 29 0.53
28 16 0.29
29 3 0.05
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.44
Consensus pattern (26 bp):
TTCATATAACCATTTCATATATCATT
Found at i:13767088 original size:68 final size:68
Alignment explanation
Indices: 13766950--13767086 Score: 199
Period size: 68 Copynumber: 2.0 Consensus size: 68
13766940 ATATAACTGA
*
13766950 TTCATATAACCATTATACATATCATTTTTACATATAACTGATTCATATAACCATTTCATATATCT
1 TTCATATAACCATTATACATATCATTTTTACATATAACAGATTCATATAACCATTTCATATATCT
13767015 ATT
66 ATT
* * *
13767018 TTCATATACCCATT-TCATATATCATTTTTCCATATAACCAG-TTCATATAACCATTTCATATAT
1 TTCATATAACCATTAT-ACATATCATTTTTACATATAA-CAGATTCATATAACCATTTCATATAT
13767081 -TATT
64 CTATT
13767085 TT
1 TT
13767087 TCTCATCCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
67 7 0.11
68 54 0.86
69 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.45
Consensus pattern (68 bp):
TTCATATAACCATTATACATATCATTTTTACATATAACAGATTCATATAACCATTTCATATATCT
ATT
Found at i:13769030 original size:157 final size:158
Alignment explanation
Indices: 13768744--13769055 Score: 500
Period size: 157 Copynumber: 2.0 Consensus size: 158
13768734 AAACCACTTA
* *
13768744 TACTTAACTATTCATTCAATTAACAAAATTTATTATATAAAAATTAAATATTATACTATATTTGA
1 TACTTAACTATTCATTCAATTAACAAAATTTATCACATAAAAATTAAATATTATACTATATTTGA
*
13768809 CCCATAAATATTAAATAATAATATTTACAAACTCACTCGTGGAATTTGTGGTAAGATGCTATGAC
66 CCCATAAATATTAAATAATAATATTTACAAACTCACTCGTGGAATTTATGGTAAGATGCTATGAC
* *
13768874 AACCAGGTATAATGAGTAAG-CCATTTG
131 AACCAAGAATAATGAGTAAGACCATTTG
* * *
13768901 TACTTAATTATTCATTCAATTAACAAAATTTATCACATAAAATTTTAATATTATACTATATTTGA
1 TACTTAACTATTCATTCAATTAACAAAATTTATCACATAAAAATTAAATATTATACTATATTTGA
* * * *
13768966 CTCATAAATATTAAATAATACTATTTACAGACTCACTCGTGGGATTTATGGTAAGATGCTATGAC
66 CCCATAAATATTAAATAATAATATTTACAAACTCACTCGTGGAATTTATGGTAAGATGCTATGAC
*
13769031 AGCCAAGAATAATGAGTAAGACCAT
131 AACCAAGAATAATGAGTAAGACCAT
13769056 GGATGAAAGA
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
157 137 0.97
158 4 0.03
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (158 bp):
TACTTAACTATTCATTCAATTAACAAAATTTATCACATAAAAATTAAATATTATACTATATTTGA
CCCATAAATATTAAATAATAATATTTACAAACTCACTCGTGGAATTTATGGTAAGATGCTATGAC
AACCAAGAATAATGAGTAAGACCATTTG
Found at i:13773147 original size:19 final size:18
Alignment explanation
Indices: 13773103--13773148 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
13773093 GAGTTAAACG
* * *
13773103 AATCGAGTTATTCGAGTT
1 AATCGAATTATTCGAATC
13773121 AATCGAATTATTCGAATC
1 AATCGAATTATTCGAATC
13773139 AACTCGAATT
1 AA-TCGAATT
13773149 TTTTTTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
AATCGAATTATTCGAATC
Found at i:13773167 original size:30 final size:29
Alignment explanation
Indices: 13773130--13773205 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
13773120 TAATCGAATT
**
13773130 ATTCGAATCAACTCGAATT-TTTTTTTCGA
1 ATTCGAATCAACTCGAATTGAGTTTTT-GA
*
13773159 ATTTCGAATCGAA-TCGAGTTGAGTTTTTGA
1 A-TTCGAATC-AACTCGAATTGAGTTTTTGA
13773189 ATTCGAAT-AACTCGAAT
1 ATTCGAATCAACTCGAAT
13773206 AATTCNNNNN
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
27 2 0.05
28 5 0.13
29 8 0.21
30 17 0.44
31 7 0.18
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (29 bp):
ATTCGAATCAACTCGAATTGAGTTTTTGA
Found at i:13774124 original size:21 final size:20
Alignment explanation
Indices: 13774098--13774139 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
13774088 ATTAAAAAGG
*
13774098 TAAAAATATAATAATATTTTA
1 TAAAAAAATAAT-ATATTTTA
*
13774119 TAAAAAAATTATATATTTTA
1 TAAAAAAATAATATATTTTA
13774139 T
1 T
13774140 GCTCAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAAAAATAATATATTTTA
Found at i:13776273 original size:14 final size:14
Alignment explanation
Indices: 13776254--13776281 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13776244 CATGTACAAA
13776254 GGTATGGCATCAAG
1 GGTATGGCATCAAG
13776268 GGTATGGCATCAAG
1 GGTATGGCATCAAG
13776282 TTCCACTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (14 bp):
GGTATGGCATCAAG
Found at i:13781504 original size:68 final size:69
Alignment explanation
Indices: 13781431--13781560 Score: 208
Period size: 68 Copynumber: 1.9 Consensus size: 69
13781421 TTTAATAGTT
* *
13781431 TTAATATTAAATTAAATTTAATAAATATCTTGAT-AGTATTTTATTAATTTAATATTAAAGTAAT
1 TTAATATTAAATTAAATCTAATAAATATCTTGATAAGTATTATATTAATTTAATATTAAAGTAAT
13781495 TATC
66 TATC
* **
13781499 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATCTAATAAATATCTTGATAAGTATTATATTAATTTAATATTAAAGT
13781561 GATCAAGTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
68 30 0.54
69 26 0.46
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (69 bp):
TTAATATTAAATTAAATCTAATAAATATCTTGATAAGTATTATATTAATTTAATATTAAAGTAAT
TATC
Found at i:13789703 original size:26 final size:26
Alignment explanation
Indices: 13789667--13789726 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
13789657 CCTACAGTAG
13789667 TTTCAGAATATCATAACATATATCAA
1 TTTCAGAATATCATAACATATATCAA
* * * *
13789693 TTTCGGAATATCATAGCATGTATCAG
1 TTTCAGAATATCATAACATATATCAA
13789719 TTTCAGAA
1 TTTCAGAA
13789727 CACTTACAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (26 bp):
TTTCAGAATATCATAACATATATCAA
Found at i:13796248 original size:8 final size:8
Alignment explanation
Indices: 13796235--13796262 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
13796225 AAGAGTTTGA
13796235 CATGTCAG
1 CATGTCAG
13796243 CATGTCAG
1 CATGTCAG
13796251 CATGTCAG
1 CATGTCAG
13796259 CATG
1 CATG
13796263 ATAGCCGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (8 bp):
CATGTCAG
Found at i:13797885 original size:26 final size:27
Alignment explanation
Indices: 13797832--13797890 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
13797822 GTTACTTGAA
*
13797832 AAATAAATTGAATTAGAAAAACATATT
1 AAATAAATTGAATAAGAAAAACATATT
* *
13797859 AAATAAATTGGATAAG-AAAATATATT
1 AAATAAATTGAATAAGAAAAACATATT
13797885 AAATAA
1 AAATAA
13797891 GAATATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATAAATTGAATAAGAAAAACATATT
Found at i:13797890 original size:17 final size:18
Alignment explanation
Indices: 13797870--13797903 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13797860 AATAAATTGG
13797870 ATAAGAAAAT-ATATTAA
1 ATAAGAAAATAATATTAA
*
13797887 ATAAGAATATAATATTA
1 ATAAGAAAATAATATTA
13797904 TTTTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
ATAAGAAAATAATATTAA
Found at i:13800007 original size:2 final size:2
Alignment explanation
Indices: 13800000--13800024 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13799990 GATTTATCAA
13800000 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 A
13800025 ACTACGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13806032 original size:21 final size:21
Alignment explanation
Indices: 13806007--13806058 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
13805997 GCGGTGGCAG
*
13806007 TGAGATTAGTTACTGTAGCGA
1 TGAGATTAGATACTGTAGCGA
* *
13806028 TGAGATTGGATACTGTAGCGG
1 TGAGATTAGATACTGTAGCGA
*
13806049 TAAGATTAGA
1 TGAGATTAGA
13806059 AATAATGGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCGA
Found at i:13813805 original size:27 final size:27
Alignment explanation
Indices: 13813782--13813845 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
13813772 ATTTGTGAAT
*
13813782 ACTGACTTTGTGGTGACCGATGTGGAG
1 ACTGACTTTGTGGTAACCGATGTGGAG
* *
13813809 ACTGACTCTGTGGTAACTGATGTGGAG
1 ACTGACTTTGTGGTAACCGATGTGGAG
13813836 ACTGACTTTG
1 ACTGACTTTG
13813846 GGGAAGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (27 bp):
ACTGACTTTGTGGTAACCGATGTGGAG
Found at i:13816843 original size:25 final size:25
Alignment explanation
Indices: 13816736--13816847 Score: 111
Period size: 25 Copynumber: 4.5 Consensus size: 25
13816726 GTCATTAGGG
*
13816736 TTACTGAT-TTCAACTTGTATGAGC
1 TTACTGATATTCAACTTGCATGAGC
* * *
13816760 TTA-TCGATACTCAGCTTGTATGAGC
1 TTACT-GATATTCAACTTGCATGAGC
* * *
13816785 TTACTAATACTCAGCTTGCATGAGC
1 TTACTGATATTCAACTTGCATGAGC
* *
13816810 TTACCGTTATTCAACTTGCATGAGC
1 TTACTGATATTCAACTTGCATGAGC
*
13816835 TTACTGTTATTCA
1 TTACTGATATTCA
13816848 GTTTAGAGGA
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.01
24 6 0.08
25 67 0.89
26 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (25 bp):
TTACTGATATTCAACTTGCATGAGC
Found at i:13824779 original size:21 final size:21
Alignment explanation
Indices: 13824755--13824927 Score: 188
Period size: 21 Copynumber: 8.3 Consensus size: 21
13824745 ATTTTTTACT
*
13824755 TTCTGTTTAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * * * * *
13824776 TTCTATTTAACTTTTACTAGT
1 TTCTGTTCAGCTCTTACGAGC
13824797 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
13824818 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
*
13824839 TTCTGTTCAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
13824860 TTCTATTTAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
* *
13824881 TTCTGTTTAGCTCTTACAAGC
1 TTCTGTTCAGCTCTTACGAGC
13824902 TTCTGTTCAG--CTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
13824921 TTCTGTT
1 TTCTGTT
13824928 AACGATGTAC
Statistics
Matches: 125, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
19 15 0.12
21 110 0.88
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:13824809 original size:42 final size:42
Alignment explanation
Indices: 13824754--13824905 Score: 207
Period size: 42 Copynumber: 3.6 Consensus size: 42
13824744 CATTTTTTAC
* *
13824754 TTTCTGTTTAGCTCTTACGAGCTTCTATTTAACTTTTACT-AG
1 TTTCTGTTCAGCTCTTACGAGCTTCTATTTAACTCTTA-TGAG
* *
13824796 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTATTTAACTCTTATGAG
* *
13824838 TTTCTGTTCAGCTCTTTCGAGCTTCTATTTAGCTCTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTATTTAACTCTTATGAG
* * *
13824880 CTTCTGTTTAGCTCTTACAAGCTTCT
1 TTTCTGTTCAGCTCTTACGAGCTTCT
13824906 GTTCAGCTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 1 0.01
42 96 0.99
ACGTcount: A:0.16, C:0.22, G:0.14, T:0.47
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACGAGCTTCTATTTAACTCTTATGAG
Found at i:13824895 original size:84 final size:84
Alignment explanation
Indices: 13824754--13824910 Score: 235
Period size: 84 Copynumber: 1.9 Consensus size: 84
13824744 CATTTTTTAC
* * * *
13824754 TTTCTGTTTAGCTCTTACGAGCTTCTATTTAACTTTTACTAGTTTCTGTTCAGCTCTTACGAGCT
1 TTTCTGTTCAGCTCTTACGAGCTTCTATTTAACTCTTACTAGCTTCTGTTCAGCTCTTACAAGCT
13824819 TCTGTTCAACTCTTATGAG
66 TCTGTTCAACTCTTATGAG
* * *
13824838 TTTCTGTTCAGCTCTTTCGAGCTTCTATTTAGCTCTTA-TGAGCTTCTGTTTAGCTCTTACAAGC
1 TTTCTGTTCAGCTCTTACGAGCTTCTATTTAACTCTTACT-AGCTTCTGTTCAGCTCTTACAAGC
13824902 TTCTGTTCA
65 TTCTGTTCA
13824911 GCTTACGAGC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
83 1 0.02
84 64 0.98
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (84 bp):
TTTCTGTTCAGCTCTTACGAGCTTCTATTTAACTCTTACTAGCTTCTGTTCAGCTCTTACAAGCT
TCTGTTCAACTCTTATGAG
Found at i:13825751 original size:15 final size:15
Alignment explanation
Indices: 13825731--13825768 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
13825721 TCAGTCGTGT
13825731 GTGACACACGGCCAA
1 GTGACACACGGCCAA
13825746 GTGACACACGGCCAA
1 GTGACACACGGCCAA
13825761 GTGACACA
1 GTGACACA
13825769 GTCGTGTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.32, G:0.26, T:0.08
Consensus pattern (15 bp):
GTGACACACGGCCAA
Found at i:13825937 original size:56 final size:56
Alignment explanation
Indices: 13825822--13825938 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 56
13825812 CTCAGTTTTT
* * * * * * *
13825822 TCACATGGCCTAGCACACGGGTGTGTGGTTTGGCCGTGTGACCTAAGTCAGTATAC
1 TCACACGGCCTAGCACACGGGCGTCTGGCTTGGCCATGTGACCCAAGTCAGTAGAC
*
13825878 TCACACGGCCTAGCACACGGGCGTCTGGCTTGGCCATGTGACCCAAGTTAG-AGAGC
1 TCACACGGCCTAGCACACGGGCGTCTGGCTTGGCCATGTGACCCAAGTCAGTAGA-C
13825934 TCACA
1 TCACA
13825939 AGTTTGGATA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 2 0.04
56 50 0.96
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.22
Consensus pattern (56 bp):
TCACACGGCCTAGCACACGGGCGTCTGGCTTGGCCATGTGACCCAAGTCAGTAGAC
Found at i:13827576 original size:2 final size:2
Alignment explanation
Indices: 13827569--13827595 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13827559 TAGGTGTGAA
13827569 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 A
13827596 AAAATTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13828323 original size:16 final size:16
Alignment explanation
Indices: 13828299--13828330 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13828289 AGTCTCACAA
13828299 TTCTAAAAATTAGATC
1 TTCTAAAAATTAGATC
*
13828315 TTCTTAAAATTAGATC
1 TTCTAAAAATTAGATC
13828331 AAACTAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
TTCTAAAAATTAGATC
Found at i:13828402 original size:26 final size:26
Alignment explanation
Indices: 13828373--13828424 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
13828363 AAAAGTAAGA
* *
13828373 AAAGATGTATTGGAATAAAAATAAAT
1 AAAGATCTATTGAAATAAAAATAAAT
13828399 AAAGATCTATTGAAATAAAAATAAAT
1 AAAGATCTATTGAAATAAAAATAAAT
13828425 TGACCGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.27
Consensus pattern (26 bp):
AAAGATCTATTGAAATAAAAATAAAT
Found at i:13829999 original size:12 final size:12
Alignment explanation
Indices: 13829982--13830009 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13829972 ATTTATTCGG
13829982 TAATATTTATTT
1 TAATATTTATTT
13829994 TAATATTTATTT
1 TAATATTTATTT
13830006 TAAT
1 TAAT
13830010 GTTTTTGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TAATATTTATTT
Found at i:13832941 original size:18 final size:18
Alignment explanation
Indices: 13832918--13832960 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13832908 ACCCAATCTA
**
13832918 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
13832936 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
13832954 AACCCAA
1 AACCCAA
13832961 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:13833171 original size:9 final size:9
Alignment explanation
Indices: 13833075--13833170 Score: 131
Period size: 9 Copynumber: 10.7 Consensus size: 9
13833065 TTCAATTTGC
*
13833075 TTAATTTGG
1 TTAATTCGG
13833084 TTAATTCGG
1 TTAATTCGG
*
13833093 GTAATTCGG
1 TTAATTCGG
13833102 TTAATTCGG
1 TTAATTCGG
*
13833111 GTAATTCGAG
1 TTAATTCG-G
13833121 -TAATTCGG
1 TTAATTCGG
*
13833129 GTAATTCGG
1 TTAATTCGG
13833138 TTAATTCGG
1 TTAATTCGG
13833147 TTAATTCGG
1 TTAATTCGG
*
13833156 TTAATTTGG
1 TTAATTCGG
13833165 TTAATT
1 TTAATT
13833171 TTTAACCAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
8 1 0.01
9 77 0.97
10 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (9 bp):
TTAATTCGG
Found at i:13833318 original size:12 final size:12
Alignment explanation
Indices: 13833301--13833325 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13833291 TGTTATTTCG
13833301 GGTCGGTTAACT
1 GGTCGGTTAACT
13833313 GGTCGGTTAACT
1 GGTCGGTTAACT
13833325 G
1 G
13833326 AATGAATACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (12 bp):
GGTCGGTTAACT
Found at i:13837563 original size:39 final size:39
Alignment explanation
Indices: 13837520--13837797 Score: 403
Period size: 39 Copynumber: 7.1 Consensus size: 39
13837510 AATATAAATA
13837520 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
* * * *
13837559 CGGTGATTATTCAGGCTATATACCTAGTAGGCTGTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
* * *
13837598 CGGTGATTATTCGGGCTATGTGCCTAGCAAGCTGTATAC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
13837637 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
* * * * **
13837676 CAGTAATTATTCAGGTTATGTGCCTAGCAAACTGTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
* **
13837715 CAGTGATTATTCGGGCTATGTGCCTAGCAAACTGTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
*
13837754 CGGTGATTATTCGGGCTATATGCCTAGCAGGCTGTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
13837793 CGGTG
1 CGGTG
13837798 TGATTGAAAA
Statistics
Matches: 212, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 212 1.00
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (39 bp):
CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC
Found at i:13842524 original size:25 final size:25
Alignment explanation
Indices: 13842477--13842524 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13842467 TCGCTTTTAC
* * *
13842477 CTTTTGTTTTCCTTTTGTTTTTCCA
1 CTTTTATTTTCCTTTTCTCTTTCCA
*
13842502 CTTTTATTTTCTTTTTCTCTTTC
1 CTTTTATTTTCCTTTTCTCTTTC
13842525 AATCTTTTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.71
Consensus pattern (25 bp):
CTTTTATTTTCCTTTTCTCTTTCCA
Found at i:13848029 original size:9 final size:9
Alignment explanation
Indices: 13847999--13848028 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13847989 TATTAATAAA
13847999 AAAATATAT
1 AAAATATAT
13848008 AAAATATAT
1 AAAATATAT
13848017 AAAATA-AT
1 AAAATATAT
13848025 AAAA
1 AAAA
13848029 AGTTCAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATATAT
Found at i:13848202 original size:15 final size:15
Alignment explanation
Indices: 13848164--13848207 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
13848154 ATTATAAGCT
13848164 TTTTATATATTTTAA
1 TTTTATATATTTTAA
*
13848179 TTGTATATATTTTTATA
1 TTTTATATA-TTTTA-A
*
13848196 TTTTATAGATTT
1 TTTTATATATTT
13848208 AAAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.33
16 8 0.33
17 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
TTTTATATATTTTAA
Found at i:13848202 original size:17 final size:16
Alignment explanation
Indices: 13848164--13848207 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
13848154 ATTATAAGCT
13848164 TTTTATATA-TTTTAA
1 TTTTATATATTTTTAA
*
13848179 TTGTATATATTTTTATA
1 TTTTATATATTTTTA-A
*
13848196 TTTTATAGATTT
1 TTTTATATATTT
13848208 AAAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 11 0.46
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTTATATATTTTTAA
Found at i:13849875 original size:60 final size:60
Alignment explanation
Indices: 13849791--13849954 Score: 283
Period size: 60 Copynumber: 2.7 Consensus size: 60
13849781 ACGTTATATT
* * *
13849791 TTCTATTTGGCGTGTTTCGAGTGGATCAGCTCTTATGAGCTTCTGTTCAACTCTTATAAGC
1 TTCTATTT-GTGTGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGTTCAACTCTTATAAGC
*
13849852 TTCTATTTGTGTGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGC
1 TTCTATTTGTGTGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGTTCAACTCTTATAAGC
13849912 TTCTATTTGTGTGTTTCGGGTGGACCAGCTCTTATGAGCTTCT
1 TTCTATTTGTGTGTTTCGGGTGGACCAGCTCTTATGAGCTTCT
13849955 ATTTGGCATA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
60 91 0.92
61 8 0.08
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (60 bp):
TTCTATTTGTGTGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGTTCAACTCTTATAAGC
Found at i:13849985 original size:40 final size:39
Alignment explanation
Indices: 13849897--13849994 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 39
13849887 GAGCTTCTGT
*
13849897 TCAACTCTTATGAGCTTCTATTTGTGTGTTTCGGGTGGA
1 TCAACTCTTATGAGCTTCTATTTGTGTATTTCGGGTGGA
* * *
13849936 CCAGCTCTTATGAGCTTCTATTTG-GCATATTTCGGTTGGA
1 TCAACTCTTATGAGCTTCTATTTGTG--TATTTCGGGTGGA
*
13849976 TCAAATCTTATGAGCTTCT
1 TCAACTCTTATGAGCTTCT
13849995 GTGTGGTGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.02
39 22 0.44
40 27 0.54
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (39 bp):
TCAACTCTTATGAGCTTCTATTTGTGTATTTCGGGTGGA
Found at i:13853331 original size:16 final size:16
Alignment explanation
Indices: 13853310--13853343 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13853300 CCAATATTCA
* *
13853310 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
13853326 ATTATCACATTTACAC
1 ATTATCACATTTACAC
13853342 AT
1 AT
13853344 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:13854777 original size:25 final size:25
Alignment explanation
Indices: 13854732--13854805 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
13854722 ACGAGCTGTA
* * *
13854732 AACGGTAAGCTCCTCCAAGCTAAAT
1 AACGGTAAGCTCATACGAGCTAAAT
*
13854757 AACGGTAAGCTCATGCGAGCTGAGAAT
1 AACGGTAAGCTCATACGAGCT-A-AAT
*
13854784 --CGATAAGCTCATACGAGCTAAA
1 AACGGTAAGCTCATACGAGCTAAA
13854806 ATTGGTAACC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
23 2 0.05
24 1 0.02
25 35 0.83
26 1 0.02
27 3 0.07
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTAAAT
Found at i:13859354 original size:3 final size:3
Alignment explanation
Indices: 13859346--13859396 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
13859336 ATTATAAAGT
*
13859346 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
13859392 TAA TA
1 TAA TA
13859397 TTATTTACTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:13859533 original size:14 final size:14
Alignment explanation
Indices: 13859514--13859559 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
13859504 TATTTAAAAT
13859514 ATAATAATAATTTA
1 ATAATAATAATTTA
*
13859528 ATAATACTAATTTA
1 ATAATAATAATTTA
13859542 ATAATAATAATTTA
1 ATAATAATAATTTA
13859556 ATAA
1 ATAA
13859560 CATTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:13860753 original size:21 final size:20
Alignment explanation
Indices: 13860723--13860761 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13860713 TTTTGGGGTA
*
13860723 AAGGGTGAAAAATAAAAGTTT
1 AAGGGGGAAAAA-AAAAGTTT
*
13860744 AAGGGGGAAATAAAAAGT
1 AAGGGGGAAAAAAAAAGT
13860762 CTTGAGGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (20 bp):
AAGGGGGAAAAAAAAAGTTT
Found at i:13861442 original size:21 final size:20
Alignment explanation
Indices: 13861412--13861450 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13861402 TTTTGGGGTA
*
13861412 AAGGGTGAAAAATAAAAGTTT
1 AAGGGGGAAAAA-AAAAGTTT
*
13861433 AAGGGGGAAATAAAAAGT
1 AAGGGGGAAAAAAAAAGT
13861451 CTTGAGGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (20 bp):
AAGGGGGAAAAAAAAAGTTT
Found at i:13861463 original size:689 final size:690
Alignment explanation
Indices: 13860133--13861514 Score: 2732
Period size: 689 Copynumber: 2.0 Consensus size: 690
13860123 GAATCGAATC
13860133 GAATGAAAAAATTTTGAGTTAATCAAGTTGACGAATCCTATTTTATCATCCTAACTCTATTTGAA
1 GAATGAAAAAA-TTTGAGTTAATCAAGTTGACGAATCCTATTTTATCATCCTAACTCTATTTGAA
13860198 ATTTTCTCGAATCAAGTCGAGTGAGATGGAATTCGAATCGAATCGAATATATTTATTCGAGCTAA
65 ATTTTCTCGAATCAAGTCGAGTGAGATGGAATTCGAATCGAATCGAATATATTTATTCGAGCTAA
13860263 ATTAAAAAAAAAGACTTTGGATCCTTATAACCATTGTCACCCACTGTAATCAAATTTGTTATTAA
130 ATTAAAAAAAAAGACTTTGGATCCTTATAACCATTGTCACCCACTGTAATCAAATTTGTTATTAA
13860328 CTTTCATTTCCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTCTTTGCTTGCTTAG
195 CTTTCATTTCCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTCTTTGCTTGCTTAG
13860393 TTGCTTCAATTATCTTCTGGTTTTTGTCATTATGTATTTTGACATTAAAAAATATATTAAATATA
260 TTGCTTCAATTATCTTCTGGTTTTTGTCATTATGTATTTTGACATTAAAAAATATATTAAATATA
13860458 AAAAATATGATTTTTTAATAAGAGTTATCTTAAAGATAAAGTGTGAAATGGATACCAACATAAAA
325 AAAAATATGATTTTTTAATAAGAGTTATCTTAAAGATAAAGTGTGAAATGGATACCAACATAAAA
13860523 TTTTAACACGAATATTTTATGGCATTGTTAATAATTCAATTTTAGCAGAAATTTATAAAGATTTA
390 TTTTAACACGAATATTTTATGGCATTGTTAATAATTCAATTTTAGCAGAAATTTATAAAGATTTA
13860588 ATATGATTAAACAATTCAATAATATAAATAGTATAAAATGTGAAATTTAATTAATAATATAAATA
455 ATATGATTAAACAATTCAATAATATAAATAGTATAAAATGTGAAATTTAATTAATAATATAAATA
13860653 GTAGATATAAATAAAATTATTACTATTTAGGTTTAGGGATTTTTTTTGGATGATTTTTTATTTTG
520 GTAGATATAAATAAAATTATTACTATTTAGGTTTAGGGATTTTTTTTGGATGATTTTTTATTTTG
13860718 GGGTAAAGGGTGAAAAATAAAAGTTTAAGGGGGAAATAAAAAGTCTTGAGGGTTGGGGAGTAAAT
585 GGGTAAAGGGTGAAAAATAAAAGTTTAAGGGGGAAATAAAAAGTCTTGAGGGTTGGGGAGTAAAT
13860783 TTTAGGGGGAAAGTAAATGGGGGAAAATATTTAAAAAAATT
650 TTTAGGGGGAAAGTAAATGGGGGAAAATATTTAAAAAAATT
13860824 GAATGAAAAAA-TTGAGTTAATCAAGTTGACGAATCCTATTTTATCATCCTAACTCTATTTGAAA
1 GAATGAAAAAATTTGAGTTAATCAAGTTGACGAATCCTATTTTATCATCCTAACTCTATTTGAAA
13860888 TTTTCTCGAATCAAGTCGAGTGAGATGGAATTCGAATCGAATCGAATATATTTATTCGAGCTAAA
66 TTTTCTCGAATCAAGTCGAGTGAGATGGAATTCGAATCGAATCGAATATATTTATTCGAGCTAAA
13860953 TTAAAAAAAAAGACTTTGGATCCTTATAACCATTGTCACCCACTGTAATCAAATTTGTTATTAAC
131 TTAAAAAAAAAGACTTTGGATCCTTATAACCATTGTCACCCACTGTAATCAAATTTGTTATTAAC
13861018 TTTCATTTCCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTCTTTGCTTGCTTAGT
196 TTTCATTTCCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTCTTTGCTTGCTTAGT
13861083 TGCTTCAATTATCTTCTGGTTTTTGTCATTATGTATTTTGACATTAAAAAATATATTAAATAT-A
261 TGCTTCAATTATCTTCTGGTTTTTGTCATTATGTATTTTGACATTAAAAAATATATTAAATATAA
13861147 AAAATATGATTTTTTTAATAAGAGTTATCTTAAAGATAAAGTGTGAAATGGATACCAACATAAAA
326 AAAATATGA-TTTTTTAATAAGAGTTATCTTAAAGATAAAGTGTGAAATGGATACCAACATAAAA
13861212 TTTTAACACGAATATTTTATGGCATTGTTAATAATTCAATTTTAGCAGAAATTTATAAAGATTTA
390 TTTTAACACGAATATTTTATGGCATTGTTAATAATTCAATTTTAGCAGAAATTTATAAAGATTTA
13861277 ATATGATTAAACAATTCAATAATATAAATAGTATAAAATGTGAAATTTAATTAATAATATAAATA
455 ATATGATTAAACAATTCAATAATATAAATAGTATAAAATGTGAAATTTAATTAATAATATAAATA
13861342 GTAGATATAAATAAAATTATTACTATTTAGGTTTAGGGATTTTTTTTGGATGATTTTTTATTTTG
520 GTAGATATAAATAAAATTATTACTATTTAGGTTTAGGGATTTTTTTTGGATGATTTTTTATTTTG
13861407 GGGTAAAGGGTGAAAAATAAAAGTTTAAGGGGGAAATAAAAAGTCTTGAGGGTTGGGGAGTAAAT
585 GGGTAAAGGGTGAAAAATAAAAGTTTAAGGGGGAAATAAAAAGTCTTGAGGGTTGGGGAGTAAAT
13861472 TTTAGGGGGAAAGTAAATGGGGGAAAATATTTAAAAAAATT
650 TTTAGGGGGAAAGTAAATGGGGGAAAATATTTAAAAAAATT
13861513 GA
1 GA
13861515 GGTGAAAATG
Statistics
Matches: 690, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
688 10 0.01
689 669 0.97
691 11 0.02
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (690 bp):
GAATGAAAAAATTTGAGTTAATCAAGTTGACGAATCCTATTTTATCATCCTAACTCTATTTGAAA
TTTTCTCGAATCAAGTCGAGTGAGATGGAATTCGAATCGAATCGAATATATTTATTCGAGCTAAA
TTAAAAAAAAAGACTTTGGATCCTTATAACCATTGTCACCCACTGTAATCAAATTTGTTATTAAC
TTTCATTTCCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTCTTTGCTTGCTTAGT
TGCTTCAATTATCTTCTGGTTTTTGTCATTATGTATTTTGACATTAAAAAATATATTAAATATAA
AAAATATGATTTTTTAATAAGAGTTATCTTAAAGATAAAGTGTGAAATGGATACCAACATAAAAT
TTTAACACGAATATTTTATGGCATTGTTAATAATTCAATTTTAGCAGAAATTTATAAAGATTTAA
TATGATTAAACAATTCAATAATATAAATAGTATAAAATGTGAAATTTAATTAATAATATAAATAG
TAGATATAAATAAAATTATTACTATTTAGGTTTAGGGATTTTTTTTGGATGATTTTTTATTTTGG
GGTAAAGGGTGAAAAATAAAAGTTTAAGGGGGAAATAAAAAGTCTTGAGGGTTGGGGAGTAAATT
TTAGGGGGAAAGTAAATGGGGGAAAATATTTAAAAAAATT
Found at i:13862883 original size:18 final size:18
Alignment explanation
Indices: 13862860--13862898 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
13862850 TCCAACACAC
13862860 CTTGTGTGCCAATATGCA
1 CTTGTGTGCCAATATGCA
*
13862878 CTTGTGTGCCAATGTGCA
1 CTTGTGTGCCAATATGCA
13862896 CTT
1 CTT
13862899 AGTGCCAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (18 bp):
CTTGTGTGCCAATATGCA
Found at i:13864076 original size:20 final size:20
Alignment explanation
Indices: 13864051--13864090 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13864041 AGTTTGATTT
*
13864051 GTTAAAATCATTTTAACTTG
1 GTTAAAATAATTTTAACTTG
13864071 GTTAAAATAATTTTAACTTG
1 GTTAAAATAATTTTAACTTG
13864091 ATTTTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (20 bp):
GTTAAAATAATTTTAACTTG
Found at i:13865464 original size:20 final size:21
Alignment explanation
Indices: 13865439--13865486 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
13865429 GGTGTTACAA
*
13865439 ATAGAAGTGGATTTGTAT-GG
1 ATAGAAGTGGACTTGTATCGG
13865459 ATAGAAGTGGACTTGTATCGG
1 ATAGAAGTGGACTTGTATCGG
13865480 -TAGAAGT
1 ATAGAAGT
13865487 CCCTTTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.31, C:0.04, G:0.33, T:0.31
Consensus pattern (21 bp):
ATAGAAGTGGACTTGTATCGG
Found at i:13872274 original size:4 final size:4
Alignment explanation
Indices: 13872265--13872304 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
13872255 CACATATATT
* *
13872265 TACA TACA TACA TACA CACA CACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
13872305 AACAAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (4 bp):
TACA
Found at i:13878767 original size:15 final size:16
Alignment explanation
Indices: 13878742--13878772 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13878732 GGCCTGTCCG
13878742 TATTAATTTTTATATA
1 TATTAATTTTTATATA
13878758 TATT-ATTTTTATATA
1 TATTAATTTTTATATA
13878773 AAGCAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTAATTTTTATATA
Found at i:13879755 original size:19 final size:18
Alignment explanation
Indices: 13879723--13879759 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
13879713 TTAATAATTG
13879723 GTATCATATATATTTTAA
1 GTATCATATATATTTTAA
*
13879741 GTATCGATATTTATTTTAA
1 GTATC-ATATATATTTTAA
13879760 TATTTTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (18 bp):
GTATCATATATATTTTAA
Found at i:13880427 original size:13 final size:14
Alignment explanation
Indices: 13880409--13880442 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13880399 CGGCCATACA
13880409 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
13880422 TATTTTTTAATTTT
1 TATTTTTTAATTTT
*
13880436 TAATTTT
1 TATTTTT
13880443 AAAATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:13880434 original size:14 final size:13
Alignment explanation
Indices: 13880409--13880442 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13880399 CGGCCATACA
13880409 TATTTTTTATTTT
1 TATTTTTTATTTT
13880422 TATTTTTTAATTTT
1 TATTTTTT-ATTTT
13880436 TAATTTT
1 T-ATTTT
13880443 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:13880464 original size:11 final size:11
Alignment explanation
Indices: 13880439--13880484 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
13880429 TAATTTTTAA
*
13880439 TTTTAAAATAC
1 TTTTAAAATAT
13880450 TTTTAAAATAT
1 TTTTAAAATAT
**
13880461 TTTT--TTTAT
1 TTTTAAAATAT
13880470 TTTTAAAATAT
1 TTTTAAAATAT
13880481 TTTT
1 TTTT
13880485 TTTGTGTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
9 7 0.25
11 21 0.75
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:13880475 original size:20 final size:20
Alignment explanation
Indices: 13880450--13880487 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13880440 TTTAAAATAC
13880450 TTTTAAAATATTTTTTTTAT
1 TTTTAAAATATTTTTTTTAT
13880470 TTTTAAAATATTTTTTTT
1 TTTTAAAATATTTTTTTT
13880488 GTGTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTAAAATATTTTTTTTAT
Found at i:13880494 original size:20 final size:20
Alignment explanation
Indices: 13880451--13880494 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
13880441 TTAAAATACT
*
13880451 TTTAAAATATTTTTTTTATT
1 TTTAAAATATTTTTTTTATG
*
13880471 TTTAAAATATTTTTTTTGTG
1 TTTAAAATATTTTTTTTATG
13880491 TTTA
1 TTTA
13880495 TTAAAAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTAAAATATTTTTTTTATG
Found at i:13883086 original size:12 final size:13
Alignment explanation
Indices: 13883064--13883108 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 13
13883054 AGGTTGAGGG
13883064 AGAAG-AAGATGA
1 AGAAGAAAGATGA
13883076 AG-AGAAAGATG-
1 AGAAGAAAGATGA
*
13883087 AGAAGAAACA-GA
1 AGAAGAAAGATGA
13883099 AGAAGAAAGA
1 AGAAGAAAGA
13883109 CAAGGAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.04
Consensus pattern (13 bp):
AGAAGAAAGATGA
Found at i:13883117 original size:24 final size:24
Alignment explanation
Indices: 13883090--13883136 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13883080 AAAGATGAGA
13883090 AGAAACAGAAGAAG-AAAGACAAGG
1 AGAAACAGAA-AAGTAAAGACAAGG
**
13883114 AGAAGGAGAAAAGTAAAGACAAG
1 AGAAACAGAAAAGTAAAGACAAG
13883137 AAGCACAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.62, C:0.06, G:0.30, T:0.02
Consensus pattern (24 bp):
AGAAACAGAAAAGTAAAGACAAGG
Found at i:13883295 original size:12 final size:12
Alignment explanation
Indices: 13883278--13883378 Score: 51
Period size: 12 Copynumber: 7.7 Consensus size: 12
13883268 AGAGACAGAG
*
13883278 AAGAAGAAAGAC
1 AAGAAGAAAGAA
*
13883290 AAGAAGGCAAAGGAG
1 AAGAA-G-AAA-GAA
13883305 AAGAAGAAAGAA
1 AAGAAGAAAGAA
*
13883317 AAGAAGAAGGATA
1 AAGAAGAAAGA-A
*
13883330 AAGTAG-AAGAA
1 AAGAAGAAAGAA
*
13883341 GATGAAGAAATAGAA
1 -AAGAAG-AA-AGAA
*
13883356 GAGGGAAAGAAAGAA
1 -A-AG-AAGAAAGAA
13883371 AAGAAGAA
1 AAGAAGAA
13883379 GAAGGATGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
11 1 0.01
12 29 0.41
13 11 0.16
14 6 0.09
15 17 0.24
16 3 0.04
17 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.31, T:0.04
Consensus pattern (12 bp):
AAGAAGAAAGAA
Found at i:13883366 original size:147 final size:144
Alignment explanation
Indices: 13883214--13883678 Score: 466
Period size: 147 Copynumber: 3.1 Consensus size: 144
13883204 ATAAGGAGAA
** * * *
13883214 AAAGAAAGAAAAGAAGCTGAAAGATGAAG-AGGAAGAGGAAGAGGAGAAAGTGACAGAGACAGAG
1 AAAGAAAGAAAAGAAGAAGAAGGATGAGGTA-GAAGAGGAAGATGAGAAAGTGA-AGAGA-AGA-
13883278 AAGAAGAAAGACAAGAAGGCAAAGGAGAAGAAGAAAGAA-AAGAAGAAGGATAAAGTAGAAGAAG
62 AAGAAGAAAGACAAGAAGGCAAAGGAGAAGAAGAAAGAAGAAGAAGAAGGAT-AAGTAGAAGAAG
13883342 ATGAAGAAATAGAAGAGGG
126 ATGAAGAAATAGAAGAGGG
* * *
13883361 AAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGATGAAGATGA-AGAATTAGAAGAG-GGAAA
1 AAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAGGAAGATGAGA-AAGT-GAAGAGAAGAAA
* *
13883424 GAAAGAAA-AGAAGAAGGACAAA-GAG--GCAA-AAGAGAAGAAGAAGAAGGATGAGATAGAAGA
64 G-AAGAAAGACAAGAAGG-CAAAGGAGAAG-AAGAA-AGAAGAAGAAGAAGGATAAG-TAGAAGA
13883484 AGATGAAGAAGAATTAGAAGAGGG
124 AGATGAAG-A-AA-TAGAAGAGGG
* * *
13883508 AAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAA-ATAAA
1 AAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAG-AG--GAAG-ATGAGAA-AGTGAAGA-GAA
* *
13883572 GAAAAGAAGAAAGACAA-AGAGGCGAAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAGGTAG
60 G-AAAGAAGAAAGACAAGA-AGGCAAAGGAGAAGAAGAAAG--AAGAAGAAGAAGGAT-AAGTAG
* *
13883636 ATGAAGATGAAGAATTAGAAGAGGG
120 AAGAAGATGAAGAAATAGAAGAGGG
13883661 AAAGAAAGAAAAGAAGAA
1 AAAGAAAGAAAAGAAGAA
13883679 AGACAAAGAG
Statistics
Matches: 266, Mismatches: 22, Indels: 54
0.78 0.06 0.16
Matches are distributed among these distances:
142 3 0.01
143 8 0.03
144 41 0.15
145 13 0.05
146 3 0.01
147 89 0.33
148 4 0.02
150 5 0.02
151 7 0.03
152 13 0.05
153 41 0.15
154 5 0.02
155 4 0.02
156 29 0.11
157 1 0.00
ACGTcount: A:0.58, C:0.02, G:0.34, T:0.06
Consensus pattern (144 bp):
AAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAGGAAGATGAGAAAGTGAAGAGAAGAAAGA
AGAAAGACAAGAAGGCAAAGGAGAAGAAGAAAGAAGAAGAAGAAGGATAAGTAGAAGAAGATGAA
GAAATAGAAGAGGG
Found at i:13883376 original size:54 final size:57
Alignment explanation
Indices: 13883308--13883446 Score: 194
Period size: 57 Copynumber: 2.4 Consensus size: 57
13883298 AAAGGAGAAG
13883308 AAGAAAGAAAAGAAGAAGGATAAAGTAG-A-A-GAAGATGAAGAAATAGAAGAGGGA
1 AAGAAAGAAAAGAAGAAGGATAAAGTAGAAGATGAAGATGAAGAAATAGAAGAGGGA
* * *
13883362 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGATGAAGATGAAGAATTAGAAGAGGGA
1 AAGAAAG--AA-AAGAAGAAGGATAAAGTAGAAGATGAAGATGAAGAAATAGAAGAGGGA
*
13883422 AAGAAAGAAAAGAAGAAGGACAAAG
1 AAGAAAGAAAAGAAGAAGGATAAAG
13883447 AGGCAAAAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
54 7 0.10
56 2 0.03
57 30 0.41
58 3 0.04
59 1 0.01
60 30 0.41
ACGTcount: A:0.60, C:0.01, G:0.32, T:0.07
Consensus pattern (57 bp):
AAGAAAGAAAAGAAGAAGGATAAAGTAGAAGATGAAGATGAAGAAATAGAAGAGGGA
Found at i:13883381 original size:189 final size:186
Alignment explanation
Indices: 13883206--13884298 Score: 1126
Period size: 189 Copynumber: 5.7 Consensus size: 186
13883196 CGAGAAGTAT
* ** * ** *
13883206 AAGGAGAAAAAGAAAGAAAAGAAGCTGAAAGATGAAGAGGAAG-AGGAAG-AGGAGAA-AGTGAC
1 AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAAGA-GAAGAAGGAAGAATTAGAAGAGGGA-
* * * *
13883268 AGAGACAGAGAAGAAGAAAGAC-AAGAAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATAAA
64 A-AGAAAGAAAAGAAGAAAGACAAAG-AGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATGAG
* *
13883332 GTAGAAGAAGATGAAGAAATAGAAGAGGGAAAGAAAGAAAAGAAG-AAGA-AGGATGAGGTAG
127 GTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACA--AAGAGG-AG
* * * * * * *
13883393 AA-GATGAAGATG-AAGAATTAGAAGAGGGAAAGA--AAGAAAAGAA-GAAGGA-CA-AAGAGGC
1 AAGGA-GAAGAAGAAAGAA-AAGAAGA-AGAAGGATGAAGAGAAGAAGGAAGAATTAGAAGAGG-
* * * * * *
13883451 AAAAGAGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAAGAATTAGAAGAGGGAAAGAAAG
62 GAAAGA-AAGAA-AAGAA-GA-AAGACA-AAG-AG--GCA-AAG---GAGAAGA-AGAAAGAAA-
* * * * ** *
13883516 AAAAGAA-GAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGAAAAGAA
113 AGAAGAAGGATGAGGTAGA----AGAAG-A--TGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAA
*
13883580 GAAAGACAAAGAGGCG
171 GAAAGACAAAGAGGAG
* *
13883596 AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGATGAAGATGAAGAATTAGAAGAGGG
1 AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAAG-AGAAGAAG--GAAGAATTAGAAGAGGG
*
13883661 AAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGATAAGAAAGAAA-AAAAGAAGAAGGATGAG
63 AAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGAAG-AAGAAAGAAAAGAAGAAGGATGAG
* *
13883725 GTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGCCAAAGAGGCG
127 GTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGGAG
*
13883785 AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGG
1 AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAAG-AGAAGAAG--GAAGAATTAGAAGAGGG
* * *
13883850 AAATAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGGAGAAGAAAGAAAAAAAGAAGGATGAGG
63 AAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATGAGG
* * *
13883915 TAGAAGAAGATGAAGAAGTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGCCAAAGAGGCG
128 TAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGGAG
* *
13883974 AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGGGGG
1 AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAAG-AGAAGAAG--GAAGAATTAGAAGAGGG
*
13884039 AAAGAAAGAAAAGAAGAAAGACAAAGAGGCGAAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATG
63 AAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAG--AA-AAGAAGAAGGATG
* *
13884104 AGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGAAAAGAAGAAAGACAAAGAGGCA-
125 AGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGG-AG
*
13884166 AAGGAGAAGAAGAAAG-AAA-AA-AAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGG
1 AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAAG-AGAAGAAG--GAAGAATTAGAAGAGGG
* *
13884228 AAAGAAAGAAAAGAAGAGAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAATGAAGAAGGATGAGG
63 AAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATGAGG
13884293 TAGAAG
128 TAGAAG
13884299 GTGAAGAGAA
Statistics
Matches: 787, Mismatches: 72, Indels: 95
0.82 0.08 0.10
Matches are distributed among these distances:
184 5 0.01
185 14 0.02
186 40 0.05
187 16 0.02
188 15 0.02
189 414 0.53
190 8 0.01
191 6 0.01
192 91 0.12
193 3 0.00
195 6 0.01
196 15 0.02
197 22 0.03
198 7 0.01
200 3 0.00
201 7 0.01
202 6 0.01
203 17 0.02
204 49 0.06
205 13 0.02
206 3 0.00
207 5 0.01
208 10 0.01
209 6 0.01
210 6 0.01
ACGTcount: A:0.58, C:0.03, G:0.34, T:0.06
Consensus pattern (186 bp):
AAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAAGAGAAGAAGGAAGAATTAGAAGAGGGAAA
GAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATGAGGTAG
AAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGGAG
Found at i:13883393 original size:57 final size:60
Alignment explanation
Indices: 13883308--13883439 Score: 198
Period size: 60 Copynumber: 2.2 Consensus size: 60
13883298 AAAGGAGAAG
*
13883308 AAGAAAGAAAAGAAGAAGGATAAAGTAG-A-A-GAAGATGAAGAAATAGAAGAGGGAAAGA
1 AAGAAA-AGAAGAAGAAGGATAAAGTAGAAGATGAAGATGAAGAAATAGAAGAGGGAAAGA
* * *
13883366 AAGAAAAGAAGAAGAAGGATGAGGTAGAAGATGAAGATGAAGAATTAGAAGAGGGAAAGA
1 AAGAAAAGAAGAAGAAGGATAAAGTAGAAGATGAAGATGAAGAAATAGAAGAGGGAAAGA
13883426 AAGAAAAGAAGAAG
1 AAGAAAAGAAGAAG
13883440 GACAAAGAGG
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
57 18 0.27
58 7 0.10
59 1 0.01
60 41 0.61
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.08
Consensus pattern (60 bp):
AAGAAAAGAAGAAGAAGGATAAAGTAGAAGATGAAGATGAAGAAATAGAAGAGGGAAAGA
Found at i:13883444 original size:153 final size:149
Alignment explanation
Indices: 13883278--13883678 Score: 562
Period size: 153 Copynumber: 2.7 Consensus size: 149
13883268 AGAGACAGAG
13883278 AAGAAGAAAGAC-AAGAAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATAAAGTAGAAGAAG
1 AAGAAGAAAGACAAAG-AGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGAT-AAGTAGAAGAAG
*
13883342 ATGAAGAAATAGAAGAGGGAAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGATGAAGATGAA
64 ATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAGAAGGATGAGGTAG-A-A-GAAGATGAA
13883407 GAATTAGAAGAGGGAAAGAAAGAA
126 GAATTAGAAGAGGGAAAGAAAGAA
* * * * * * *
13883431 AAGAAGAAGGACAAAGAGGCAAAAGAGAAGAAG-AAG-AAGGATG-A-GAT-AGAAGAAGATGAA
1 AAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATAAGTAGAAGAAGAT
*
13883491 GAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATT
66 GAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATT
*
13883556 AGAAGAGGGAAATAAAGAA
131 AGAAGAGGGAAAGAAAGAA
* * *
13883575 AAGAAGAAAGACAAAGAGGCGAAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGATGA
1 AAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAG--AA-AAGAAGAAGGAT-AAGTAGAAGA
13883640 AGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAA
62 AGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAA
13883679 AGACAAAGAG
Statistics
Matches: 218, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
144 61 0.28
145 4 0.02
146 1 0.00
147 58 0.27
148 1 0.00
149 7 0.03
150 2 0.01
151 8 0.04
152 3 0.01
153 70 0.32
154 3 0.01
ACGTcount: A:0.58, C:0.02, G:0.33, T:0.07
Consensus pattern (149 bp):
AAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATAAGTAGAAGAAGAT
GAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATT
AGAAGAGGGAAAGAAAGAA
Found at i:13883524 original size:57 final size:55
Alignment explanation
Indices: 13883456--13883771 Score: 212
Period size: 60 Copynumber: 6.2 Consensus size: 55
13883446 GAGGCAAAAG
13883456 AGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAAGAATTAGAAGAGGGAAAGAA
1 AGAAGAAGAAGAAGGATGAGATAGAAGAAGAT---GAAGAATTAGAAGAGGGAAAGAA
* * *
13883514 AGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAA
1 AG--AAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAA
* * ** *
13883571 AGAA-AAGAAG-A--A--AGACA-AAG-AG--G-CGAAGGAGAAGA-AGAAAG-A
1 AGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAA
* *
13883613 A-AAGAAGAAGAAGGATGAGGTAGATGAAGATGAAGAATTAGAAGAGGGAAAGAA
1 AGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAA
* * * *
13883667 AGAA-AAGAAG-A--A--AGACA-AAGAGGCA--AAGGATAAGAA-A--G-AA-AA
1 AGAAGAAGAAGAAGGATGAGATAGAAGAAG-ATGAAGAATTAGAAGAGGGAAAGAA
*
13883709 A-AAGAAG---AAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAA
1 AGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAA
13883760 AGAA-AAGAAGAA
1 AGAAGAAGAAGAA
13883772 AGCCAAAGAG
Statistics
Matches: 195, Mismatches: 28, Indels: 74
0.66 0.09 0.25
Matches are distributed among these distances:
40 1 0.01
41 4 0.02
42 15 0.08
43 7 0.04
44 14 0.07
45 7 0.04
46 10 0.05
47 15 0.08
48 9 0.05
49 10 0.05
50 2 0.01
51 9 0.05
52 11 0.06
53 7 0.04
54 16 0.08
55 4 0.02
57 24 0.12
58 2 0.01
60 28 0.14
ACGTcount: A:0.58, C:0.02, G:0.33, T:0.07
Consensus pattern (55 bp):
AGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAA
Found at i:13883528 original size:60 final size:57
Alignment explanation
Indices: 13883452--13883582 Score: 199
Period size: 57 Copynumber: 2.2 Consensus size: 57
13883442 CAAAGAGGCA
*
13883452 AAAGAGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAAGAATTAGAAGAGGGAAAG
1 AAAGAAAAGAAGAAGAAGGATGAGATAGAAGAAGAT---GAAGAATTAGAAGAGGGAAAG
* * *
13883512 AAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAAT
1 AAAGAAAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAATTAGAAGAGGGAAAG
13883569 AAAGAAAAGAAGAA
1 AAAGAAAAGAAGAA
13883583 AGACAAAGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
57 34 0.51
60 33 0.49
ACGTcount: A:0.58, C:0.01, G:0.33, T:0.08
Consensus pattern (57 bp):
AAAGAAAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAATTAGAAGAGGGAAAG
Found at i:13883545 original size:3 final size:3
Alignment explanation
Indices: 13883303--13883529 Score: 66
Period size: 3 Copynumber: 75.7 Consensus size: 3
13883293 AAGGCAAAGG
* *
13883303 AGA AGA AGAA AGA A-A AGA AGA AGGA TA-A AGT AGA AGA AGA TGA AGA
1 AGA AGA AG-A AGA AGA AGA AGA A-GA -AGA AGA AGA AGA AGA AGA AGA
* * * * *
13883349 A-A TAGA AGA GGG A-A AGAA AGA A-A AGA AGA AGA AGGA TGA GGT AGA
1 AGA -AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA A-GA AGA AGA AGA
* * ** * *
13883394 AGA TGA AGA TGA AGA ATT AGA AGA GGG A-A AGAA AGA A-A AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA
* *
13883438 AGGA CA-A AGA GGCA A-A AG- AGA AGA AGA AGA AGGA TG- AGA TAGA
1 A-GA -AGA AGA AG-A AGA AGA AGA AGA AGA AGA A-GA AGA AGA -AGA
* ** * *
13883481 AGA AGA TGA AGA AGA ATT AGA AGA GGG A-A AGAA AGA A-A AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA
13883525 AGA AG
1 AGA AG
13883530 GATGAGGTAG
Statistics
Matches: 159, Mismatches: 39, Indels: 52
0.64 0.16 0.21
Matches are distributed among these distances:
2 19 0.12
3 113 0.71
4 25 0.16
5 2 0.01
ACGTcount: A:0.59, C:0.01, G:0.33, T:0.07
Consensus pattern (3 bp):
AGA
Found at i:13883557 original size:144 final size:147
Alignment explanation
Indices: 13883313--13883678 Score: 489
Period size: 144 Copynumber: 2.5 Consensus size: 147
13883303 AGAAGAAGAA
*
13883313 AGAA-AAGAAGAAGGAT-AAAGTAGAAGAAGATGAAG-A-AA-TAGAAGAGGGAAAGAAAGAAAA
1 AGAAGAAGAAGAAGGATGAGA-TAGAAGAAGATGAAGAAGAATTAGAAGAGGGAAAGAAAGAAAA
13883373 GAAGAAGAAGGATGAGGTAGAAGATGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGA
65 GAAGAAGAAGGATGAGGTAGAAGATGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGA
*
13883438 AGGACAAAGAGGCAAAAG
130 AAGACAAAGAGGCAAAAG
13883456 AGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAAGAATTAGAAGAGGGAAAGAAAGAAAAG
1 AGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAAGAATTAGAAGAGGGAAAGAAAGAAAAG
* *
13883521 AAGAAGAAGGATGAGGTAG-A-A-GAAGCTGAAGAATTAGAAGAGGGAAATAAAGAAAAGAAGAA
66 AAGAAGAAGGATGAGGTAGAAGATGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAA
* *
13883583 AGACAAAGAGGCGAAGG
131 AGACAAAGAGGCAAAAG
* * *
13883600 AGAAGAAGAAAGAAAAGAAGAAGAAGGAT-GAGGTAGATGAAGATGAAGAATTAGAAGAGGGAAA
1 AGAAGAAG-AAG--AAG--GATG-A-GATAGAAGAAGATG-A-A-GAAGAATTAGAAGAGGGAAA
13883664 GAAAGAAAAGAAGAA
56 GAAAGAAAAGAAGAA
13883679 AGACAAAGAG
Statistics
Matches: 199, Mismatches: 9, Indels: 20
0.87 0.04 0.09
Matches are distributed among these distances:
143 4 0.02
144 88 0.44
145 7 0.04
146 3 0.02
147 45 0.23
149 3 0.02
150 9 0.05
151 4 0.02
152 1 0.01
153 35 0.18
ACGTcount: A:0.58, C:0.01, G:0.33, T:0.07
Consensus pattern (147 bp):
AGAAGAAGAAGAAGGATGAGATAGAAGAAGATGAAGAAGAATTAGAAGAGGGAAAGAAAGAAAAG
AAGAAGAAGGATGAGGTAGAAGATGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAA
AGACAAAGAGGCAAAAG
Found at i:13883584 original size:12 final size:12
Alignment explanation
Indices: 13883569--13883621 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
13883559 AGAGGGAAAT
13883569 AAAGAAAAGAAG
1 AAAGAAAAGAAG
*
13883581 AAAGACAAAGAGGCG
1 AAAGA-AAAGA--AG
* *
13883596 AAGGAGAAGAAG
1 AAAGAAAAGAAG
13883608 AAAGAAAAGAAG
1 AAAGAAAAGAAG
13883620 AA
1 AA
13883622 GAAGGATGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
12 18 0.56
13 5 0.16
14 4 0.12
15 5 0.16
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGAAG
Found at i:13883615 original size:96 final size:96
Alignment explanation
Indices: 13883509--13884298 Score: 1307
Period size: 96 Copynumber: 8.4 Consensus size: 96
13883499 AGAAGAGGGA
* *
13883509 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
13883574 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
66 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
*
13883605 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGATGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
* *
13883670 AAAGAAGAAAGACAAAGAGGC-AA--AGGAT
66 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
*
13883698 AAGAAAGAAAAAAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
*
13883763 AAAGAAGAAAGCCAAAGAGGCGAAGGAGAAG
66 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
* *
13883794 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
* *
13883859 AAAGAAGAAAGACAAAGAGGCAAAGGAGGAG
66 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
*
13883890 AAGAAAG-AAA-AA-AAGAAGGATGAGGTAGAAGAAGATGAAGAAGTAGAAGAGGGAAAGAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
*
13883952 AAAGAAGAAAGCCAAAGAGGCGAAGGAGAAG
66 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
* *
13883983 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGGGGGAAAGAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
13884048 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
66 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
* *
13884079 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
*
13884144 AAAGAAGAAAGACAAAGAGGCAAAGGAGAAG
66 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
13884175 AAGAAAG-AAA-AA-AAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
* *
13884237 AAAGAAGAGAGACAAAGAGGCAAAGGAGAAG
66 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
*
13884268 AAGAAAG--AA-ATGAAGAAGGATGAGGTAGAAG
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAG
13884299 GTGAAGAGAA
Statistics
Matches: 654, Mismatches: 33, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
92 3 0.00
93 272 0.42
94 9 0.01
95 10 0.02
96 360 0.55
ACGTcount: A:0.58, C:0.03, G:0.34, T:0.06
Consensus pattern (96 bp):
AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGA
AAAGAAGAAAGACAAAGAGGCGAAGGAGAAG
Found at i:13883625 original size:27 final size:27
Alignment explanation
Indices: 13883575--13883627 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
13883565 AAATAAAGAA
**
13883575 AAGAAGAAAGACAAAGAGGCGAAGGAG
1 AAGAAGAAAGACAAAGAGAAGAAGGAG
13883602 AAGAAGAAAGA-AAAGAAGAAGAAGGA
1 AAGAAGAAAGACAAAG-AGAAGAAGGA
13883628 TGAGGTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.62, C:0.04, G:0.34, T:0.00
Consensus pattern (27 bp):
AAGAAGAAAGACAAAGAGAAGAAGGAG
Found at i:13883834 original size:285 final size:282
Alignment explanation
Indices: 13883509--13884298 Score: 1393
Period size: 285 Copynumber: 2.8 Consensus size: 282
13883499 AGAAGAGGGA
13883509 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
* *
13883574 AAAGAAGAAAGACAAAGAGGCGAAGGAGAAGAAGAAAGAAAAGAAGAAGAAGGATGAGGTAGATG
66 AAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAG-AAA-AA-AAGAAGGATGAGGTAGAAG
*
13883639 AAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGATAAGAAA
128 AAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAA
13883704 GAAAAAAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAA
193 GAAAAAAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAA
*
13883769 GAAAGCCAAAGAGGCGAAGGAGAAG
258 GAAAGACAAAGAGGCGAAGGAGAAG
13883794 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
*
13883859 AAAGAAGAAAGACAAAGAGGCAAAGGAGGAGAAGAAAGAAAAAAAGAAGGATGAGGTAGAAGAAG
66 AAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAAAAGAAGGATGAGGTAGAAGAAG
* * *
13883924 ATGAAGAAGTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGCCAAAGAGGCGAAGGAGAAGAAGAAA
131 ATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGGC-AA--AGGAGAAGAAA
* * *
13883989 GAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGGGGGAAAGAAAGAAAAGAA
193 GAAAAAAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAA
13884054 GAAAGACAAAGAGGCGAAGGAGAAG
258 GAAAGACAAAGAGGCGAAGGAGAAG
13884079 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
1 AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
13884144 AAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAAAAGAAGGATGAGGTAGAAGAAG
66 AAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAAAAGAAGGATGAGGTAGAAGAAG
*
13884209 ATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAGAGACAAAGAGGCAAAGGAGAAG-AAGAA
131 ATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAAGAA
*
13884273 AGAAATGAAGAAGGATGAGGTAGAAG
196 A-AAAAGAAGAAGGATGAGGTAGAAG
13884299 GTGAAGAGAA
Statistics
Matches: 483, Mismatches: 18, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
281 6 0.01
282 97 0.20
283 4 0.01
284 5 0.01
285 371 0.77
ACGTcount: A:0.58, C:0.03, G:0.34, T:0.06
Consensus pattern (282 bp):
AAGAAAGAAAAGAAGAAGAAGGATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGAAATAAAGA
AAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAAAAGAAGGATGAGGTAGAAGAAG
ATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAAAGACAAAGAGGCAAAGGAGAAGAAAGAA
AAAAAGAAGAAGGATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAAAAGAAGAA
AGACAAAGAGGCGAAGGAGAAG
Found at i:13884057 original size:12 final size:12
Alignment explanation
Indices: 13884040--13884095 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
13884030 AGAAGGGGGA
13884040 AAGAAAGAAAAG
1 AAGAAAGAAAAG
13884052 AAGAAAGACAAAG
1 AAGAAAGA-AAAG
* * *
13884065 AGGCGAAGGAGAAG
1 A--AGAAAGAAAAG
13884079 AAGAAAGAAAAG
1 AAGAAAGAAAAG
13884091 AAGAA
1 AAGAA
13884096 GAAGGATGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 21 0.60
13 5 0.14
14 4 0.11
15 5 0.14
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAAAG
Found at i:13884099 original size:27 final size:27
Alignment explanation
Indices: 13884040--13884101 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
13884030 AGAAGGGGGA
*
13884040 AAGAAAGAAAAGAAGAAAGACAAAGAG
1 AAGAAGGAAAAGAAGAAAGACAAAGAG
** *
13884067 GCGAAGGAGAAGAAGAAAGA-AAAGAAG
1 AAGAAGGAAAAGAAGAAAGACAAAG-AG
13884094 AAGAAGGA
1 AAGAAGGA
13884102 TGAGGTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (27 bp):
AAGAAGGAAAAGAAGAAAGACAAAGAG
Found at i:13884149 original size:54 final size:52
Alignment explanation
Indices: 13883890--13884244 Score: 211
Period size: 44 Copynumber: 7.3 Consensus size: 52
13883880 AAAGGAGGAG
* *
13883890 AAGAAAGAAAAAAAGAAGGATGAGGTAGAAGAAGATGAAGAAGTAGAAGAGGGA
1 AAGAAAGAAAAGAAGAA-GATGAGGTAGAAGAAG-TGAAGAATTAGAAGAGGGA
** * ** *
13883944 AAGAAAGAAAAGAAG-A-A--AGCCA-AAG-AG-G-CGAAGGAGAAGA-AGA
1 AAGAAAGAAAAGAAGAAGATGAGGTAGAAGAAGTGAAGAATTAGAAGAGGGA
*
13883987 AAGAAAAGAAGAAGAAG--GATGAGGTAGAAGAAGCTGAAGAATTAGAAGGGGGA
1 AAG-AAAGAA-AAGAAGAAGATGAGGTAGAAGAAG-TGAAGAATTAGAAGAGGGA
* * ** *
13884040 AAGAAAGAAAAGAAGAA-A-GA--CA-AAG-AG-G-CGAAGGAGAAGA-AGA
1 AAGAAAGAAAAGAAGAAGATGAGGTAGAAGAAGTGAAGAATTAGAAGAGGGA
13884083 AAGAAAAGAAGAAGAAG--GATGAGGTAGAAGAAGCTGAAGAATTAGAAGAGGGA
1 AAG-AAAGAA-AAGAAGAAGATGAGGTAGAAGAAG-TGAAGAATTAGAAGAGGGA
* * * ** *
13884136 AATAAAGAAAAGAAGAA-A-GA--CA-AAG-AG-GCA-AAGGAGAAGA-AGA
1 AAGAAAGAAAAGAAGAAGATGAGGTAGAAGAAGTGAAGAATTAGAAGAGGGA
13884179 AAGAAA-AAAAGAAG--GATGAGGTAGAAGAAGATGAAGAATTAGAAGAGGGA
1 AAGAAAGAAAAGAAGAAGATGAGGTAGAAGAAG-TGAAGAATTAGAAGAGGGA
13884229 AAGAAAGAAAAGAAGA
1 AAGAAAGAAAAGAAGA
13884245 GAGACAAAGA
Statistics
Matches: 226, Mismatches: 36, Indels: 80
0.66 0.11 0.23
Matches are distributed among these distances:
41 1 0.00
42 10 0.04
43 17 0.08
44 40 0.18
45 22 0.10
46 2 0.01
47 10 0.04
48 17 0.08
49 17 0.08
50 8 0.04
51 27 0.12
52 31 0.14
53 10 0.04
54 14 0.06
ACGTcount: A:0.58, C:0.03, G:0.34, T:0.06
Consensus pattern (52 bp):
AAGAAAGAAAAGAAGAAGATGAGGTAGAAGAAGTGAAGAATTAGAAGAGGGA
Found at i:13884179 original size:27 final size:27
Alignment explanation
Indices: 13884145--13884275 Score: 84
Period size: 27 Copynumber: 4.4 Consensus size: 27
13884135 AAATAAAGAA
13884145 AAGAAGAAAGACAAAGAGGCAAAGGAG
1 AAGAAGAAAGACAAAGAGGCAAAGGAG
* *
13884172 AAGAAGAAAGAAAAAAAGAAGG-ATGAGGTAG
1 AAGAAGAAAG--ACAAAG-AGGCA-AAGG-AG
* * *
13884203 AAGAAGATGAAGAATTAGAAGAGGGAAAGAAAGAA
1 AAGAAGA--AAG-A-CA-AAGAGGCAAAG---GAG
*
13884238 AAGAAGAGAGACAAAGAGGCAAAGGAG
1 AAGAAGAAAGACAAAGAGGCAAAGGAG
13884265 AAGAAGAAAGA
1 AAGAAGAAAGA
13884276 AATGAAGAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
27 22 0.27
29 6 0.07
30 16 0.20
31 10 0.12
32 3 0.04
33 11 0.14
34 4 0.05
35 8 0.10
36 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.33, T:0.04
Consensus pattern (27 bp):
AAGAAGAAAGACAAAGAGGCAAAGGAG
Found at i:13884329 original size:12 final size:12
Alignment explanation
Indices: 13884259--13884332 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
13884249 CAAAGAGGCA
13884259 AAGGAGAAGAAG
1 AAGGAGAAGAAG
*
13884271 AAAGA-AATGAAG
1 AAGGAGAA-GAAG
* *
13884283 AAGGATGAGGTAG
1 AAGGA-GAAGAAG
*
13884296 AAGGTGAAG-AG
1 AAGGAGAAGAAG
*
13884307 AAAGA-AGAGAAG
1 AAGGAGA-AGAAG
13884319 AAGGAGAAGAAG
1 AAGGAGAAGAAG
13884331 AA
1 AA
13884333 AGATGAAGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
10 1 0.02
11 9 0.19
12 28 0.60
13 8 0.17
14 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (12 bp):
AAGGAGAAGAAG
Found at i:13884340 original size:36 final size:36
Alignment explanation
Indices: 13884264--13884342 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
13884254 AGGCAAAGGA
* * *
13884264 GAAGAAGAAAGAAATGAAGAAGGATGAGGTAGAAGGT
1 GAAG-AGAAAGAAATGAAGAAGGATGAAGAAGAAGAT
13884301 GAAGAGAAAGAAGA-GAAGAAGGA-GAAGAAGAAAGAT
1 GAAGAGAAAGAA-ATGAAGAAGGATGAAGAAG-AAGAT
13884337 GAAGAG
1 GAAGAG
13884343 GATAAAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 5 0.14
36 27 0.73
37 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.06
Consensus pattern (36 bp):
GAAGAGAAAGAAATGAAGAAGGATGAAGAAGAAGAT
Found at i:13885404 original size:17 final size:18
Alignment explanation
Indices: 13885382--13885423 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
13885372 AATTAAAAAT
*
13885382 TATTAAAATGAT-ATTTA
1 TATTAAAATGATAATATA
*
13885399 TATT-AAATTATAATATA
1 TATTAAAATGATAATATA
13885416 TATTAAAA
1 TATTAAAA
13885424 ACTATGCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 12 0.57
18 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TATTAAAATGATAATATA
Found at i:13887893 original size:11 final size:11
Alignment explanation
Indices: 13887877--13887906 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13887867 GCACAAGGAT
13887877 AGAGAAAAAGA
1 AGAGAAAAAGA
*
13887888 AGAGAAGAAGA
1 AGAGAAAAAGA
13887899 AGAGAAAA
1 AGAGAAAA
13887907 GAAACAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AGAGAAAAAGA
Found at i:13895616 original size:9 final size:9
Alignment explanation
Indices: 13895558--13895643 Score: 50
Period size: 9 Copynumber: 9.1 Consensus size: 9
13895548 TATATTTTTC
13895558 ATAAAAATT
1 ATAAAAATT
* *
13895567 AT-AAAGTAC
1 ATAAAAAT-T
13895576 ATAAAATATT
1 ATAAAA-ATT
*
13895586 A-AAAATTT
1 ATAAAAATT
*
13895594 ATATAAACTT
1 ATA-AAAATT
13895604 ATAAAAATT
1 ATAAAAATT
13895613 ATAAAAAAATT
1 AT--AAAAATT
*
13895624 CATAAAACTT
1 -ATAAAAATT
*
13895634 ATAAACATT
1 ATAAAAATT
13895643 A
1 A
13895644 GATCGGTCGG
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
8 7 0.12
9 24 0.41
10 18 0.31
11 8 0.14
12 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:13895632 original size:30 final size:31
Alignment explanation
Indices: 13895586--13895643 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
13895576 ATAAAATATT
*
13895586 AAAAATTTATATAAACTTATAAAAATTATAA
1 AAAAATTCATATAAACTTATAAAAATTATAA
*
13895617 AAAAATTCATA-AAACTTATAAACATTA
1 AAAAATTCATATAAACTTATAAAAATTA
13895644 GATCGGTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAAATTCATATAAACTTATAAAAATTATAA
Found at i:13898938 original size:9 final size:9
Alignment explanation
Indices: 13898914--13899033 Score: 82
Period size: 9 Copynumber: 12.8 Consensus size: 9
13898904 TTATAAAAAA
13898914 TTATAATTT
1 TTATAATTT
*
13898923 GTTATAACTT
1 -TTATAATTT
*
13898933 TTATAATAT
1 TTATAATTT
*
13898942 TGATAAGTTT
1 TTATAA-TTT
13898952 TTATAATTT
1 TTATAATTT
13898961 TTATAATATT
1 TTATAAT-TT
* *
13898971 ATATAAATT
1 TTATAATTT
13898980 TTA-ATATTT
1 TTATA-ATTT
*
13898989 TTATGATTT
1 TTATAATTT
*
13898998 TTAATCATTT
1 TT-ATAATTT
* *
13899008 TAATGATTTT
1 TTAT-AATTT
13899018 TTATATATTT
1 TTATA-ATTT
13899028 TT-TAAT
1 TTATAAT
13899034 GAGAAACTAT
Statistics
Matches: 86, Mismatches: 17, Indels: 16
0.72 0.14 0.13
Matches are distributed among these distances:
8 3 0.03
9 43 0.50
10 40 0.47
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
TTATAATTT
Found at i:13898976 original size:19 final size:18
Alignment explanation
Indices: 13898914--13898966 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
13898904 TTATAAAAAA
13898914 TTATAATTTGTTATAACTT
1 TTATAATTT-TTATAACTT
* * *
13898933 TTATAATATTGATAAGTTT
1 TTATAATTTTTATAA-CTT
13898952 TTATAATTTTTATAA
1 TTATAATTTTTATAA
13898967 TATTATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.57
Consensus pattern (18 bp):
TTATAATTTTTATAACTT
Found at i:13898981 original size:28 final size:29
Alignment explanation
Indices: 13898915--13898992 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 29
13898905 TATAAAAAAT
*
13898915 TATAATTTGTTATAACTTTTATAATATTGA
1 TATAATTT-TTATAATTTTTATAATATTGA
*
13898945 TA-AGTTTTTATAATTTTTATAATATT-A
1 TATAATTTTTATAATTTTTATAATATTGA
*
13898972 TATAAATTTTA-ATATTTTTAT
1 TATAATTTTTATA-ATTTTTAT
13898993 GATTTTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 4 0.10
28 32 0.76
29 4 0.10
30 2 0.05
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (29 bp):
TATAATTTTTATAATTTTTATAATATTGA
Found at i:13899013 original size:19 final size:18
Alignment explanation
Indices: 13898978--13899028 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
13898968 ATTATATAAA
*
13898978 TTTTAATATTTTTATGAT
1 TTTTAATATTTTAATGAT
13898996 TTTTAATCATTTTAATGATT
1 TTTTAAT-ATTTTAATGA-T
13899016 TTTTATATATTTT
1 TTTTA-ATATTTT
13899029 TTAATGAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 7 0.24
19 9 0.31
20 11 0.38
21 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTAATATTTTAATGAT
Found at i:13909794 original size:12 final size:12
Alignment explanation
Indices: 13909777--13909802 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13909767 CAAAACAGGC
13909777 TTTTAGCGGCGT
1 TTTTAGCGGCGT
13909789 TTTTAGCGGCGT
1 TTTTAGCGGCGT
13909801 TT
1 TT
13909803 GGACAAAAAA
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:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:13909836 original size:41 final size:40
Alignment explanation
Indices: 13909791--13909923 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
13909781 AGCGGCGTTT
* * *
13909791 TTAGCGGCG-TTTGGACAAAAAATGCCACTAAAAATCGAGCA
1 TTAGCGGCGCTTT-TACAAAAAACGCCGCTAAAAAT-GAGCA
**
13909832 TTAGCGGCGCTTTTA-AAAAAACGCCGCTAAAGGTAGAGCA
1 TTAGCGGCGCTTTTACAAAAAACGCCGCTAAAAAT-GAGCA
* *
13909872 TTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAAATAAGCA
1 TTAGCGGCGCTTTTACAAAAAACGCCGCTAAAAATGAGCA
*
13909911 TTAACGGCG-TTTT
1 TTAGCGGCGCTTTT
13909924 CTGAAAAGCG
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
38 4 0.05
39 12 0.15
40 50 0.63
41 10 0.13
42 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGCTTTTACAAAAAACGCCGCTAAAAATGAGCA
Found at i:13909936 original size:39 final size:40
Alignment explanation
Indices: 13909808--13909942 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
13909798 CGTTTGGACA
* * * * **
13909808 AAAAATGCCACTAAAAATCGAGCATTAGCGGCGCTTTTAA
1 AAAAACGCCGCTAAAAATAGAGCATTAACGGCGCTTTTTC
** *
13909848 AAAAACGCCGCTAAAGGTAGAGCATTAGCGGCGCTTTTTC
1 AAAAACGCCGCTAAAAATAGAGCATTAACGGCGCTTTTTC
*
13909888 AAAAACGCCGCTAAAAATA-AGCATTAACGGCG-TTTTCTG
1 AAAAACGCCGCTAAAAATAGAGCATTAACGGCGCTTTT-TC
*
13909927 AAAAGCGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
13909943 GCCTAAGCCA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 9 0.11
39 23 0.28
40 50 0.61
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATAGAGCATTAACGGCGCTTTTTC
Found at i:13910168 original size:41 final size:41
Alignment explanation
Indices: 13910025--13910180 Score: 204
Period size: 41 Copynumber: 3.8 Consensus size: 41
13910015 GCTCTGGCCT
* **
13910025 TTAGCGGCGCTTAGTCAAAAGTGCCGCTAAAGGCCAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCA
* * *
13910066 TTAGCGGCGCTTACTCAAAAGCGCCGCTAAAGGCTAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCA
* * *
13910107 TTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCCGGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCA
*
13910148 TTAGCGGCGCTTTTTCAAAAACACGCCGCTAAA
1 TTAGCGGCGCTTATTC-AAAA-ACGCCGCTAAA
13910181 ATAAGCATTA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
41 87 0.85
42 4 0.04
43 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCA
Found at i:13910318 original size:41 final size:41
Alignment explanation
Indices: 13910256--13910494 Score: 304
Period size: 41 Copynumber: 5.8 Consensus size: 41
13910246 GATTTTTGGG
* *
13910256 GGCCCTTAGCGACGTTTTTGAATAAA-CGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTCT
13910297 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* *
13910338 GTCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* * * *
13910379 GTCTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
** * *
13910420 GATCTTTAGCGGCGTTTTT-AAAGAAGCGCCGGTATTGCTGC-
1 GGCCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCT-CT
* *
13910461 AGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTA
13910495 GTAATAATAA
Statistics
Matches: 178, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
40 5 0.03
41 169 0.95
42 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.31
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:13910351 original size:277 final size:275
Alignment explanation
Indices: 13909827--13910331 Score: 881
Period size: 277 Copynumber: 1.8 Consensus size: 275
13909817 ACTAAAAATC
*
13909827 GAGCATTAGCGGCGCTTTTAAAAAAACGCCGCTAAAGGTAGAGCATTAGCGGCGCTTTTTCAAAA
1 GAGCATTAGCGGCGCTTTTAAAAAAACGCCGCTAAAGGCAGAGCATTAGCGGCGCTTTTTCAAAA
13909892 ACGCCGCTAAAAATAAGCATTAACGGCGTTTTCTGAAAAGCGCCGCAAAAAGCCTAAGCCAAACG
66 ACGCCGCTAAAAATAAGCATTAACGGCGTTTTCTGAAAAGCGCCGCAAAAAGCCTAAGCCAAACG
*
13909957 ACACCGTTTTCTGATTTTTGGGGGCCTTTAGCGACGTTTTTGAATAAACGCCGCTAATGCTCTGG
131 ACACCGTTTTCTGATTTTTGGGGGCCCTTAGCGACGTTTTTGAATAAACGCCGCTAATGCTCTGG
* *
13910022 CCTTTAGCGGCGCTTAGTCAAAAGTGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTACTCAAAAG
196 CCTTTAGCGGCGCTTAGTAAAAAGCGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTACTCAAAAG
13910087 CGCCGCTAAAGGCTA
261 CGCCGCTAAAGGCTA
*
13910102 GAGCATTAGCGGCGCTTCTT-AAAAAACGCCGCTAAAGGCCGGAGCATTAGCGGCGCTTTTTCAA
1 GAGCATTAGCGGCGCTT-TTAAAAAAACGCCGCTAAAGG-CAGAGCATTAGCGGCGCTTTTTC-A
13910166 AAACACGCCGCT-AAAATAAGCATTAACGGCGTTTTCTGAAAAGCGCCGCAAAAAGCCTAAGCCA
63 AAA-ACGCCGCTAAAAATAAGCATTAACGGCGTTTTCTGAAAAGCGCCGCAAAAAGCCTAAGCCA
13910230 AACGACACCGTTTTCTGATTTTTGGGGGCCCTTAGCGACGTTTTTGAATAAACGCCGCTAATGCT
127 AACGACACCGTTTTCTGATTTTTGGGGGCCCTTAGCGACGTTTTTGAATAAACGCCGCTAATGCT
**
13910295 CTGGCCTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAA
192 CTGGCCTTTAGCGGCGCTTAGT-AAAAAGCGCCGCTAA
13910332 TGCTCTGTCT
Statistics
Matches: 218, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
275 35 0.16
276 26 0.12
277 149 0.68
278 8 0.04
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (275 bp):
GAGCATTAGCGGCGCTTTTAAAAAAACGCCGCTAAAGGCAGAGCATTAGCGGCGCTTTTTCAAAA
ACGCCGCTAAAAATAAGCATTAACGGCGTTTTCTGAAAAGCGCCGCAAAAAGCCTAAGCCAAACG
ACACCGTTTTCTGATTTTTGGGGGCCCTTAGCGACGTTTTTGAATAAACGCCGCTAATGCTCTGG
CCTTTAGCGGCGCTTAGTAAAAAGCGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTACTCAAAAG
CGCCGCTAAAGGCTA
Found at i:13910485 original size:123 final size:123
Alignment explanation
Indices: 13910261--13910494 Score: 337
Period size: 123 Copynumber: 1.9 Consensus size: 123
13910251 TTGGGGGCCC
* * *
13910261 TTAGCGACGTTTTTGAATAAACGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAAAAGCGC
1 TTAGCGACGTTTTTGAAGAAACGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAAAAGCGC
* * *
13910326 CGCTAATGCTCTGTCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGTCTT
66 CGCTAATGCTCAGTCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCTGTCTT
* * *
13910384 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTT-AAAGAAGCG
1 TTAGCGACGTTTTTGAAGAAACGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAA-AAGCG
* *
13910448 CCGGTATTGCTGCAG-CCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
65 CCGCTAATGCT-CAGTCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
13910495 GTAATAATAA
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
122 3 0.03
123 93 0.95
124 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (123 bp):
TTAGCGACGTTTTTGAAGAAACGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAAAAGCGC
CGCTAATGCTCAGTCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCTGTCTT
Found at i:13920437 original size:66 final size:65
Alignment explanation
Indices: 13920342--13920512 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
13920332 GATCAAATTA
* * * * *
13920342 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
13920406 G
65 G
* *
13920407 CTACAACTAAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
13920472 G
65 G
* * * * *
13920473 CAGCAGCTTAAAGCAGATGCGGTAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
13920513 CGGCAGTGAG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.02
66 84 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:13920524 original size:21 final size:21
Alignment explanation
Indices: 13920503--13920595 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
13920493 GGTAGCAAGA
** * *
13920503 GAAGCAGAGGCGGCAGTGAGA
1 GAAGCAGAGGCTACAGCGAGG
* *
13920524 GAAGTACAGGCTACAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
* * *
13920545 GAAACAGAGGCTAAAGTGAGG
1 GAAGCAGAGGCTACAGCGAGG
*
13920566 GAAGCAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
13920587 GAAGCAGAG
1 GAAGCAGAG
13920596 CAGCGTCAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.35, C:0.15, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTACAGCGAGG
Found at i:13920739 original size:43 final size:43
Alignment explanation
Indices: 13920692--13921043 Score: 262
Period size: 43 Copynumber: 8.3 Consensus size: 43
13920682 AGGTGTTGGC
* * *
13920692 CTTTAGTGGCGTTTTTGGTCAAAGTGCCGCTAAAGATAAGGGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * * * ***
13920735 CTTTAGT-G-G--T-T--AAAAAACGCCACTAAAGGTGTTGG-
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *
13920770 CTTTTAGTGGCGTTTTTGGTCAAAGTGCCGCTAAAGATAAGGGT
1 CTTT-AGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* *
13920814 CTTTAG-GGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * ** * *
13920856 CTTTTGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
*
13920899 CTTTAGTGGCGTTTTGTGGTCGAAA-CGCCGCTATAGATCAGGGT
1 CTTTAGTGGCG-TTTGTGGTC-AAAGCGCCGCTAAAGATCAGGGT
* * ** * * *
13920943 CTATT-GCGGCGTTTGAGGGGAAAGCGCCACTAAAGATTAGGTT
1 CT-TTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* *
13920986 CTTTCA-TGGCGTTTGTGGTCAAAACGCCGCTATAGATCAGGGT
1 CTTT-AGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
*
13921029 CTATT-GCGGCGTTTG
1 CT-TTAGTGGCGTTTG
13921044 AGAAAAAAAC
Statistics
Matches: 236, Mismatches: 55, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
35 4 0.02
36 18 0.08
37 1 0.00
38 2 0.01
39 1 0.00
40 1 0.00
41 2 0.01
42 42 0.18
43 124 0.53
44 36 0.15
45 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:13920802 original size:79 final size:79
Alignment explanation
Indices: 13920671--13920819 Score: 289
Period size: 79 Copynumber: 1.9 Consensus size: 79
13920661 GCAACAGTCG
13920671 AACGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTCAAAGTGCCGCTAAAGATAAGGGTC
1 AACGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTCAAAGTGCCGCTAAAGATAAGGGTC
13920736 TTTAGTGGTTAAAA
66 TTTAGTGGTTAAAA
*
13920750 AACGCCACTAAAGGTGTTGGCTTTTAGTGGCGTTTTTGGTCAAAGTGCCGCTAAAGATAAGGGTC
1 AACGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTCAAAGTGCCGCTAAAGATAAGGGTC
13920815 TTTAG
66 TTTAG
13920820 GGCGTTTGTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (79 bp):
AACGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTCAAAGTGCCGCTAAAGATAAGGGTC
TTTAGTGGTTAAAA
Found at i:13920989 original size:130 final size:128
Alignment explanation
Indices: 13920772--13921022 Score: 292
Period size: 130 Copynumber: 1.9 Consensus size: 128
13920762 GGTGTTGGCT
* *
13920772 TTTAGTGGCGTTTTTGGTCAAAGTGCCGCTAAAGATAAGGGTCTTTAGGGCGTTTGTGGTCGAAG
1 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGGGCGTTTGAGGTCGAAG
* * ** * *
13920837 CGCCGCTATAGATCAGGGTCTTTTGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTC
66 CGCCACTAAAGATCAGGGTCTTTCACGGCGTTTGTGGGCAAAACGCCGCTAAAGATTAGGTTC
* * *
13920900 TTTAGTGGCGTTTTGTGGTCGAAA-CGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGG-G
1 TTTAGTGGCGTTTT-TGGTC-AAAGCGCCGCTAAAGATAAGGGTCT-TTAG-GGCGTTTGAGGTC
* * * * *
13920962 GAAAGCGCCACTAAAGATTAGGTTCTTTCATGGCGTTTGTGGTCAAAACGCCGCTATAGAT
62 G-AAGCGCCACTAAAGATCAGGGTCTTTCACGGCGTTTGTGGGCAAAACGCCGCTAAAGAT
13921023 CAGGGTCTAT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
128 14 0.14
129 25 0.25
130 63 0.62
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (128 bp):
TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGGGCGTTTGAGGTCGAAG
CGCCACTAAAGATCAGGGTCTTTCACGGCGTTTGTGGGCAAAACGCCGCTAAAGATTAGGTTC
Found at i:13921075 original size:86 final size:86
Alignment explanation
Indices: 13920791--13921064 Score: 408
Period size: 87 Copynumber: 3.2 Consensus size: 86
13920781 GTTTTTGGTC
* * * *
13920791 AAAGTGCCGCTAAAGATAAGGGTCTTTAG-GGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCGAAACGCCGCTATAGATCAGGG
* *
13920855 TCTTTTGCGGCGTTTGTGGGG
66 TCTATTGCGGCGTTTGAGGGG
13920876 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTGGTCGAAACGCCGCTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTCGAAACGCCGCTATAGATCAGG
13920941 GTCTATTGCGGCGTTTGAGGGG
65 GTCTATTGCGGCGTTTGAGGGG
* *
13920963 AAAGCGCCACTAAAGATTAGGTTCTTTCA-TGGCGTTTGTGGTCAAAACGCCGCTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTT-AGTGGCGTTTGTGGTCGAAACGCCGCTATAGATCAGG
***
13921027 GTCTATTGCGGCGTTTGAGAAA
65 GTCTATTGCGGCGTTTGAGGGG
*
13921049 AAAACGCCGCTAAAGA
1 AAAGCGCCGCTAAAGA
13921065 CCCTGATCTT
Statistics
Matches: 173, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
85 26 0.15
86 66 0.38
87 80 0.46
88 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCGAAACGCCGCTATAGATCAGGG
TCTATTGCGGCGTTTGAGGGG
Found at i:13921118 original size:43 final size:43
Alignment explanation
Indices: 13921048--13921148 Score: 105
Period size: 43 Copynumber: 2.4 Consensus size: 43
13921038 CGTTTGAGAA
** *
13921048 AAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCCC
1 AAAAACGCCGCTAAAGACCAGGATCTTTAGCGACGCTTCTCCC
* * * * *
13921091 AAAAATGCCGCTAAAGATCAGGGTCTTTAGTGACGCTTC-CAC
1 AAAAACGCCGCTAAAGACCAGGATCTTTAGCGACGCTTCTCCC
* *
13921133 TAAAGCGCCGCTAAAG
1 AAAAACGCCGCTAAAG
13921149 GTCTTAGTCT
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
42 15 0.32
43 32 0.68
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCAGGATCTTTAGCGACGCTTCTCCC
Found at i:13921335 original size:22 final size:22
Alignment explanation
Indices: 13921307--13921349 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13921297 CTGCGGCGCT
*
13921307 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
13921329 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
13921350 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:13928700 original size:16 final size:16
Alignment explanation
Indices: 13928679--13928709 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13928669 CTATGCATGC
*
13928679 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
13928695 AAAATACAAAAGACA
1 AAAATACAAAAGACA
13928710 TAATAGTTAA
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:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:13928831 original size:108 final size:108
Alignment explanation
Indices: 13928707--13928914 Score: 416
Period size: 108 Copynumber: 1.9 Consensus size: 108
13928697 AATACAAAAG
13928707 ACATAATAGTTAAATGTGAAATTAACTTTATTTATTTATTCATCGTTTAAATAAATAGAAAAAAT
1 ACATAATAGTTAAATGTGAAATTAACTTTATTTATTTATTCATCGTTTAAATAAATAGAAAAAAT
13928772 TTACATGTTTACTACAATATCGACACATTTCCCAAAAATACAA
66 TTACATGTTTACTACAATATCGACACATTTCCCAAAAATACAA
13928815 ACATAATAGTTAAATGTGAAATTAACTTTATTTATTTATTCATCGTTTAAATAAATAGAAAAAAT
1 ACATAATAGTTAAATGTGAAATTAACTTTATTTATTTATTCATCGTTTAAATAAATAGAAAAAAT
13928880 TTACATGTTTACTACAATATCGACACATTTCCCAA
66 TTACATGTTTACTACAATATCGACACATTTCCCAA
13928915 CAATTATATA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (108 bp):
ACATAATAGTTAAATGTGAAATTAACTTTATTTATTTATTCATCGTTTAAATAAATAGAAAAAAT
TTACATGTTTACTACAATATCGACACATTTCCCAAAAATACAA
Done.