Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 81 of 316
Found at i:24268224 original size:19 final size:20
Alignment explanation
Indices: 24268186--24268224 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
24268176 AATTATATCC
*
24268186 ATTTATGAACATATATACAT
1 ATTTATGAACATATAAACAT
*
24268206 ATTTATG-ACATGTAAACAT
1 ATTTATGAACATATAAACAT
24268225 TAAGCATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (20 bp):
ATTTATGAACATATAAACAT
Found at i:24271710 original size:30 final size:30
Alignment explanation
Indices: 24271676--24271735 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
24271666 TTTGGATTTC
*
24271676 TCCTATGGATATGGTTACTCGTAATCAGCA
1 TCCTATGGATATGCTTACTCGTAATCAGCA
24271706 TCCTATGGATATGCTTACTCGTAATCAGCA
1 TCCTATGGATATGCTTACTCGTAATCAGCA
24271736 GGGAAATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (30 bp):
TCCTATGGATATGCTTACTCGTAATCAGCA
Found at i:24272599 original size:28 final size:26
Alignment explanation
Indices: 24272568--24272636 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 26
24272558 AAAAGAAAAT
24272568 AATAATAAAAATAATGTACTATTAATAA-
1 AATAATAAAAATAATGTA-T-TT-ATAAC
*
24272596 AATAAGAAAAATAATGTATTTATAAC
1 AATAATAAAAATAATGTATTTATAAC
24272622 AATAATAGAAAATAA
1 AATAATA-AAAATAA
24272637 CAATATGTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.11
26 8 0.22
27 8 0.22
28 17 0.46
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (26 bp):
AATAATAAAAATAATGTATTTATAAC
Found at i:24273004 original size:25 final size:24
Alignment explanation
Indices: 24272898--24273046 Score: 126
Period size: 25 Copynumber: 6.1 Consensus size: 24
24272888 ATCGTATTGA
* *
24272898 ATATTAAAAGTATATATATAATAT
1 ATATTAAAAATATATACATAATAT
* * *
24272922 AGA-CAAAAATATATGCATAATAT
1 ATATTAAAAATATATACATAATAT
* * *
24272945 AGTATTGAAAGTATTTACATGAGATA-
1 A-TATTAAAAATATATACAT-A-ATAT
* *
24272971 ATATAAAAAATATATGA-ATAATGT
1 ATATTAAAAATATAT-ACATAATAT
24272995 GATATTAAAAATATATACATAATAT
1 -ATATTAAAAATATATACATAATAT
24273020 AGTATT-AAAATATATACATAATAT
1 A-TATTAAAAATATATACATAATAT
24273044 ATA
1 ATA
24273047 CATATTAGAA
Statistics
Matches: 98, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
23 21 0.21
24 25 0.26
25 46 0.47
26 3 0.03
27 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (24 bp):
ATATTAAAAATATATACATAATAT
Found at i:24273018 original size:11 final size:11
Alignment explanation
Indices: 24273004--24273050 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
24272994 TGATATTAAA
24273004 AATATATACAT
1 AATATATACAT
* *
24273015 AATATAGTATTAA
1 AATATA-TA-CAT
24273028 AATATATACAT
1 AATATATACAT
24273039 AATATATACAT
1 AATATATACAT
24273050 A
1 A
24273051 TTAGAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 19 0.63
12 4 0.13
13 7 0.23
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (11 bp):
AATATATACAT
Found at i:24273047 original size:35 final size:35
Alignment explanation
Indices: 24273004--24273123 Score: 100
Period size: 35 Copynumber: 3.7 Consensus size: 35
24272994 TGATATTAAA
24273004 AATATATACATAATATAGTATTAA-AATATATACAT
1 AATATATACATAATATAGTATTAATAATA-ATACAT
24273039 AATATATACAT-AT-TAG-A--AATAATAATA-AT
1 AATATATACATAATATAGTATTAATAATAATACAT
* * * * *
24273068 AATGT-TACAAAACA-ATTATTAATAATACTACAT
1 AATATATACATAATATAGTATTAATAATAATACAT
24273101 AAATATATACAT-ATATA-TATTAA
1 -AATATATACATAATATAGTATTAA
24273124 AGACATATAC
Statistics
Matches: 67, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
28 4 0.06
29 8 0.12
30 6 0.09
31 4 0.06
32 10 0.15
33 5 0.07
34 14 0.21
35 16 0.24
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.36
Consensus pattern (35 bp):
AATATATACATAATATAGTATTAATAATAATACAT
Found at i:24273262 original size:21 final size:20
Alignment explanation
Indices: 24273236--24273296 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 20
24273226 ATATATATAC
24273236 ATATACATAGATAATAAAAAA
1 ATATACATA-ATAATAAAAAA
*
24273257 ATATACACTAATAATAATAATA
1 ATATACA-TAATAATAA-AAAA
24273279 ATAATA-ATAATAATAAAA
1 AT-ATACATAATAATAAAA
24273297 GTAAAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 2 0.06
21 23 0.64
22 8 0.22
23 3 0.08
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (20 bp):
ATATACATAATAATAAAAAA
Found at i:24273271 original size:3 final size:3
Alignment explanation
Indices: 24273265--24273294 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24273255 AAATATACAC
24273265 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24273295 AAGTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24274870 original size:37 final size:37
Alignment explanation
Indices: 24274820--24274898 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
24274810 TTATTACGAA
* *
24274820 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
24274857 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
24274894 GTCTT
1 GTCTT
24274899 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:24275095 original size:47 final size:47
Alignment explanation
Indices: 24275017--24275317 Score: 458
Period size: 47 Copynumber: 6.3 Consensus size: 47
24275007 CCCTTCGGGA
* * * * * *
24275017 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24275064 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24275111 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24275158 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24275209 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24275256 CTTATCACAAATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24275303 CTTATCACATATATA
1 CTTATCACATATATA
24275318 TATACACTTT
Statistics
Matches: 233, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 187 0.80
51 46 0.20
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24275291 original size:145 final size:145
Alignment explanation
Indices: 24275028--24275333 Score: 531
Period size: 145 Copynumber: 2.1 Consensus size: 145
24275018 TTATCACATT
* * * * *
24275028 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCA
*
24275093 TCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACAAATATACACTCTCACATTCATCACATCGGCCATTAGGC
24275158 CTTATCACATATATA
131 CTTATCACATATATA
* * *
24275173 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGCTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCA
24275238 TCACATCGGCCATTAGGCCTTATCACAAATATACACTCTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACAAATATACACTCTCACATTCATCACATCGGCCATTAGGC
24275303 CTTATCACATATATA
131 CTTATCACATATATA
24275318 TATACACTTTCACATT
1 TATACACTTTCACATT
24275334 TACTCAAATA
Statistics
Matches: 152, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
145 152 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (145 bp):
TATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACAAATATACACTCTCACATTCATCACATCGGCCATTAGGC
CTTATCACATATATA
Found at i:24279371 original size:64 final size:64
Alignment explanation
Indices: 24279270--24279541 Score: 186
Period size: 75 Copynumber: 3.9 Consensus size: 64
24279260 AAAAAAATTG
** *
24279270 AAAATACCTCAGTGTGTGACCTGAGGCTCAACTCACCTCTCATAATATGAGTTGATAGAAACTA
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATAGAAACTA
* *
24279334 AAAATACCTTAGCATGTGA-CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 AAAATACCTCAGCATGTGACCT-GAGGCTCAACTCACCTCTCACAATATGAGTTGA------T--
*
24279398 AACATAAACTA
57 ---AGAAACTA
* * * * *
24279409 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGACTTTTTTGAA
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-----TAG-A
*
24279474 AAATAGGA
60 AACT---A
* *
24279482 ACTGAAGATACCTCAGCATGTGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 A---AA-ATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
24279542 TTTTTGAAAA
Statistics
Matches: 171, Mismatches: 16, Indels: 34
0.77 0.07 0.15
Matches are distributed among these distances:
63 2 0.01
64 47 0.27
70 5 0.03
72 1 0.01
73 2 0.01
74 5 0.03
75 56 0.33
76 3 0.02
77 50 0.29
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (64 bp):
AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATAGAAACTA
Found at i:24279591 original size:76 final size:77
Alignment explanation
Indices: 24279324--24279623 Score: 426
Period size: 75 Copynumber: 3.9 Consensus size: 77
24279314 ATATGAGTTG
* *
24279324 ATAGAAACTAAAAATACCTTAGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
24279389 TTTTTTTGAAAC
66 CTTTTTTGAAAA
* *
24279401 AT--AAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
24279464 CTTTTTTGAAAA
66 CTTTTTTGAAAA
* * * * *
24279476 ATAGGAACTGAAGATACCTCAGCATGTGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
24279541 -TTTTTTGAAAA
66 CTTTTTTGAAAA
* * * * *
24279552 ATAGAAATTGAAAATACCTCGGCGTGTGACCCGAGGCTCAACCCACCTCTCGCAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
24279617 TTTTTTT
66 CTTTTTT
24279624 TTGAAAAAGC
Statistics
Matches: 201, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
75 69 0.34
76 68 0.34
77 64 0.32
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (77 bp):
ATAGAAACTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
CTTTTTTGAAAA
Found at i:24290865 original size:17 final size:17
Alignment explanation
Indices: 24290832--24290866 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24290822 GTTTTTATTT
*
24290832 AAAACTAAACTACAAAA
1 AAAACTAAACCACAAAA
*
24290849 AAAACTAAACCATAAAA
1 AAAACTAAACCACAAAA
24290866 A
1 A
24290867 CTTAGAGCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAACTAAACCACAAAA
Found at i:24291720 original size:28 final size:26
Alignment explanation
Indices: 24291689--24291757 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 26
24291679 AAAAGAAAAT
24291689 AATAATAAAAATAATGTACTATTAATAA-
1 AATAATAAAAATAATGTA-T-TT-ATAAC
*
24291717 AATAAGAAAAATAATGTATTTATAAC
1 AATAATAAAAATAATGTATTTATAAC
24291743 AATAATAGAAAATAA
1 AATAATA-AAAATAA
24291758 CAATATGTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.11
26 8 0.22
27 8 0.22
28 17 0.46
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (26 bp):
AATAATAAAAATAATGTATTTATAAC
Found at i:24291790 original size:10 final size:10
Alignment explanation
Indices: 24291775--24291805 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24291765 TACATAAAAA
24291775 TATATATATG
1 TATATATATG
*
24291785 TATATATGTG
1 TATATATATG
24291795 TATATATATG
1 TATATATATG
24291805 T
1 T
24291806 TCATAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:24292054 original size:23 final size:23
Alignment explanation
Indices: 24292023--24292188 Score: 68
Period size: 24 Copynumber: 6.9 Consensus size: 23
24292013 ATTGAATATT
* *
24292023 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
* *
24292046 AAAAATATATGCATAATATAGTATT
1 AAAAATATATACATAATATAG-A-C
* * * * *
24292071 GAAAGTATTTACATGGGATAATATA-
1 AAAAATATATACAT--AAT-ATAGAC
* * *
24292096 AAAAATATATGA-ATAATGTGATATT
1 AAAAATATAT-ACATAATAT-AGA-C
*
24292121 AAAAATATATATACATAATATATA-
1 AAAAATA--TATACATAATATAGAC
* *
24292145 TAAAATATATACATAATATAGTAT
1 AAAAATATATACATAATATAG-AC
*
24292169 TAAAATATATACATAATATA
1 AAAAATATATACATAATATA
24292189 TACATATTAG
Statistics
Matches: 111, Mismatches: 18, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
22 14 0.13
23 24 0.22
24 27 0.24
25 26 0.23
26 5 0.05
27 12 0.11
28 3 0.03
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:24292103 original size:50 final size:46
Alignment explanation
Indices: 24292019--24292190 Score: 157
Period size: 50 Copynumber: 3.5 Consensus size: 46
24292009 TCGTATTGAA
* * *
24292019 TATTAAAAGTATATATATAATATAGACAAAAATATATGCATAATATAG
1 TATTAAAA-TATTTACATAATATATA-AAAAATATATGCATAATATAG
* * * *
24292067 TATTGAAAGTATTTACATGGGATAATATAAAAAATATATGAATAATGT-G
1 TATT-AAAATATTTACAT--AAT-ATATAAAAAATATATGCATAATATAG
* *
24292116 ATATTAAAAATATATATACATAATATATATAAAATATATACATAATATAG
1 -TATT-AAAATAT-T-TACATAATATATAAAAAATATATGCATAATATAG
*
24292166 TATTAAAATATATACATAATATATA
1 TATTAAAATATTTACATAATATATA
24292191 CATATTAGAA
Statistics
Matches: 101, Mismatches: 15, Indels: 18
0.75 0.11 0.13
Matches are distributed among these distances:
46 13 0.13
48 18 0.18
49 28 0.28
50 32 0.32
51 5 0.05
52 5 0.05
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.35
Consensus pattern (46 bp):
TATTAAAATATTTACATAATATATAAAAAATATATGCATAATATAG
Found at i:24292124 original size:24 final size:23
Alignment explanation
Indices: 24292097--24292190 Score: 111
Period size: 24 Copynumber: 3.9 Consensus size: 23
24292087 GATAATATAA
*
24292097 AAAATATATGA-ATAATGTGATATT
1 AAAATATAT-ACATAATAT-ATATT
24292121 AAAAATATATATACATAATATATA-T
1 -AAAA--TATATACATAATATATATT
24292146 AAAATATATACATAATATAGTATT
1 AAAATATATACATAATATA-TATT
24292170 AAAATATATACATAATATATA
1 AAAATATATACATAATATATA
24292191 CATATTAGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
22 15 0.24
23 4 0.06
24 24 0.38
25 5 0.08
26 4 0.06
27 11 0.17
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAATATATACATAATATATATT
Found at i:24292140 original size:13 final size:13
Alignment explanation
Indices: 24292124--24292190 Score: 67
Period size: 13 Copynumber: 5.6 Consensus size: 13
24292114 TGATATTAAA
24292124 AATATATATACAT
1 AATATATATACAT
24292137 AATATATAT--A-
1 AATATATATACAT
24292147 AA-ATATATACAT
1 AATATATATACAT
24292159 AATATAGTAT---T
1 AATATA-TATACAT
*
24292170 AAAATATATACAT
1 AATATATATACAT
24292183 AATATATA
1 AATATATA
24292191 CATATTAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
9 6 0.14
10 5 0.11
11 8 0.18
12 2 0.05
13 20 0.45
14 3 0.07
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (13 bp):
AATATATATACAT
Found at i:24292141 original size:11 final size:11
Alignment explanation
Indices: 24292127--24292194 Score: 82
Period size: 11 Copynumber: 6.0 Consensus size: 11
24292117 TATTAAAAAT
24292127 ATATATACATA
1 ATATATACATA
* *
24292138 ATATATATAAA
1 ATATATACATA
24292149 ATATATACATA
1 ATATATACATA
* *
24292160 ATATAGTATTAAA
1 ATATA-TA-CATA
24292173 ATATATACATA
1 ATATATACATA
24292184 ATATATACATA
1 ATATATACATA
24292195 TTAGAAATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
11 36 0.77
12 4 0.09
13 7 0.15
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (11 bp):
ATATATACATA
Found at i:24292306 original size:3 final size:3
Alignment explanation
Indices: 24292300--24292479 Score: 92
Period size: 3 Copynumber: 60.0 Consensus size: 3
24292290 AAACATATAC
* * *
24292300 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA T-A TAA TAA CAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
24292347 TGA -AA TACA AAA AAA T-A TAA T-A TAA TAA AAA TGA TAA -AG TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
24292389 TTAA AAA TAA TAC T-A TATA TAA -ATA TATA TACA T-A TACA TAGA TAA
1 -TAA TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A TAA TA-A TA-A TAA
*
24292435 TAA TAA -AA T-A TACA CTAA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24292480 AAGTAAAAAT
Statistics
Matches: 136, Mismatches: 24, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
2 16 0.12
3 95 0.70
4 23 0.17
5 2 0.01
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:24292309 original size:21 final size:21
Alignment explanation
Indices: 24292249--24292329 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 21
24292239 CTACATAAAT
24292249 ATATACATATATATATATTAAAGAC
1 ATATACA-ATATATA-A-TAAA-AC
24292274 ATATAC-ATATATAATAAAAC
1 ATATACAATATATAATAAAAC
*
24292294 ATATACTAATA-ATAATAATA-
1 ATATAC-AATATATAATAAAAC
24292314 ATA-ACAATA-ATAATAA
1 ATATACAATATATAATAA
24292330 TATAATAACA
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
18 11 0.21
19 2 0.04
20 11 0.21
21 12 0.23
22 4 0.08
23 7 0.13
25 6 0.11
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.32
Consensus pattern (21 bp):
ATATACAATATATAATAAAAC
Found at i:24292335 original size:98 final size:97
Alignment explanation
Indices: 24292147--24292336 Score: 219
Period size: 98 Copynumber: 1.9 Consensus size: 97
24292137 AATATATATA
* * *
24292147 AAATATATACATAATATAGTATTAAAATATATACATAATATATACATATTAGAAATAATAATAAT
1 AAATATATACATAATATAGTATTAAAACATATACATAATATAAACATATTACAAATAATAATAAT
* *
24292212 AATGTTACAAAACAATTATTGATAATACTACAT
66 AA-GTAACAAAACAATTAATGATAATACTACAT
*
24292245 AAATATATACATATATATA-TATTAAAGACATATACATATATAATAAAACATA-TACTAATAATA
1 AAATATATACATA-ATATAGTATTAAA-ACATATACATA-AT-AT-AAACATATTACAAATAATA
*
24292308 ATAATAA-TAACAATAATAA-TAAT-ATAATA
61 ATAATAAGTAACAA-AACAATTAATGATAATA
24292337 ACAATAATAT
Statistics
Matches: 79, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
98 26 0.33
99 23 0.29
100 6 0.08
101 18 0.23
102 6 0.08
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.34
Consensus pattern (97 bp):
AAATATATACATAATATAGTATTAAAACATATACATAATATAAACATATTACAAATAATAATAAT
AAGTAACAAAACAATTAATGATAATACTACAT
Found at i:24293788 original size:27 final size:27
Alignment explanation
Indices: 24293754--24293810 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
24293744 ATATCTCATG
24293754 TTACAAATAAATTCATATAATGTAATT
1 TTACAAATAAATTCATATAATGTAATT
24293781 TTACAAATAAATTCATATAATGTAATT
1 TTACAAATAAATTCATATAATGTAATT
24293808 TTA
1 TTA
24293811 TTCTATTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (27 bp):
TTACAAATAAATTCATATAATGTAATT
Found at i:24296404 original size:19 final size:19
Alignment explanation
Indices: 24296379--24296476 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
24296369 AATCTTTAAG
24296379 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
24296398 AATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24296417 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24296434 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24296453 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
24296474 GAT
1 GAT
24296477 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
21 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24296409 original size:36 final size:35
Alignment explanation
Indices: 24296369--24296465 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 35
24296359 ATGAAAATAT
24296369 AATCTTTAAGGATATGCAATCTTAGATATAATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATAATATGC
*
24296405 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATAATATGC
*
24296441 AATCTTAGATATGATATGCAATCTT
1 AATCTT---TAAGATATGCAATCTT
24296466 GAAGATATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
33 6 0.12
34 1 0.02
35 2 0.04
36 27 0.53
37 1 0.02
38 7 0.14
40 1 0.02
41 6 0.12
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATAATATGC
Found at i:24296416 original size:14 final size:15
Alignment explanation
Indices: 24296399--24296454 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 15
24296389 CTTAGATATA
24296399 ATATG-CAATCTTAG
1 ATATGACAATCTTAG
24296413 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
24296430 ATATGATATGCAATCTTAG
1 ATATG--A--CAATCTTAG
24296449 ATATGA
1 ATATGA
24296455 TATGCAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.14
17 18 0.49
19 14 0.38
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (15 bp):
ATATGACAATCTTAG
Found at i:24301761 original size:44 final size:42
Alignment explanation
Indices: 24301661--24302135 Score: 323
Period size: 44 Copynumber: 10.8 Consensus size: 42
24301651 GAAACAAGAT
**
24301661 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAAC-AATCGAAGATTTCAGA
* * * *
24301704 TCTGACA-CTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
1 T-TGGCATC-CCTGTGTTTATAGGGAA-CA-ATCGAAGATTTCAG-A
*
24301750 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAGCA
1 TTGGCATCCCTGTGTTTATAGGGAACAA-TCGAAGATTTCAG-A
* * **
24301793 -TGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAA-TCGAAGATTTCAGA
* *
24301835 TTTGGCATCCCTGTGTTTATGGGGAACAAATCGAAGATAGT-AGA
1 -TTGGCATCCCTGTGTTTATAGGGAAC-AATCGAAGAT-TTCAGA
* * ** * *
24301879 TCTGACATTCCTGTGCATACAGCGAAGCAGATCGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CA-ATCGAAGATTTCAG-A
* ***
24301925 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGAAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAA-TCGAAGATTTCAGA
* **
24301967 TTTGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAACAGA
1 -TTGGCATCCCTGTGTTTATAGGGAAC-AATCGAAGATTTCAGA
* * * * *
24302011 TCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CA-ATCGAAGATTTCAG-A
* **
24302057 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAA-TCGAAGATTTCAGA
** * * *
24302099 TTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGA
1 -TTGGCATCCCTGTGTTTATAGGGAAC-AATCGAAGA
24302136 CATAGCTGAT
Statistics
Matches: 343, Mismatches: 61, Indels: 55
0.75 0.13 0.12
Matches are distributed among these distances:
42 6 0.02
43 81 0.24
44 209 0.61
45 44 0.13
46 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
TTGGCATCCCTGTGTTTATAGGGAACAATCGAAGATTTCAGA
Found at i:24301948 original size:175 final size:175
Alignment explanation
Indices: 24301649--24302049 Score: 590
Period size: 175 Copynumber: 2.3 Consensus size: 175
24301639 ATGTAGATCA
24301649 AAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACT
1 AAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACT
* *
24301713 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG
65 CCTGTGCATACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG
*** *
24301778 TTGAAGATTTCAGCA-TGGCATCCCTATGTTTATAGGGAACAAGTTG
130 TTGAAGATAGAAG-ATTGGCATCCCTATGTTTATAGGGAACAAATTG
* * * *
24301824 AAGATAGCAGATTTGGCATCCCTGTGTTTATGGGGAACAAATCGAAGATAGTAGATCTGACATTC
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
24301889 CTGTGCATACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
66 CTGTGCATACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
*
24301954 TGAAGATAGAAGATTTGGCATCCCTGTGTTTATAGGGAACAAATTG
131 TGAAGATAGAAGA-TTGGCATCCCTATGTTTATAGGGAACAAATTG
* * * * * * *
24302000 AAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGAT
24302050 TTCAGCATGG
Statistics
Matches: 202, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
174 1 0.00
175 130 0.64
176 60 0.30
177 11 0.05
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (175 bp):
AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
CTGTGCATACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
TGAAGATAGAAGATTGGCATCCCTATGTTTATAGGGAACAAATTG
Found at i:24301950 original size:132 final size:132
Alignment explanation
Indices: 24301662--24302135 Score: 607
Period size: 132 Copynumber: 3.6 Consensus size: 132
24301652 AAACAAGATT
* * * * * *
24301662 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATC-CCTGTGTTTATAG
* * ** * * ** * * *
24301726 TGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAA-CA-AGTTGAAGATT
65 GGAA-CAAATCGAAGATAACAGATC-TGACATTCCTGTGCATACAGCGAAGCAGA-TCGAAGATT
24301787 TCAGCA
127 TCAGCA
* *
24301793 TGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATGGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
**
24301858 GAACAAATCGAAGATAGTAGATCTGACATTCCTGTGCATACAGCGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAACAGATCTGACATTCCTGTGCATACAGCGAAGCAGATCGAAGATTTCAG
24301923 CA
131 CA
*
24301925 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGAAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
* * *
24301990 GAACAAATTGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAACAGATCTGACATTCCTGTGCATACAGCGAAGCAGATCGAAGATTTCAG
24302055 CA
131 CA
** * * *
24302057 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCATTGTGCTTACAAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
24302122 GAACAAATCGAAGA
66 GAACAAATCGAAGA
24302136 CATAGCTGAT
Statistics
Matches: 303, Mismatches: 35, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
130 13 0.04
131 75 0.25
132 214 0.71
133 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
GAACAAATCGAAGATAACAGATCTGACATTCCTGTGCATACAGCGAAGCAGATCGAAGATTTCAG
CA
Found at i:24302024 original size:88 final size:88
Alignment explanation
Indices: 24301662--24302135 Score: 367
Period size: 88 Copynumber: 5.4 Consensus size: 88
24301652 AAACAAGATT
* * * *
24301662 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGAT-TGGCATC-CCTGTGTTTATAG
* * * **
24301726 TGAAGCAGATCGAAGATTTCAG--CA
64 GGAA-CAAATTGAAGATAGCAGATCA
* ** *
24301750 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAGCA-TGGCATCCCTATGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAG-ATTGGCATCCCTGTGTTTATAGG
* *
24301814 GAACAAGTTGAAGATAGCAGAT-T
65 GAACAAATTGAAGATAGCAGATCA
* * * * * ** * *
24301837 TGGCATCCCTGTGTTTATGGGGAACAAATCGAAGATAGTAGATCTGACATTCCTGTGCATACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGAT-TGGCATCCCTGTGTTTATAGG
* * **
24301902 GAAGCAGATCGAAGATTTCAG--CA
65 GAA-CAAATTGAAGATAGCAGATCA
* *
24301925 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGAAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA-TTGGCATCCCTGTGTTTATAGG
*
24301990 GAACAAATTGAAGATAACAGATC-
65 GAACAAATTGAAGATAGCAGATCA
* * * * * **
24302013 TGACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAGCA-TGGCATCCCTGTGTTTATA
1 TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-ATTGGCATCCCTGTGTTTATA
* *
24302076 GGGAACAAGTTGAAGATAGCAGAT-T
63 GGGAACAAATTGAAGATAGCAGATCA
** * * * *
24302101 TGGCATCATTGTGCTTACAAGGAACAAATCGAAGA
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGA
24302136 CATAGCTGAT
Statistics
Matches: 304, Mismatches: 66, Indels: 33
0.75 0.16 0.08
Matches are distributed among these distances:
86 13 0.04
87 73 0.24
88 192 0.63
89 25 0.08
90 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (88 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTGGCATCCCTGTGTTTATAGGG
AACAAATTGAAGATAGCAGATCA
Found at i:24302454 original size:206 final size:206
Alignment explanation
Indices: 24302097--24303036 Score: 1443
Period size: 206 Copynumber: 4.6 Consensus size: 206
24302087 GAAGATAGCA
* * *
24302097 GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
24302161 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
** * * *
24302226 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCTTTCATATGTTTATATTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
24302291 AAATCCAAGGT
196 AAATCCAAGAT
*
24302302 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTTACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
24302367 TACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAATAAATCAAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
* ** *
24302432 CGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* *
24302497 AGATCCAAGGT
196 AAATCCAAGAT
24302508 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
24302573 TACGATGAAGCAAATTTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
*
24302638 CGTCTCCATATTCGACGGAGAGTAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
24302703 AGATCCAAGAT
196 AAATCCAAGAT
*
24302714 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * * *
24302779 TACGATGAAGTAAATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCGAATTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
* * * *
24302844 CGTCTCCATATTCGACGGAGGGCAGACACATAACAGATCTAACCTTCAGATGATTAGACTGAAG-
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
24302908 AAGATCCAAGAT
196 AA-ATCCAAGAT
* * * * * * * **
24302920 GGTTTGGTATCCTTGTGTTTACAGGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGTGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
24302985 TATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAAAACA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA
24303037 GATCGAAGAT
Statistics
Matches: 682, Mismatches: 51, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
205 59 0.09
206 623 0.91
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AAATCCAAGAT
Found at i:24303489 original size:22 final size:21
Alignment explanation
Indices: 24303430--24303472 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
24303420 AATCATTAAG
24303430 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
24303449 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
24303470 GAT
1 GAT
24303473 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:24306008 original size:9 final size:9
Alignment explanation
Indices: 24305977--24306029 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
24305967 TTAAAAATAT
24305977 ATAATTTT-
1 ATAATTTTA
*
24305985 ATACTTTTAA
1 ATAATTTT-A
24305995 ATAATTTTA
1 ATAATTTTA
24306004 ATAATTTTAA
1 ATAATTTT-A
*
24306014 ATAATTTTT
1 ATAATTTTA
24306023 ATAATTT
1 ATAATTT
24306030 ATTTATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.18
9 16 0.41
10 16 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
ATAATTTTA
Found at i:24306013 original size:19 final size:18
Alignment explanation
Indices: 24305977--24306029 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 18
24305967 TTAAAAATAT
*
24305977 ATAATTTTATACTTTTAA
1 ATAATTTTATAATTTTAA
24305995 ATAATTTTAATAATTTTAA
1 ATAATTTT-ATAATTTTAA
24306014 ATAATTTTTATAATTT
1 ATAA-TTTTATAATTT
24306030 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 8 0.25
19 20 0.62
20 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTTATAATTTTAA
Found at i:24308778 original size:13 final size:13
Alignment explanation
Indices: 24308760--24308784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24308750 ATAAAGGGCA
24308760 AAAAAATAAAAAT
1 AAAAAATAAAAAT
24308773 AAAAAATAAAAA
1 AAAAAATAAAAA
24308785 CAAAGACGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:24310237 original size:40 final size:40
Alignment explanation
Indices: 24310152--24310247 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 40
24310142 CATCTTTGTT
* * * *
24310152 TAACCCAACACACC-A-TGTGGGGATAAAATCGACCCACC
1 TAACCCTACACACCAAGTATGGGAATAAAATCAACCCACC
*
24310190 TAACCCTACACACCAAGTATGGGAATAAAATCAACCCATC
1 TAACCCTACACACCAAGTATGGGAATAAAATCAACCCACC
* *
24310230 TAGCCCTATACACCAAGT
1 TAACCCTACACACCAAGT
24310248 GGTACTGTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
38 13 0.27
39 1 0.02
40 35 0.71
ACGTcount: A:0.39, C:0.32, G:0.12, T:0.17
Consensus pattern (40 bp):
TAACCCTACACACCAAGTATGGGAATAAAATCAACCCACC
Found at i:24315059 original size:43 final size:43
Alignment explanation
Indices: 24314975--24315160 Score: 286
Period size: 43 Copynumber: 4.3 Consensus size: 43
24314965 CGTTTATGAA
24314975 AAAAACGCCGCTAATA-GTCATGACCTTTAGCGGCGC-TTTCCC
1 AAAAACGCCGCTAA-AGGTCATGACCTTTAGCGGCGCTTTTCCC
* *
24315017 AAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
* * *
24315060 ACAAACGCTGCTAAAGGTCATGACCTGTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
* *
24315103 ACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCT
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
24315146 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
24315161 AATATGACCT
Statistics
Matches: 131, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 1 0.01
42 32 0.24
43 98 0.75
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
Found at i:24320702 original size:40 final size:40
Alignment explanation
Indices: 24320610--24320827 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
24320600 TGGATGATAA
* *
24320610 CCGGGCTAAGTTCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
24320651 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
24320691 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24320731 CCGGGCTAAGTCCTGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24320771 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
24320810 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24320828 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 100 0.64
41 23 0.15
42 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24327531 original size:40 final size:40
Alignment explanation
Indices: 24327476--24327693 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
24327466 TGGATGATAA
* *
24327476 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAG-TGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TAT
24327516 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
*
24327556 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
24327596 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
24327636 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATAT
* *
24327676 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24327694 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:24332771 original size:31 final size:31
Alignment explanation
Indices: 24332709--24332780 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
24332699 TTCAGAAATA
*
24332709 TGGGCCCACATGCCCGTGTAGCTTACTCGTG
1 TGGGCCCACATGCCCGTGTAGCTTACCCGTG
* * *
24332740 TGGGCCCACATGTCCGTGTGGAC-TGCCCGTG
1 TGGGCCCACATGCCCGTGTAG-CTTACCCGTG
*
24332771 TGGACCCACA
1 TGGGCCCACA
24332781 CGCCTAACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.14, C:0.33, G:0.31, T:0.22
Consensus pattern (31 bp):
TGGGCCCACATGCCCGTGTAGCTTACCCGTG
Found at i:24340458 original size:40 final size:40
Alignment explanation
Indices: 24340363--24340580 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
24340353 TGGATGATAA
*
24340363 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
24340404 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
24340444 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24340484 CCGGGCTAAGTCCCGAAGGTATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
24340524 CCGGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
24340563 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24340581 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 14 0.09
40 102 0.64
41 24 0.15
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24344115 original size:22 final size:21
Alignment explanation
Indices: 24344090--24344152 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
24344080 CCTTAAACAA
*
24344090 TAAAACATAAACCCTTAACCCC
1 TAAAACTTAAACCC-TAACCCC
* * *
24344112 TAAACCTTAAACCCCAATACCC
1 TAAAACTTAAACCCTAA-CCCC
24344134 TAAAACTTAAACCCTAACC
1 TAAAACTTAAACCCTAACC
24344153 TTTAACCCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 3 0.09
22 30 0.91
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAAACTTAAACCCTAACCCC
Found at i:24344189 original size:14 final size:14
Alignment explanation
Indices: 24344097--24344189 Score: 62
Period size: 14 Copynumber: 6.5 Consensus size: 14
24344087 CAATAAAACA
*
24344097 TAAACCCTTAACCCC
1 TAAACCC-TAAACCC
*
24344112 TAAACCTTAAACCC
1 TAAACCCTAAACCC
* * *
24344126 CAATACCCTAAAACT
1 TAA-ACCCTAAACCC
*
24344141 TAAACCCT-AACCT
1 TAAACCCTAAACCC
* *
24344154 TTAACCCATAAACCA
1 TAAACCC-TAAACCC
* *
24344169 AAAACCCTAATCCC
1 TAAACCCTAAACCC
24344183 TAAACCC
1 TAAACCC
24344190 ATAATACATA
Statistics
Matches: 60, Mismatches: 15, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
13 10 0.17
14 25 0.42
15 25 0.42
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCC
Found at i:24344202 original size:29 final size:28
Alignment explanation
Indices: 24344097--24344203 Score: 74
Period size: 29 Copynumber: 3.8 Consensus size: 28
24344087 CAATAAAACA
* * * *
24344097 TAAACCCTTAACCCCTAAACCTTAAACCC
1 TAAACCCATAAACCATAAACCCT-AACCC
* * * *
24344126 CAATACCC-TAAAACTTAAACCCTAACCT
1 TAA-ACCCATAAACCATAAACCCTAACCC
* *
24344154 TTAACCCATAAACCAAAAACCCTAATCCC
1 TAAACCCATAAACCATAAACCCTAA-CCC
24344183 TAAACCCATAATA-CATAAACC
1 TAAACCCATAA-ACCATAAACC
24344204 TTACAATAGT
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
27 4 0.07
28 19 0.32
29 32 0.53
30 5 0.08
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (28 bp):
TAAACCCATAAACCATAAACCCTAACCC
Found at i:24345872 original size:12 final size:12
Alignment explanation
Indices: 24345855--24345892 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
24345845 CCTTAAAAAT
24345855 TCGGCCTCATAC
1 TCGGCCTCATAC
24345867 TCGGCCTCATAC
1 TCGGCCTCATAC
24345879 TCGGCCTCATAC
1 TCGGCCTCATAC
24345891 TC
1 TC
24345893 TGATAAGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.16, C:0.42, G:0.16, T:0.26
Consensus pattern (12 bp):
TCGGCCTCATAC
Found at i:24356007 original size:42 final size:43
Alignment explanation
Indices: 24355940--24356035 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
24355930 TTCTGGCATA
*
24355940 TAGTGCATCA-TGAAAATCTACTGAAGTAATATATCTGGCACCT
1 TAGTGCATCATTGAAAATCTA-TGAAGCAATATATCTGGCACCT
*
24355983 TAGTGCATCATTGAAAAGT-T-TGAAGCAATATATCTTGCACCT
1 TAGTGCATCATTGAAAA-TCTATGAAGCAATATATCTGGCACCT
* *
24356025 CAATGCATCAT
1 TAGTGCATCAT
24356036 ATCATACTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 29 0.62
43 10 0.21
44 7 0.15
45 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (43 bp):
TAGTGCATCATTGAAAATCTATGAAGCAATATATCTGGCACCT
Found at i:24360564 original size:311 final size:311
Alignment explanation
Indices: 24360001--24360607 Score: 1020
Period size: 311 Copynumber: 2.0 Consensus size: 311
24359991 AAACAGGCTA
* *
24360001 TTACAACTCTCCCCCTTAGGAAATTTCATCCTCGAAATTTTTACTTGAGAAGACAATTGAGTATT
1 TTACAACTCTCCCCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAATTGAGTATT
* * *
24360066 GTGACTTCTTTAATTCCTCAGTTCCCCAGGTAGCTTATTTAATACGGAATATGAAAGATAATGAT
66 GTGACTTCTTCAATTCCTCAGTTCCCCAGGTAACTTATGTAATACGGAATATGAAAGATAATGAT
*
24360131 CTACTGACAATCTCGAATAATGTAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGC
131 CTACTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGC
* * *
24360196 CTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATCTTCTTTGGATATAATAGACAATGA
196 CTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATCTTCTTCGAAAATAATAGACAATGA
*
24360261 TACTCTGTTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
261 TACTCTATTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
*
24360312 TTACAACTCTCCTCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAATCT-AGTAT
1 TTACAACTCTCCCCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAAT-TGAGTAT
*
24360376 TGTGACTTCTTCAATTCCTCAGTTCCCCATGTAACTTATGTAATACGGAATA-GAAAAGATAATG
65 TGTGACTTCTTCAATTCCTCAGTTCCCCAGGTAACTTATGTAATACGGAATATG-AAAGATAATG
*
24360440 ATCTATTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAA
129 ATCTACTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAA
* * * *
24360505 GCCTCTTAGAGTTTCCTCAAAATCTCTAGGTGAATCCCAGATCTTGTTCGAAAATAATAGACAAT
194 GCCTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATCTTCTTCGAAAATAATAGACAAT
*
24360570 GATACTCTATTTAATTTGACAATCTCTAATACATATAA
259 GATACTCTATTTAATCTGACAATCTCTAATACATATAA
24360608 CTCAGCTACT
Statistics
Matches: 276, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
310 1 0.00
311 274 0.99
312 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (311 bp):
TTACAACTCTCCCCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAATTGAGTATT
GTGACTTCTTCAATTCCTCAGTTCCCCAGGTAACTTATGTAATACGGAATATGAAAGATAATGAT
CTACTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGC
CTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATCTTCTTCGAAAATAATAGACAATGA
TACTCTATTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
Found at i:24365435 original size:22 final size:22
Alignment explanation
Indices: 24365405--24365457 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
24365395 TCTAATTTTG
*
24365405 ATCTATTCTGCAACCGTATCTGA
1 ATCTGTTCTGCAACCGTATCT-A
* *
24365428 AT-TGTTCTGCATCTGTATCTA
1 ATCTGTTCTGCAACCGTATCTA
24365449 ATCTGTTCT
1 ATCTGTTCT
24365458 TTAACTTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 21 0.81
23 2 0.08
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (22 bp):
ATCTGTTCTGCAACCGTATCTA
Found at i:24369358 original size:57 final size:57
Alignment explanation
Indices: 24369280--24369400 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
24369270 TATAAACAGC
* * *
24369280 AATTTATTCAATAACACTAACTCA-CTCATTTAAACAGTACTTCATCCGTATAACAAT
1 AATTCATTCAATAACAATAACTCATC-CATTTAAACAGTACTTCATCCATATAACAAT
* * *
24369337 AATTCATTCAATAATAATAACTCATCCGTTTAAACAGTACTTCATCCATATAACAGT
1 AATTCATTCAATAACAATAACTCATCCATTTAAACAGTACTTCATCCATATAACAAT
24369394 AATTCAT
1 AATTCAT
24369401 CCGTATAACA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 56 0.98
58 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (57 bp):
AATTCATTCAATAACAATAACTCATCCATTTAAACAGTACTTCATCCATATAACAAT
Found at i:24369383 original size:20 final size:19
Alignment explanation
Indices: 24369312--24369410 Score: 92
Period size: 19 Copynumber: 5.2 Consensus size: 19
24369302 CACTCATTTA
*
24369312 AACAGTACTTCATCCGTAT
1 AACAGTAATTCATCCGTAT
* * *
24369331 AACAATAATTCATTC-AAT
1 AACAGTAATTCATCCGTAT
* * * *
24369349 AATAATAACTCATCCGTTT
1 AACAGTAATTCATCCGTAT
* *
24369368 AAACAGTACTTCATCCATAT
1 -AACAGTAATTCATCCGTAT
24369388 AACAGTAATTCATCCGTAT
1 AACAGTAATTCATCCGTAT
24369407 AACA
1 AACA
24369411 CATAGTTTTT
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
18 14 0.23
19 34 0.56
20 13 0.21
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (19 bp):
AACAGTAATTCATCCGTAT
Found at i:24369650 original size:24 final size:24
Alignment explanation
Indices: 24369593--24369681 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
24369583 GTTGAAACAG
* *
24369593 TAAGCTCTGACGAGCTGAAAAC-A
1 TAAGCTCTTACGAGCTGAGAACGA
*
24369616 GTAAGCCCTTACGAGCTGAGAACGA
1 -TAAGCTCTTACGAGCTGAGAACGA
* * *
24369641 TAAGCTCTTATGATCTGAGAATGA
1 TAAGCTCTTACGAGCTGAGAACGA
*
24369665 TAAGCTTTTACGAGCTG
1 TAAGCTCTTACGAGCTG
24369682 TGGTGAGTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 53 0.98
25 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAGCTCTTACGAGCTGAGAACGA
Found at i:24377254 original size:17 final size:17
Alignment explanation
Indices: 24377232--24377265 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24377222 CAGGCGCATG
*
24377232 ACACGGCCGTGTGGGCC
1 ACACGGCCGTGTAGGCC
*
24377249 ACACGGGCGTGTAGGCC
1 ACACGGCCGTGTAGGCC
24377266 CACATGGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.32, G:0.41, T:0.12
Consensus pattern (17 bp):
ACACGGCCGTGTAGGCC
Found at i:24387079 original size:27 final size:27
Alignment explanation
Indices: 24387047--24387182 Score: 168
Period size: 27 Copynumber: 5.0 Consensus size: 27
24387037 TAAAACCCCC
*
24387047 GATTTGTAAAATTATCGAAATACCCTC
1 GATTTGTAAAATTATCGAAATACCCTT
* *
24387074 GATTTGTGAAATTACCGAAATACCCTT
1 GATTTGTAAAATTATCGAAATACCCTT
* *
24387101 AACTTGTAAAATTA-CTGAAATACCCTT
1 GATTTGTAAAATTATC-GAAATACCCTT
*
24387128 GCTTTGTAAAATTATCGAAATACCCTT
1 GATTTGTAAAATTATCGAAATACCCTT
* *
24387155 G-TAGTGTAAAATTATCGAAATACTCTT
1 GAT-TTGTAAAATTATCGAAATACCCTT
24387182 G
1 G
24387183 TAGGGTAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 92 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (27 bp):
GATTTGTAAAATTATCGAAATACCCTT
Found at i:24406083 original size:18 final size:19
Alignment explanation
Indices: 24406057--24406103 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
24406047 AATATGGGTG
* *
24406057 ACCAAACGGCCTG-CCCAC
1 ACCACACGGCCTGTCCCAA
*
24406075 ACCACACGGGCGTGTCCCAA
1 ACCACAC-GGCCTGTCCCAA
24406095 ACCACACGG
1 ACCACACGG
24406104 GCGTGTGACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 11 0.46
ACGTcount: A:0.28, C:0.45, G:0.21, T:0.06
Consensus pattern (19 bp):
ACCACACGGCCTGTCCCAA
Found at i:24406098 original size:20 final size:20
Alignment explanation
Indices: 24406070--24406109 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24406060 AAACGGCCTG
*
24406070 CCCACACCACACGGGCGTGT
1 CCCAAACCACACGGGCGTGT
24406090 CCCAAACCACACGGGCGTGT
1 CCCAAACCACACGGGCGTGT
24406110 GACCCCTATT
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:0.23, C:0.42, G:0.25, T:0.10
Consensus pattern (20 bp):
CCCAAACCACACGGGCGTGT
Found at i:24407293 original size:6 final size:6
Alignment explanation
Indices: 24407284--24407322 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
24407274 AAAAACAACT
* * *
24407284 AAAAAG AAAATG AAAATG AAAATG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
24407323 TAAACTCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (6 bp):
AAAAAG
Found at i:24407304 original size:12 final size:12
Alignment explanation
Indices: 24407284--24407322 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
24407274 AAAAACAACT
24407284 AAAAAGAAAATG
1 AAAAAGAAAATG
*
24407296 AAAATGAAAATG
1 AAAAAGAAAATG
*
24407308 AAAAAGAAAAAG
1 AAAAAGAAAATG
24407320 AAA
1 AAA
24407323 TAAACTCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:24407498 original size:10 final size:10
Alignment explanation
Indices: 24407483--24407542 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
24407473 CAGATTCGTA
24407483 AAATAAAAAT
1 AAATAAAAAT
*
24407493 AAATAATACAAA
1 AAATAA-A-AAT
* *
24407505 AAATAATAAC
1 AAATAAAAAT
24407515 AAATAAAAAT
1 AAATAAAAAT
24407525 AAA-ATAAAAT
1 AAATA-AAAAT
*
24407535 AAAGAAAA
1 AAATAAAA
24407543 TGGGTAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 1 0.02
10 30 0.73
11 2 0.05
12 8 0.20
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:24407519 original size:7 final size:6
Alignment explanation
Indices: 24407482--24407537 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
24407472 ACAGATTCGT
*
24407482 AAAATA AAAATA AATAATA CAAAA-A ATAATA ACAAATA AAAAT- AAAAT-
1 AAAATA AAAATA AA-AATA -AAAATA AAAATA A-AAATA AAAATA AAAATA
24407530 AAAATA AA
1 AAAATA AA
24407538 GAAAATGGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
5 13 0.30
6 17 0.40
7 11 0.26
8 2 0.05
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:24407534 original size:16 final size:16
Alignment explanation
Indices: 24407481--24407537 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
24407471 AACAGATTCG
24407481 TAAAATAAAAAT-AAA
1 TAAAATAAAAATAAAA
24407496 TAATACA-AAAAATAATAA
1 TAA-A-ATAAAAATAA-AA
*
24407514 -CAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
24407529 TAAAATAAA
1 TAAAATAAA
24407538 GAAAATGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
15 6 0.18
16 23 0.68
17 3 0.09
18 2 0.06
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:24432345 original size:39 final size:39
Alignment explanation
Indices: 24432302--24432497 Score: 193
Period size: 39 Copynumber: 5.1 Consensus size: 39
24432292 AATAGAAATA
*
24432302 CGGTGATTATTTGGGCTAAGTGCCTAGCAGACTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
* * * *
24432341 CGGTGATTATTCAGACTAAGTGCATAGCA-AGCTTTCTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGA-CTTTGTGC
* * *
24432380 CGGTGATTATTCAGGCTAAGTGTCTAGCAGGA-TCTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCA-GACTTTGTGC
* * *
24432419 TGGTGATTATTTGGGCTAAGTGCCTAGCAGGCTTTGTG-
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
* * * * *
24432457 CGTTGACTATTCGGG-TATTGTGCCTAGCAGCCTGTGTGC
1 CGGTGATTATTCGGGCTA-AGTGCCTAGCAGACTTTGTGC
24432496 CG
1 CG
24432498 ATGTTTTGGA
Statistics
Matches: 128, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
37 2 0.02
38 30 0.23
39 95 0.74
41 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (39 bp):
CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
Found at i:24433603 original size:27 final size:27
Alignment explanation
Indices: 24433573--24433626 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
24433563 ATATATAATT
24433573 ATTA-TAAAATAATTAAATTCTACTTAA
1 ATTATTAAAAT-ATTAAATTCTACTTAA
* *
24433600 ATTATTAAAATGTTAAATTTTACTTAA
1 ATTATTAAAATATTAAATTCTACTTAA
24433627 TTTGATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTATTAAAATATTAAATTCTACTTAA
Found at i:24453649 original size:39 final size:39
Alignment explanation
Indices: 24453606--24453683 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
24453596 ACAAAAACAC
24453606 AATTTAAGTTGTCAGGAATCATCACACTATCGCAGAGTA
1 AATTTAAGTTGTCAGGAATCATCACACTATCGCAGAGTA
24453645 AATTTAAGTTGTCAGGAATCATCACACTATCGCAGAGTA
1 AATTTAAGTTGTCAGGAATCATCACACTATCGCAGAGTA
24453684 TATATGGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (39 bp):
AATTTAAGTTGTCAGGAATCATCACACTATCGCAGAGTA
Found at i:24457567 original size:13 final size:13
Alignment explanation
Indices: 24457549--24457574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24457539 CATGTTTCCA
24457549 AAAACCATTTGTT
1 AAAACCATTTGTT
24457562 AAAACCATTTGTT
1 AAAACCATTTGTT
24457575 TGTATAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:24475596 original size:17 final size:17
Alignment explanation
Indices: 24475574--24475619 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
24475564 GGTTTACCCG
24475574 TGTGGGGCCCACACGCC
1 TGTGGGGCCCACACGCC
24475591 TGTGGGGCCCACACGCC
1 TGTGGGGCCCACACGCC
*
24475608 TATGGGGCCCAC
1 TGTGGGGCCCAC
24475620 TTGGTCGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.13, C:0.39, G:0.35, T:0.13
Consensus pattern (17 bp):
TGTGGGGCCCACACGCC
Found at i:24483926 original size:47 final size:47
Alignment explanation
Indices: 24483872--24483976 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
24483862 TAGTATTAAT
* *
24483872 TATGTGATAAGGCTGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
24483919 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
24483966 AATGTGATAAG
1 TATGTGATAAG
24483977 TCCCGAAGGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:24506575 original size:41 final size:41
Alignment explanation
Indices: 24506486--24506637 Score: 157
Period size: 41 Copynumber: 3.7 Consensus size: 41
24506476 ATGATAAATC
* * * *
24506486 AGCTATATGTGGCACTTAGTGTGC-A-ATTCAACATAGCTTC
1 AGCTATATATGGCACTTAGTGTGCGAGA-TCGAGATAGCTTT
*
24506526 GGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTT
1 AGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTT
* * *
24506567 AGCTATATATGGCACCTAATGTACGAGATCGAGATAGC-TT
1 AGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTT
* *
24506607 CGACTATATATATGGCACTTAGTGTGTGAGA
1 AG-C--TATATATGGCACTTAGTGTGCGAGA
24506638 GAGATTATGC
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
40 25 0.27
41 46 0.49
42 1 0.01
43 21 0.23
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (41 bp):
AGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTT
Found at i:24508211 original size:27 final size:27
Alignment explanation
Indices: 24508181--24508358 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24508171 ATATTGAGTC
* * * *
24508181 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24508208 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24508235 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24508263 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24508290 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24508317 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24508344 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24508359 GTACAATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24508320 original size:82 final size:81
Alignment explanation
Indices: 24508202--24508357 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24508192 TGCTATATAA
* *
24508202 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24508267 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24508284 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24508348 CACTTAGTGC
65 CACTTAGTGC
24508358 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24508370 original size:82 final size:83
Alignment explanation
Indices: 24508181--24508370 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
24508171 ATATTGAGTC
* * * * *
24508181 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
24508245 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
24508263 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
24508324 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
24508344 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
24508371 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:24516300 original size:27 final size:27
Alignment explanation
Indices: 24516270--24516447 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
24516260 ATATTGAGTC
* * *
24516270 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
24516297 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
24516324 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
24516352 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
24516379 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
24516406 CACACACTTAGTGCAACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
24516433 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24516448 GTACAATTCA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:24516412 original size:82 final size:81
Alignment explanation
Indices: 24516291--24516446 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
24516281 TGCTATATAA
* * * *
24516291 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAATCAAA-TCGCA
24516356 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24516373 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCACACACTTAGTGCAACATAATCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCACACACTTAGTGCAACATAATCAAATCGCA
24516437 CACTTAGTGC
65 CACTTAGTGC
24516447 TGTACAATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAATCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24516459 original size:82 final size:83
Alignment explanation
Indices: 24516270--24516459 Score: 203
Period size: 82 Copynumber: 2.3 Consensus size: 83
24516260 ATATTGAGTC
* * * * * *
24516270 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCACACACTTA
* *
24516334 GTGCTACATAGTCAAACT
66 GTGCAACATAATCAAACT
* * **
24516352 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCACACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCACACAC
24516413 TTAGTGCAACATAATCAAA-T
63 TTAGTGCAACATAATCAAACT
24516433 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
24516460 CCCGCGCACT
Statistics
Matches: 88, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 67 0.76
83 1 0.01
84 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCACACACTTA
GTGCAACATAATCAAACT
Found at i:24539219 original size:41 final size:41
Alignment explanation
Indices: 24539130--24539278 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
24539120 TGATGATAAA
* * * *
24539130 TCAGCTATATGTGGCACTTAGTGTGCGA-TTCAACATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
* *
24539170 TCGGCTATATATGGCACTTAGTGTGTGAGATCGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
* * *
24539211 TCAGCTATATATGGCACTTAGTATGCAAGATTGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
*
24539252 TCGGCTATATATATGGCACTTAGTGTG
1 TCAGC--TATATATGGCACTTAGTGTG
24539279 AAATTTGAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 25 0.27
41 49 0.53
43 19 0.20
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
Found at i:24539278 original size:82 final size:80
Alignment explanation
Indices: 24539130--24539279 Score: 205
Period size: 81 Copynumber: 1.8 Consensus size: 80
24539120 TGATGATAAA
* *
24539130 TCAGCTATATGTGGCACTTAGTGTGCGATTCAACATAGCTTCGGCTATATATGGCACTTAGTGTG
1 TCAGCTATATATGGCACTTAGTATGCGATTCAACATAGCTTCGGCTATATATGGCACTTAG-GTG
24539195 TGAGATCGAGATAGCT
65 TGAGATCGAGATAGCT
* *
24539211 TCAGCTATATATGGCACTTAGTATGCAAGATT-GAGATAGCTTCGGCTATATATATGGCACTTA-
1 TCAGCTATATATGGCACTTAGTATGC--GATTCAACATAGCTTCGGC--TATATATGGCACTTAG
24539274 GTGTGA
62 GTGTGA
24539280 AATTTGAGAC
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
81 24 0.39
82 18 0.30
83 4 0.07
84 15 0.25
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (80 bp):
TCAGCTATATATGGCACTTAGTATGCGATTCAACATAGCTTCGGCTATATATGGCACTTAGGTGT
GAGATCGAGATAGCT
Found at i:24541586 original size:25 final size:25
Alignment explanation
Indices: 24541548--24541595 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24541538 TTATAATATG
** *
24541548 AAAATGACTGTTTTACCCTTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
24541573 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
24541596 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:24541800 original size:25 final size:25
Alignment explanation
Indices: 24541728--24541805 Score: 104
Period size: 26 Copynumber: 3.1 Consensus size: 25
24541718 GAGGAAGTGC
* * *
24541728 AAAAGGGC-TATGCCCCAGTTACCG
1 AAAAGGGCTTTTGCCCCAGTTATCA
24541752 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAG-TTATCA
*
24541778 AAAAGGGCTTTTGCCCCAGTTATTA
1 AAAAGGGCTTTTGCCCCAGTTATCA
24541803 AAA
1 AAA
24541806 GAGACTAGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
24 8 0.17
25 17 0.35
26 23 0.48
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTATCA
Found at i:24542060 original size:31 final size:31
Alignment explanation
Indices: 24542022--24542101 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
24542012 TACAGTAAAG
24542022 GCTTCGGCCCAGTGATATGAATAATGAAAAA
1 GCTTCGGCCCAGTGATATGAATAATGAAAAA
* *
24542053 GCTTCGGCCCAGTGATATGAATAATGTAAAG
1 GCTTCGGCCCAGTGATATGAATAATGAAAAA
* *
24542084 GCTTCAGCCAAGT-ATATG
1 GCTTCGGCCCAGTGATATG
24542102 TTAAGACTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 5 0.11
31 40 0.89
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (31 bp):
GCTTCGGCCCAGTGATATGAATAATGAAAAA
Found at i:24543892 original size:24 final size:24
Alignment explanation
Indices: 24543884--24543971 Score: 149
Period size: 24 Copynumber: 3.7 Consensus size: 24
24543874 CATTCCAATA
*
24543884 CGCACACATAGTGCCATACAAATC
1 CGCACACATAGTGCCATACAAATT
24543908 CGCACACATAGTGCCATACAAATT
1 CGCACACATAGTGCCATACAAATT
* *
24543932 CGCACATATAGTGCCATTCAAATT
1 CGCACACATAGTGCCATACAAATT
24543956 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
24543972 AAATCATTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.20
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATT
Found at i:24543917 original size:48 final size:48
Alignment explanation
Indices: 24543836--24543968 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
24543826 CATGTTAACC
* ** * * * * *
24543836 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATA
1 CGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATA
* * *
24543884 CGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAATT
1 CGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATA
* *
24543932 CGCACATATAGTGCCATTCAAATTCGCACACATAGTG
1 CGCACACATAGTGCCATACAAATTCGCACACATAGTG
24543969 CCAAAATCAT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (48 bp):
CGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATA
Found at i:24543950 original size:72 final size:72
Alignment explanation
Indices: 24543835--24543971 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
24543825 CCATGTTAAC
* ** * * *
24543835 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATACGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATACGCACACATAGTGCCA
24543900 TACAAAT
66 TACAAAT
* * * *
24543907 CCGCACACATAGTGCCATACAAATTCGCACATATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATACGCACACATAGTGCCA
24543972 AAATCATTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATACGCACACATAGTGCCA
TACAAAT
Found at i:24545168 original size:17 final size:17
Alignment explanation
Indices: 24545146--24545179 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24545136 CCCCACTTAA
*
24545146 TATATTATAACTTATTT
1 TATATTATAACATATTT
24545163 TATATTATAACATATTT
1 TATATTATAACATATTT
24545180 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:24551480 original size:24 final size:24
Alignment explanation
Indices: 24551448--24551554 Score: 74
Period size: 24 Copynumber: 4.5 Consensus size: 24
24551438 CTTAGTAATT
* * * *
24551448 CACATACATATTGACATTCCAATC
1 CACACACATAGTGACATACAAATC
* *
24551472 CGCACACATAGTGCCATACAAATC
1 CACACACATAGTGACATACAAATC
* * *
24551496 CACACACATAGTGCCATACATATT
1 CACACACATAGTGACATACAAATC
* * * *
24551520 CGCACAC--AGTGCCATTCAAATT
1 CACACACATAGTGACATACAAATC
*
24551542 CGCACACATAGTG
1 CACACACATAGTG
24551555 CCAAAATCAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
22 20 0.29
24 49 0.71
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.22
Consensus pattern (24 bp):
CACACACATAGTGACATACAAATC
Found at i:24551530 original size:22 final size:22
Alignment explanation
Indices: 24551476--24551549 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
24551466 CCAATCCGCA
* * *
24551476 CACATAGTGCCATACAAATCCA
1 CACACAGTGCCATACAAATTCG
*
24551498 CACACATAGTGCCATACATATTCG
1 CACAC--AGTGCCATACAAATTCG
*
24551522 CACACAGTGCCATTCAAATTCG
1 CACACAGTGCCATACAAATTCG
24551544 CACACA
1 CACACA
24551550 TAGTGCCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
22 25 0.57
24 19 0.43
ACGTcount: A:0.36, C:0.32, G:0.11, T:0.20
Consensus pattern (22 bp):
CACACAGTGCCATACAAATTCG
Found at i:24551555 original size:24 final size:24
Alignment explanation
Indices: 24551472--24551557 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 24
24551462 CATTCCAATC
*
24551472 CGCACACATAGTGCCATACAAATC
1 CGCACACATAGTGCCATACAAATT
* *
24551496 CACACACATAGTGCCATACATATT
1 CGCACACATAGTGCCATACAAATT
*
24551520 CGCACAC--AGTGCCATTCAAATT
1 CGCACACATAGTGCCATACAAATT
24551542 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
24551558 AAATCATTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
22 20 0.37
24 34 0.63
ACGTcount: A:0.35, C:0.33, G:0.13, T:0.20
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATT
Found at i:24553824 original size:7 final size:7
Alignment explanation
Indices: 24553759--24553857 Score: 63
Period size: 7 Copynumber: 13.9 Consensus size: 7
24553749 AACTCGAAAT
*
24553759 CATAAAA
1 CATAAAC
24553766 CATAAAC
1 CATAAAC
* *
24553773 CCTTAAC
1 CATAAAC
*
24553780 CATTAACC
1 CA-TAAAC
*
24553788 CCTAAAC
1 CATAAAC
*
24553795 CTTAAAC
1 CATAAAC
** *
24553802 CCCAACC
1 CATAAAC
*
24553809 CTTAAAC
1 CATAAAC
24553816 CATAAAC
1 CATAAAC
*
24553823 CATAATC
1 CATAAAC
*
24553830 CATAATC
1 CATAAAC
24553837 CATAAACC
1 CATAAA-C
*
24553845 CATAATC
1 CATAAAC
24553852 CATAAA
1 CATAAA
24553858 TCTTAAAATA
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
7 60 0.86
8 10 0.14
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
CATAAAC
Found at i:24553864 original size:22 final size:21
Alignment explanation
Indices: 24553815--24553856 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
24553805 AACCCTTAAA
24553815 CCATAAACCATAATCCATAAT
1 CCATAAACCATAATCCATAAT
24553836 CCATAAACCCATAATCCATAA
1 CCATAAA-CCATAATCCATAA
24553857 ATCTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (21 bp):
CCATAAACCATAATCCATAAT
Found at i:24554071 original size:40 final size:40
Alignment explanation
Indices: 24554016--24554095 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
24554006 TTTTTGTAAC
*
24554016 ATTTTTCAGAAAGCGCCGCTAATGCTCGATCTATAATGGT
1 ATTTTTCAGAAAGCGCCACTAATGCTCGATCTATAATGGT
*
24554056 ATTTTTCTA-AAAGCGCCACTAATGCTCGATCTATAGTGGT
1 ATTTTTC-AGAAAGCGCCACTAATGCTCGATCTATAATGGT
24554096 GGTGCTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (40 bp):
ATTTTTCAGAAAGCGCCACTAATGCTCGATCTATAATGGT
Found at i:24554176 original size:40 final size:40
Alignment explanation
Indices: 24554117--24554340 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 40
24554107 TTTTTCAACA
* *
24554117 ATTTTT-AAAAAGCGCCGCTAATGCTCAATCTATAGCGGC
1 ATTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGGC
* * * *
24554156 ATTTTTCAAAAAGTGTCGCTAAAGGTCGAGCTATCA-CGGC
1 ATTTTTCAAAAAGTGCCGCTAATGCTCGATCTAT-AGCGGC
* * * **
24554196 GTTTTT-TAAAAGTGCCACTAATGCTCGATCTATAGCGAT
1 ATTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGGC
* ** * * **
24554235 GTTTTTCAAAAAGCACCGCTAATGCTCGATCTGTAACGAT
1 ATTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGGC
* *
24554275 ATTTTTCTAAAAGTGCCGCTAATGCTCGATCTATAGCGGTG
1 ATTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGG-C
* **
24554316 TTTTTTCTGAAAGTGCCGCTAATGC
1 ATTTTTCAAAAAGTGCCGCTAATGC
24554341 CACTAAAGCT
Statistics
Matches: 149, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 35 0.23
40 89 0.60
41 24 0.16
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (40 bp):
ATTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGGC
Found at i:24554255 original size:79 final size:79
Alignment explanation
Indices: 24554117--24554320 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
24554107 TTTTTCAACA
* * * ** *** *
24554117 ATTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGTGTCGCTAAAGGT
1 ATTTTTTAAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGCACCGCTAAAGCT
* *
24554182 CGAGCTATCACGGC
66 CGAGCTATAACGAC
* * * *
24554196 GTTTTTTAAAAGTGCCACTAATGCTCGATCTATAGCGATGTTTTTCAAAAAGCACCGCTAATGCT
1 ATTTTTTAAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGCACCGCTAAAGCT
* * *
24554261 CGATCTGTAACGAT
66 CGAGCTATAACGAC
24554275 ATTTTTCTAAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTT
1 ATTTTT-TAAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTT
24554321 TCTGAAAGTG
Statistics
Matches: 103, Mismatches: 21, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
79 66 0.64
80 37 0.36
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (79 bp):
ATTTTTTAAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGCACCGCTAAAGCT
CGAGCTATAACGAC
Found at i:24554442 original size:40 final size:40
Alignment explanation
Indices: 24554378--24554643 Score: 195
Period size: 40 Copynumber: 6.7 Consensus size: 40
24554368 ATTTTTTGCG
*
24554378 GCGTTTTTAAAAAATGC--CGCTAATGCTCGATCTATAGCC
1 GCGTTTTTGAAAAA-GCGTCGCTAATGCTCGATCTATAGCC
** * *
24554417 GCGCTTTTTGAAAAA-CGTCTTTAATGCTGGATCTATAGCA
1 GCG-TTTTTGAAAAAGCGTCGCTAATGCTCGATCTATAGCC
* * * * *
24554457 GCATTTTTTG-AAAAGCGTCGCTAAAGGTCGAGCTATAGCG
1 GC-GTTTTTGAAAAAGCGTCGCTAATGCTCGATCTATAGCC
* * *
24554497 GCGTTTTTTAAAAAGCGCCACTAATGCTCGATCTATAG-C
1 GCGTTTTTGAAAAAGCGTCGCTAATGCTCGATCTATAGCC
* * * *
24554536 GACGTTTTTCAAAAAGCGTCGCTAGTGCTCGATCTGTA-AC
1 G-CGTTTTTGAAAAAGCGTCGCTAATGCTCGATCTATAGCC
** ** * *
24554576 GATATTTTTCTAAAAGCG-CTGCTAATGCTCGACCTATAGCG
1 G-CGTTTTTGAAAAAGCGTC-GCTAATGCTCGATCTATAGCC
* **
24554617 GTGTTTTTCTAAAAGCGTCGCTAATGC
1 GCGTTTTTGAAAAAGCGTCGCTAATGC
24554644 CACTAAAGCT
Statistics
Matches: 181, Mismatches: 35, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 164 0.91
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (40 bp):
GCGTTTTTGAAAAAGCGTCGCTAATGCTCGATCTATAGCC
Found at i:24554591 original size:120 final size:120
Alignment explanation
Indices: 24554375--24554643 Score: 291
Period size: 120 Copynumber: 2.2 Consensus size: 120
24554365 TAAATTTTTT
** * **
24554375 GCGGCG-TTTTTAAAAAATGCCGCTAATGCTCGATCTATAGCCGCGCTTTTTGAAAAACGTCTTT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCCGCGCTTTTTCAAAAACGTCGCT
* * * *
24554439 AATGCTGGATCTATAGCAGCATTTTTTGAAAAGCG-TCGCTAAAGGTCGAGCTATA
66 AATGCTCGATCTATAACAGCATTTTTTGAAAAGCGCT-GCTAAAGCTCGACCTATA
*
24554494 GCGGCGTTTTTTAAAAAGCGCCACTAATGCTCGATCTATAG-CGACG-TTTTTCAAAAAGCGTCG
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCCG-CGCTTTTTCAAAAA-CGTCG
* * * *
24554557 CTAGTGCTCGATCTGTAAC-G-ATATTTTTCTAAAAGCGCTGCTAATGCTCGACCTATA
64 CTAATGCTCGATCTATAACAGCAT-TTTTT-GAAAAGCGCTGCTAAAGCTCGACCTATA
* *
24554614 GCGGTGTTTTTCT-AAAAGCGTCGCTAATGC
1 GCGGCGTTTTT-TAAAAAGCGCCGCTAATGC
24554644 CACTAAAGCT
Statistics
Matches: 126, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
118 2 0.02
119 24 0.19
120 98 0.78
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (120 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCCGCGCTTTTTCAAAAACGTCGCT
AATGCTCGATCTATAACAGCATTTTTTGAAAAGCGCTGCTAAAGCTCGACCTATA
Found at i:24554737 original size:22 final size:22
Alignment explanation
Indices: 24554705--24554758 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
24554695 TTTTTTAAAA
*
24554705 AGCGCAGCTAATGCGCGATCTAT
1 AGCGC-GCTAATACGCGATCTAT
*
24554728 AGCGCGCTAATACTCGATCTAT
1 AGCGCGCTAATACGCGATCTAT
24554750 AGCGGCGCT
1 AGC-GCGCT
24554759 TTTTGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (22 bp):
AGCGCGCTAATACGCGATCTAT
Found at i:24561414 original size:31 final size:31
Alignment explanation
Indices: 24561378--24561451 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
24561368 ATTAAAAGCC
24561378 CAATGACTTAAATTAAAACTTT-TAAATAGTT
1 CAATGACTTAAATTAAAA-TTTCTAAATAGTT
* *
24561409 CAATGACTTAAA-TGAAATTTCTGAATAGTT
1 CAATGACTTAAATTAAAATTTCTAAATAGTT
*
24561439 CAGTGA-TTAAATT
1 CAATGACTTAAATT
24561452 GTAATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 8 0.21
30 18 0.47
31 12 0.32
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (31 bp):
CAATGACTTAAATTAAAATTTCTAAATAGTT
Found at i:24561988 original size:21 final size:21
Alignment explanation
Indices: 24561970--24562010 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24561960 AGGGTTAGAG
24561970 CTTTGCTAAAATAATTTAGGT
1 CTTTGCTAAAATAATTTAGGT
* *
24561991 TTTTGTTAAAATAATTTAGG
1 CTTTGCTAAAATAATTTAGG
24562011 ATTAAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (21 bp):
CTTTGCTAAAATAATTTAGGT
Found at i:24562548 original size:20 final size:20
Alignment explanation
Indices: 24562523--24562561 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24562513 AACCTTAACC
*
24562523 CTAAATTCTTTTAACAAAAT
1 CTAAATTATTTTAACAAAAT
*
24562543 CTAAATTATTTTAGCAAAA
1 CTAAATTATTTTAACAAAA
24562562 CCCTAACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (20 bp):
CTAAATTATTTTAACAAAAT
Found at i:24562685 original size:27 final size:27
Alignment explanation
Indices: 24562655--24562712 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
24562645 GTGTGCCACT
24562655 TATCAGATAAGCATC-ACCAGTGCCGCC
1 TATCAGATAAGCA-CAACCAGTGCCGCC
* *
24562682 TATCAGATAGGCACAACTAGTGCCGCC
1 TATCAGATAAGCACAACCAGTGCCGCC
24562709 TATC
1 TATC
24562713 TGACACCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (27 bp):
TATCAGATAAGCACAACCAGTGCCGCC
Found at i:24568099 original size:7 final size:7
Alignment explanation
Indices: 24568089--24568129 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
24568079 ATCCAATATC
24568089 CACATTT
1 CACATTT
24568096 CACATTT
1 CACATTT
24568103 CACATTT
1 CACATTT
24568110 CACATTT
1 CACATTT
24568117 CACATTT
1 CACATTT
24568124 CACATT
1 CACATT
24568130 AATCACAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (7 bp):
CACATTT
Found at i:24569042 original size:19 final size:20
Alignment explanation
Indices: 24569006--24569043 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24568996 AATATAATTT
*
24569006 ATTATTTTATACATATGTAC
1 ATTATTTTATACACATGTAC
24569026 ATTATTTT-TACACATGTA
1 ATTATTTTATACACATGTA
24569044 AACAACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTATTTTATACACATGTAC
Found at i:24575697 original size:20 final size:20
Alignment explanation
Indices: 24575672--24575721 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
24575662 CTCTAGTTTT
24575672 GGCAAAGGTAGGATCTCAAG
1 GGCAAAGGTAGGATCTCAAG
24575692 GGCAAAGGTAGGATCTCAAG
1 GGCAAAGGTAGGATCTCAAG
* *
24575712 TGCATAGGTA
1 GGCAAAGGTA
24575722 TTGATGGCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.18
Consensus pattern (20 bp):
GGCAAAGGTAGGATCTCAAG
Found at i:24576185 original size:27 final size:26
Alignment explanation
Indices: 24576155--24576215 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
24576145 AATTTACTAA
24576155 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACC-TT
* *
24576182 ATA-CCCTTAGGTGCAAAATTACCTT
1 ATACCCCTAAGATGCAAAATTACCTT
24576207 ATACCCCTA
1 ATACCCCTA
24576216 TGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 7 0.24
26 19 0.66
27 3 0.10
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (26 bp):
ATACCCCTAAGATGCAAAATTACCTT
Found at i:24576357 original size:27 final size:27
Alignment explanation
Indices: 24576319--24576424 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
24576309 GAGGAAGTGT
*
24576319 TCTGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* * * *
24576346 TCTGGTGGCTTTACCACAAATATTTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
24576374 TCTAGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
24576401 TCTGGTGACTCTGTCACAATATCT
1 TCTGGTGGCTCTGCCACAATATCT
24576425 ATTATGGCAG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
27 53 0.79
28 14 0.21
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:24581605 original size:31 final size:32
Alignment explanation
Indices: 24581570--24581652 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
24581560 CTTCCTACAT
*
24581570 TAAAATCCAACCAAAAACAACAAATATAG-TA
1 TAAAATACAACCAAAAACAACAAATATAGATA
* * * *
24581601 TAAAATGCAGCCAAAAACAGCAAATTTAGCATA
1 TAAAATACAACCAAAAACAACAAATATAG-ATA
*
24581634 AAAAATACAACCAAAAACA
1 TAAAATACAACCAAAAACA
24581653 TTAATTCTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 25 0.58
33 18 0.42
ACGTcount: A:0.60, C:0.19, G:0.06, T:0.14
Consensus pattern (32 bp):
TAAAATACAACCAAAAACAACAAATATAGATA
Found at i:24587512 original size:9 final size:9
Alignment explanation
Indices: 24587498--24587625 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
24587488 ATGTATTAGT
24587498 TAAGTTATG
1 TAAGTTATG
24587507 TAAGTTGTTATG
1 TAA---GTTATG
*
24587519 TACGTTATG
1 TAAGTTATG
*
24587528 TGAGTTATG
1 TAAGTTATG
*
24587537 TAAATTATG
1 TAAGTTATG
24587546 TAAGTTATG
1 TAAGTTATG
*
24587555 TGAGTTATG
1 TAAGTTATG
24587564 TAAGTTGTTATG
1 TAA---GTTATG
*
24587576 TAAATTATG
1 TAAGTTATG
*
24587585 TAAGTTATA
1 TAAGTTATG
*
24587594 TGAGTTATG
1 TAAGTTATG
24587603 TAAGTTATG
1 TAAGTTATG
* *
24587612 TAATTTATT
1 TAAGTTATG
24587621 TAAGT
1 TAAGT
24587626 AATGATCGAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:24587625 original size:57 final size:57
Alignment explanation
Indices: 24587498--24587625 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
24587488 ATGTATTAGT
** * *
24587498 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
24587555 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
24587612 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
24587626 AATGATCGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:24588153 original size:241 final size:241
Alignment explanation
Indices: 24587730--24588374 Score: 1236
Period size: 241 Copynumber: 2.7 Consensus size: 241
24587720 AAAAAATAGT
24587730 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
24587795 TCAATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
24587860 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
24587925 ATTCAATAGTAAATGAGCTCGATAGAACCTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACCTTTTTCAAGTCTTTTTG
24587971 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
24588036 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATGTACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
24588101 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
*
24588166 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACCTTTTTCAAGTCTTTTTG
24588212 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
* *
24588277 TCGATATAAGGCAACCCGTCTGGTTTCCAGCCTCTATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
24588342 AGGTTGGAGAGAAGGTCAGCTATTGTTTTAATT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATT
24588375 GCTTATAACT
Statistics
Matches: 397, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 397 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACCTTTTTCAAGTCTTTTTG
Found at i:24590807 original size:41 final size:39
Alignment explanation
Indices: 24590703--24590808 Score: 95
Period size: 41 Copynumber: 2.6 Consensus size: 39
24590693 ACTTTTAGTA
** *
24590703 GCGTTTTTAAAAAGGCGCCGCTAAAAATAGAGAACTAGTG
1 GCGTTTTTAAAAA-AAGCCGCTAAAAATAGAGAACTAGCG
* *
24590743 GCGTTTTTAAAAAAAGCAACGCTAAAAATAGGGAATTAGCG
1 GCGTTTTTAAAAAAAGC--CGCTAAAAATAGAGAACTAGCG
* * *
24590784 ACGCTTTTTTTAAAAATGCCGCTAA
1 --GCGTTTTTAAAAAAAGCCGCTAA
24590809 TTCCCTTGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.04
40 13 0.24
41 25 0.46
43 14 0.26
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (39 bp):
GCGTTTTTAAAAAAAGCCGCTAAAAATAGAGAACTAGCG
Found at i:24592227 original size:41 final size:41
Alignment explanation
Indices: 24592131--24592482 Score: 243
Period size: 41 Copynumber: 8.7 Consensus size: 41
24592121 CATTTGGTCC
* * *
24592131 TAAAAACGCCGCTATTGAT-TAGTTTTAGTGGAGTTTTA-A
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * *
24592170 CAAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTACA
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * *
24592211 TAAAAACGCCACTATTT-TCCTAGTTTTTACTGGCG-TTTGGA
1 TAAAAACGCCGCTATTTAT-CTA-TTTTTAGTGGCGTTTTAGA
* * * * *
24592252 CAAAAACGCCACTATTTCTCTGCTTTTTAGTGGCGTTTTGGA
1 TAAAAACGCCGCTATTTATCT-ATTTTTAGTGGCGTTTTAGA
* * * * * * **
24592294 TGAAAACGCCGCTATTGAT-AACTTTTAGGGGCATTTGGGA
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * ** *
24592334 CAAAAACGCAGCTATTTCCCCAGTTTTTAGTGGCG-TTTACG-
1 TAAAAACGCCGCTATTTATCTA-TTTTTAGTGGCGTTTTA-GA
* * * **
24592375 TGAAAACGACGCTATTGATCCGTTTTTAGTGGCGTTTTAGA
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * * * *
24592416 TAAAACCGCCTCTATTGATATGTTTTTAGTGGCGTTTTAGA
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * *
24592457 CAAAAACGCTGCTATTTCTC-ATTTTT
1 TAAAAACGCCGCTATTTATCTATTTTT
24592483 TTGCGGCGTT
Statistics
Matches: 243, Mismatches: 58, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
39 16 0.07
40 64 0.26
41 121 0.50
42 42 0.17
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (41 bp):
TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
Found at i:24596757 original size:24 final size:25
Alignment explanation
Indices: 24596692--24596761 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
24596682 AGCTCCTTCT
*
24596692 GAGCTGATGAATAGTAAGCT-TTATC
1 GAGCTGA-GAATAGTAAGCTCTGATC
* *
24596717 GAGCTG-GAAACAATAAGCTCTGA-C
1 GAGCTGAG-AATAGTAAGCTCTGATC
24596741 GAGCTGAGAATAGTAAGCTCT
1 GAGCTGAGAATAGTAAGCTCT
24596762 TATGAGTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 1 0.03
24 27 0.73
25 9 0.24
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (25 bp):
GAGCTGAGAATAGTAAGCTCTGATC
Found at i:24598377 original size:19 final size:20
Alignment explanation
Indices: 24598353--24598390 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
24598343 GGTACCACCA
24598353 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
24598372 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
24598391 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:24598686 original size:46 final size:45
Alignment explanation
Indices: 24598619--24598787 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
24598609 CGCCCCTAAG
* *
24598619 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAA
* **
24598665 TGAACTCGGACTCAACTCAACGAGTTC-GA-A-TGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTG-C-A--TCCAT-AAA
* *
24598712 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACA-TTGCATCCATAAA
24598758 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
24598788 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 2 0.02
45 1 0.01
46 59 0.57
47 31 0.30
48 2 0.02
49 2 0.02
50 1 0.01
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAA
Found at i:24598730 original size:93 final size:93
Alignment explanation
Indices: 24598620--24598790 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
24598610 GCCCCTAAGT
*
24598620 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24598685 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * *
24598713 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
24598778 CGAGTTCGGATGC
66 CGAGTTCGAATGC
24598791 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:24609020 original size:137 final size:137
Alignment explanation
Indices: 24608773--24609452 Score: 984
Period size: 137 Copynumber: 5.0 Consensus size: 137
24608763 ATTAGGTTTT
* * ** * * *
24608773 TGTAATTTATAGC-TCTAATCTATTCCACTAAAATTTTAGGGAAATAAGATTTGCTATCTTTAAC
1 TGTAACTTATAGCTTC-AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGC
* *
24608837 CTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTGCAGAGAG
65 CTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAAAG
24608902 ATAAGATC
130 ATAAGATC
* * *
24608910 TGTAACTTATAGCTTCAATCTGTTCTACTGCAACTTCAGGGAAATAATATTTGCTATCTTTAACC
1 TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * * * * *
24608975 TACTCCGCTGCAACATCAGGGAGATAAGACTTGTTTTGATTTGCTCTAATGCAAATTCAGAGAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAAAGA
24609040 TAAGATC
131 TAAGATC
* * **
24609047 TATAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAAAAAGATTTGCTATCTTCGGCC
1 TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
*
24609112 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGATAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAAAGA
24609177 TAAGATC
131 TAAGATC
* * * * *
24609184 TGTAATTTATAGCTTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTCTGGCC
1 TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * *
24609249 TGTTCCGCTGTAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTTTACTGCAACTTCAGAAAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAAAGA
24609314 TAAGATC
131 TAAGATC
* * * * *
24609321 TGTAATTTATAGCTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTTACTATCTCTAGCC
1 TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * * *
24609386 TGCTCCACTGCAGCTTCAGGGAGATAAGACTTGTTTTGATCCGCTCTACTACAACTTCAGAAAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAAAGA
24609451 TA
131 TA
24609453 GAATCATTTG
Statistics
Matches: 491, Mismatches: 51, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
137 489 1.00
138 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (137 bp):
TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAAAGA
TAAGATC
Found at i:24628301 original size:31 final size:31
Alignment explanation
Indices: 24628258--24628336 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
24628248 TTTAACGGTT
24628258 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
24628289 ACTGGGCTGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
24628320 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
24628337 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:24628407 original size:42 final size:42
Alignment explanation
Indices: 24628360--24628451 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
24628350 TGGCCCATAG
* ** *
24628360 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
24628402 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
24628444 GCCCATTT
1 GCCCATTT
24628452 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:24628625 original size:25 final size:26
Alignment explanation
Indices: 24628597--24628692 Score: 144
Period size: 25 Copynumber: 3.8 Consensus size: 26
24628587 CTCTTTTAAT
24628597 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
24628622 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
24628647 AACT-GGGCATACGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
24628672 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
24628693 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
24 5 0.08
25 45 0.69
26 15 0.23
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:24628688 original size:26 final size:25
Alignment explanation
Indices: 24628584--24628692 Score: 125
Period size: 25 Copynumber: 4.4 Consensus size: 25
24628574 CTGGAGGCCT
24628584 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
**
24628608 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
**
24628633 AGCCCTTTTCGGTAAACT-GGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
*
24628658 CGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
24628684 AGCCCTTTT
1 AGCCCTTTT
24628693 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.07
24 10 0.13
25 45 0.60
26 15 0.20
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:24629481 original size:27 final size:27
Alignment explanation
Indices: 24629446--24629525 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
24629436 GGGCATATTC
* *
24629446 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
24629473 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
24629500 GTCACTTTACCCTACAGGGGCTTTAC
1 GTCACTTTACCCTACAGGGGCTTTAC
24629526 AGTATTTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Done.