Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 143 of 425
Found at i:43435215 original size:13 final size:14
Alignment explanation
Indices: 43435199--43435227 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
43435189 GGGAGCCATC
43435199 AGCAAAGG-AGCAA
1 AGCAAAGGAAGCAA
43435212 AGCAAAGGAAGCAA
1 AGCAAAGGAAGCAA
43435226 AG
1 AG
43435228 AAGCATTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.14, G:0.31, T:0.00
Consensus pattern (14 bp):
AGCAAAGGAAGCAA
Found at i:43437232 original size:40 final size:40
Alignment explanation
Indices: 43437176--43437343 Score: 170
Period size: 40 Copynumber: 4.2 Consensus size: 40
43437166 CAATTGAATG
*
43437176 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGACTT
43437217 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG--TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AG-TGACTT
* * * *
43437256 AAATCCGGGCTAATACCCGAAGGCATTTGTGCA-AGACGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGAC-TT
*
43437296 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCATGTG-GTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCA-GTGACTT
43437336 ATATCCGG
1 ATATCCGG
43437344 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
37 1 0.01
39 8 0.08
40 92 0.87
41 4 0.04
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGACTT
Found at i:43437311 original size:80 final size:80
Alignment explanation
Indices: 43437178--43437343 Score: 237
Period size: 80 Copynumber: 2.1 Consensus size: 80
43437168 ATTGAATGAT
* *
43437178 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCGAAGGCATT
*
43437243 CGTGCAAGTTGTTAA
66 CGTGCAAGTGGTTAA
* *
43437258 ATCCGGGCTAATACCCGAAGGCATTTGTGC-A-AGACGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGAC-TT-TATCCGGGCTAAGACCCGAAGGCA
* *
43437321 TTCGTGCATGTGGTTAT
64 TTCGTGCAAGTGGTTAA
43437338 ATCCGG
1 ATCCGG
43437344 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
78 3 0.04
79 3 0.04
80 71 0.92
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAA
Found at i:43443346 original size:40 final size:39
Alignment explanation
Indices: 43443290--43443456 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 39
43443280 CAATTGAATG
*
43443290 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGA-TT
43443331 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AG-TGATT
* * * *
43443370 AAATCCGGGCTAATACCCGAAGGCATTTGTGCA-AGAGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGA-TT
*
43443409 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCA-GTGATT
43443449 ATATCCGG
1 ATATCCGG
43443457 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
37 1 0.01
38 2 0.02
39 35 0.33
40 63 0.59
41 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGATT
Found at i:43443433 original size:79 final size:80
Alignment explanation
Indices: 43443292--43443456 Score: 235
Period size: 79 Copynumber: 2.1 Consensus size: 80
43443282 ATTGAATGAT
* *
43443292 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCGAAGGCATT
*
43443357 CGTGCAAGTTGTTAA
66 CGTGCAAGTGGTTAA
* * *
43443372 ATCCGGGCTAATACCCGAAGGCATTTGTGC-A-AGAGTTATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTT-TATCCGGGCTAAGACCCGAAGGCAT
* *
43443435 TCGTGCATGTGGTTAT
65 TCGTGCAAGTGGTTAA
43443451 ATCCGG
1 ATCCGG
43443457 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
78 4 0.05
79 45 0.59
80 27 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAA
Found at i:43451150 original size:38 final size:39
Alignment explanation
Indices: 43451049--43451210 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
43451039 TGTGAATGAA
*
43451049 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
43451088 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
43451127 TGTG-GAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
43451165 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
43451205 TGTGCG
1 TGTGCG
43451211 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 62 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43451226 original size:40 final size:40
Alignment explanation
Indices: 43451066--43451240 Score: 169
Period size: 39 Copynumber: 4.5 Consensus size: 40
43451056 ATTGTGATAT
* *** *
43451066 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* ** *
43451105 CCGGGCTAAG-CCCGAAGGCAATTGTG-GAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
43451143 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
43451182 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
43451222 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43451241 TGTTTTGAAC
Statistics
Matches: 120, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 35 0.29
39 45 0.38
40 40 0.33
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:43453943 original size:16 final size:16
Alignment explanation
Indices: 43453924--43453954 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43453914 CTTCTTCACT
43453924 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
43453940 TACTTACTTACTTAA
1 TACTCACTTACTTAA
43453955 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:43453960 original size:20 final size:20
Alignment explanation
Indices: 43453921--43453960 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43453911 AAACTTCTTC
* *
43453921 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
43453941 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
43453961 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:43454273 original size:53 final size:53
Alignment explanation
Indices: 43454185--43454388 Score: 205
Period size: 55 Copynumber: 3.8 Consensus size: 53
43454175 TACGTGGTAT
* * *
43454185 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTG
* * *
43454239 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTG
* * * * * * *
43454292 CCTTATAGTAACTTATCAATGCCATGTCTTCACATGGTCTTACATGATTTCCTCG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTG
* *
43454347 CCTTA-GAAACCTTACCAATTTCCATGCCTTGGCATGGTCTTA
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTA
43454389 GACGGTATCC
Statistics
Matches: 123, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 47 0.38
54 14 0.11
55 58 0.47
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTG
Found at i:43454336 original size:55 final size:53
Alignment explanation
Indices: 43454193--43454337 Score: 193
Period size: 53 Copynumber: 2.7 Consensus size: 53
43454183 ATCCTTTTGA
* *
43454193 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
* * *
43454246 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCC-TTGCCTTAT-G
* *
43454300 TAACTTATCAATGCCATGTCTTCACATGGTCTTACATG
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATG
43454338 ATTTCCTCGC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.03
53 44 0.56
54 1 0.01
55 32 0.41
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
Found at i:43461776 original size:50 final size:50
Alignment explanation
Indices: 43461660--43462041 Score: 365
Period size: 51 Copynumber: 7.5 Consensus size: 50
43461650 TGAGAACACA
* * *** *
43461660 TGTGTAGTACTATGTGGAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGTCACG
* * * * *
43461712 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
** * * *
43461762 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTT-GGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTTAGG-TCACG
* * * *
43461813 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTT-GGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTTAGG-TCACG
* * *
43461864 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAGCTT-GGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTAGG-TCACG
* * *
43461915 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
* ** * * * * *
43461965 TGTGTAGTACTAAGTGCAAGCTACTACATGTAGCAGATTGCTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
43462015 TGTGTAGTACTAAGTGCAGGCTACTAT
1 TGTGTAGTACTAAGTGCAGGCTACTAT
43462042 TCTTACCGGA
Statistics
Matches: 287, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
50 118 0.41
51 138 0.48
52 31 0.11
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
Found at i:43461873 original size:102 final size:101
Alignment explanation
Indices: 43461707--43461990 Score: 417
Period size: 102 Copynumber: 2.8 Consensus size: 101
43461697 CAGTTTTAGG
* * * *
43461707 TCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
43461772 TAAGTGCAGGCTACTATGCATACCCGACAACTTGGA
66 TAAGTGCAGGCTACTATGCATACCCGACAACTTGGA
* * * * *
43461808 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTT-GGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGG-TCACGTGTGTAGT
* *
43461872 ACTAAGTGCAGGCTACTATGCGTACCCGACAGCTTGGA
64 ACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGA
* *
43461910 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
*
43461975 TAAGTGCAAGCTACTA
66 TAAGTGCAGGCTACTA
43461991 CATGTAGCAG
Statistics
Matches: 161, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
101 72 0.45
102 89 0.55
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGACAACTTGGA
Found at i:43462350 original size:128 final size:128
Alignment explanation
Indices: 43462122--43462378 Score: 514
Period size: 128 Copynumber: 2.0 Consensus size: 128
43462112 TGAATTCAAC
43462122 AGGAAATTTACTAAGTGAAAATACATATGAACATGACTATGTAATGAATAAGTGAAGGTTCGTGT
1 AGGAAATTTACTAAGTGAAAATACATATGAACATGACTATGTAATGAATAAGTGAAGGTTCGTGT
43462187 GTGTAAACTTATAAGCAACGTGCTTGATATGTGATCGAACTTTGGTAAGATTGATAGGGAGTA
66 GTGTAAACTTATAAGCAACGTGCTTGATATGTGATCGAACTTTGGTAAGATTGATAGGGAGTA
43462250 AGGAAATTTACTAAGTGAAAATACATATGAACATGACTATGTAATGAATAAGTGAAGGTTCGTGT
1 AGGAAATTTACTAAGTGAAAATACATATGAACATGACTATGTAATGAATAAGTGAAGGTTCGTGT
43462315 GTGTAAACTTATAAGCAACGTGCTTGATATGTGATCGAACTTTGGTAAGATTGATAGGGAGTA
66 GTGTAAACTTATAAGCAACGTGCTTGATATGTGATCGAACTTTGGTAAGATTGATAGGGAGTA
43462378 A
1 A
43462379 ATGTTATAAT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (128 bp):
AGGAAATTTACTAAGTGAAAATACATATGAACATGACTATGTAATGAATAAGTGAAGGTTCGTGT
GTGTAAACTTATAAGCAACGTGCTTGATATGTGATCGAACTTTGGTAAGATTGATAGGGAGTA
Found at i:43465239 original size:28 final size:29
Alignment explanation
Indices: 43465172--43465272 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
43465162 ATAGTGAATC
*
43465172 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
43465201 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
43465229 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
43465259 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43465273 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:43473045 original size:28 final size:29
Alignment explanation
Indices: 43472978--43473078 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
43472968 ATAGTGAATC
*
43472978 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
43473007 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
43473035 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
43473065 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43473079 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:43474868 original size:20 final size:18
Alignment explanation
Indices: 43474843--43474886 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
43474833 CGGGCTAAGG
43474843 ACACGGCCGTGTCCAGAGCC
1 ACACGGCCGTG-CCAGA-CC
* *
43474863 ACACGGGCGTGCGAGACC
1 ACACGGCCGTGCCAGACC
43474881 ACACGG
1 ACACGG
43474887 GCATGTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 4 0.18
20 10 0.45
ACGTcount: A:0.23, C:0.36, G:0.34, T:0.07
Consensus pattern (18 bp):
ACACGGCCGTGCCAGACC
Found at i:43478324 original size:38 final size:39
Alignment explanation
Indices: 43478220--43478372 Score: 200
Period size: 40 Copynumber: 3.9 Consensus size: 39
43478210 TGTTCAAACA
* * * * * *
43478220 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
43478260 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
43478300 CCTT-GGGCTTAGCCCGGATATCACAACTTGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
43478338 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
43478373 TTCATACACA
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
38 33 0.33
39 31 0.31
40 37 0.37
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:43478358 original size:39 final size:39
Alignment explanation
Indices: 43478251--43478372 Score: 185
Period size: 38 Copynumber: 3.1 Consensus size: 39
43478241 ATGATAACCC
* * *
43478251 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTC
1 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTT
43478291 GCACAATTGCCTT-GGGCTTAGCCCGGATATCACAACTT
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTT
43478329 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA-TT
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTT
43478367 CGCACA
1 -GCACA
43478373 TTCATACACA
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
38 35 0.45
39 30 0.39
40 12 0.16
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTT
Found at i:43480461 original size:75 final size:75
Alignment explanation
Indices: 43480338--43480490 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 75
43480328 TGGTTTAGTC
* *
43480338 AATAAGTGCAGTTAATTCTTCAAATTCGTCCCTATTCTTCTATTTGACAGTTTTGACCTTTCTTC
1 AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
43480403 ACTAAATATT
66 ACTAAATATT
43480413 AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
1 AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
43480478 ACTAAATATT
66 ACTAAATATT
43480488 AAT
1 AAT
43480491 TATCTCTTAG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (75 bp):
AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
ACTAAATATT
Found at i:43482216 original size:42 final size:41
Alignment explanation
Indices: 43482115--43482221 Score: 99
Period size: 42 Copynumber: 2.5 Consensus size: 41
43482105 CGTATCAATG
* * *
43482115 CCATATCCCGAATATGGTCTTACATGAAATATCATATCGACG
1 CCATATCCCG-ATATGGTCTTATATGAAATATCATACCGACA
* * *
43482157 CCATGTCCCTGACATGGTCTTATATGAAATCA-CATACCGATA
1 CCATATCCC-GATATGGTCTTATATGAAAT-ATCATACCGACA
* *
43482199 CCGTATCCCAGATATGGTTTTAT
1 CCATATCCC-GATATGGTCTTAT
43482222 TCAGAATCTC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 50 0.96
43 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (41 bp):
CCATATCCCGATATGGTCTTATATGAAATATCATACCGACA
Found at i:43485116 original size:95 final size:96
Alignment explanation
Indices: 43484932--43485136 Score: 256
Period size: 95 Copynumber: 2.1 Consensus size: 96
43484922 TGCCAAGTCC
* * * ** * *
43484932 CAAACATGGTCTTACACTAGCTCTCGTCCCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
1 CAAACATGGTCTTACACTAGCGCACCTAACAATGCAGATGCCATGTACCAGACATGGTCTTACAC
43484997 TGGCTCTCATAATGTGATCCTTGCCATGTCTT
66 TGGCTCTCATAATGTGATCCTTGCCATGT-TT
* *
43485029 -AGACATGGTCTTACACTAGCGCACCTAACAATGCAG-TGCCATGTACCGGACATGGTCTTACAC
1 CAAACATGGTCTTACACTAGCGCACCTAACAATGCAGATGCCATGTACCAGACATGGTCTTACAC
**
43485092 TGGCTCTCATAACAT-TG-TTGTTGCCATGTTT
66 TGGCTCTCAT-A-ATGTGATCCTTGCCATGTTT
43485123 CAAACATGGTCTTA
1 CAAACATGGTCTTA
43485137 TACTGGCTCT
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
94 2 0.02
95 57 0.61
96 32 0.34
97 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (96 bp):
CAAACATGGTCTTACACTAGCGCACCTAACAATGCAGATGCCATGTACCAGACATGGTCTTACAC
TGGCTCTCATAATGTGATCCTTGCCATGTTT
Found at i:43485200 original size:48 final size:48
Alignment explanation
Indices: 43484871--43485188 Score: 236
Period size: 48 Copynumber: 6.6 Consensus size: 48
43484861 GGTAAATTGT
* * * *
43484871 CGATGCCATGTCCCAAACATGGTCCTACACTGGCTCACATGTCGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * * * **
43484919 TGATGCCAAGTCCCAAACATGGTCTTACACTAGCTCTCGTCCCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGC
43484967 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA--ATGTGATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATG-G--C
* ** * * * * *
43485016 C-TTGCCATGTCTTAGACATGGTCTTACACTAGCGCACCTAACAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * * * *
43485063 AG-TGCCATGTACCGGACATGGTCTTACACTGGCTCTCATAACATTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
* * ** * * *
43485110 TGTTGCCATGTTTCAAACATGGTCTTATACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
*
43485158 CGACGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
43485189 AGCACACATA
Statistics
Matches: 210, Mismatches: 49, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
45 2 0.01
46 2 0.01
47 36 0.17
48 165 0.79
49 3 0.01
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
Found at i:43491804 original size:144 final size:144
Alignment explanation
Indices: 43491544--43491815 Score: 366
Period size: 144 Copynumber: 1.9 Consensus size: 144
43491534 GTAAACTACT
** * **
43491544 GATGCCATATCTCAGACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGGC
1 GATGCCATATCTCAGACATGGTCTTACACTGGCTCACATAACGAGGATGATGCCATGTCCCAAAC
** * *
43491609 ATGGTCTTACACTGGCTCTCATAATGTGGCCCTTGCTATGTCCTAGACATGGTCTTACACTAGTG
66 ATGGTCTTACACTGGCTCTCATAATGTGGCCCACGCCATGTCCCAGACATGGTCTTACACTAGTG
43491674 CACCTAACAACGCC
131 CACCTAACAACGCC
* * * ** *
43491688 GATGCCATGTCTCGGACATGGTCTTACACTGGCTCTCATAAC-ATTATCGATGCCATGTTCCAAA
1 GATGCCATATCTCAGACATGGTCTTACACTGGCTCACATAACGAGGAT-GATGCCATGTCCCAAA
* * *
43491752 CATGGTCTTATACTGGCTCTCATATTGTGGCCGACGCCATGTCCCAGACATGGTCTTACACTAG
65 CATGGTCTTACACTGGCTCTCATAATGTGGCCCACGCCATGTCCCAGACATGGTCTTACACTAG
43491816 CACACATATC
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
143 2 0.02
144 107 0.98
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (144 bp):
GATGCCATATCTCAGACATGGTCTTACACTGGCTCACATAACGAGGATGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCATAATGTGGCCCACGCCATGTCCCAGACATGGTCTTACACTAGTG
CACCTAACAACGCC
Found at i:43491824 original size:48 final size:48
Alignment explanation
Indices: 43491544--43491823 Score: 238
Period size: 48 Copynumber: 5.8 Consensus size: 48
43491534 GTAAACTACT
* * ** * *
43491544 GATGCCATATCTCAGACATGGTCTTACACTGGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGTGGCC
* * *
43491592 GATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGTGGCC
** * * * * ***
43491640 CTTGCTATGTCCTAGACATGGTCTTACACTAG-TGCACCTAACAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATAACGTGGCC
* * * * ***
43491688 GATGCCATGTCTCGGACATGGTCTTACACTGGCTCTCATAACATTATC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGTGGCC
* * * * **
43491736 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCTCATATTGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGTGGCC
* * *
43491784 GACGCCATGTCCCAGACATGGTCTTACACTAGCACACATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
43491824 TCACCCAAAT
Statistics
Matches: 178, Mismatches: 52, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
47 1 0.01
48 176 0.99
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGTGGCC
Found at i:43494420 original size:48 final size:48
Alignment explanation
Indices: 43494347--43494527 Score: 254
Period size: 48 Copynumber: 3.8 Consensus size: 48
43494337 TCACATATCG
* **
43494347 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * *
43494395 ACGCCATGTCCCATACATGGTCTTACATGGGATCATATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
43494443 ATGCCATGTCCCAGACATGATCTTACATGGGATCACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * *
43494491 ATGTCATGTCCCAAACATTGTCTTACAAGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
43494528 ATGCCATAGC
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:43494551 original size:37 final size:37
Alignment explanation
Indices: 43494510--43494591 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
43494500 CCCAAACATT
*
43494510 GTCTTACAAGGGATCACAATGCCATAGCCCAGCTATG
1 GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
* * * *
43494547 GTCTTACATGTCATTACGATGCCATAGCCCAGCTATG
1 GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
*
43494584 GTGTTACA
1 GTCTTACA
43494592 CGTACTCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (37 bp):
GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
Found at i:43497571 original size:30 final size:30
Alignment explanation
Indices: 43497537--43497597 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
43497527 GTATGTGCAC
*
43497537 TATCAATCACAATGGGTTATAAACAATTAT
1 TATCAATCACAATGGGTAATAAACAATTAT
*
43497567 TATCAATCATAATGGGTAATAAACAATTAT
1 TATCAATCACAATGGGTAATAAACAATTAT
43497597 T
1 T
43497598 TCCACAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (30 bp):
TATCAATCACAATGGGTAATAAACAATTAT
Found at i:43504387 original size:39 final size:39
Alignment explanation
Indices: 43504333--43504495 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
43504323 TGTGTATAAA
*
43504333 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
43504372 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
43504411 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAACGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
43504450 TGCGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
43504490 TGTGCG
1 TGTGCG
43504496 GGTTACCATA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 95 0.86
40 15 0.14
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43512274 original size:39 final size:39
Alignment explanation
Indices: 43512220--43512382 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
43512210 TGTGTATGAA
*
43512220 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
43512259 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
43512298 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
43512337 TGCGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
43512377 TGTGCG
1 TGTGCG
43512383 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 96 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43512398 original size:40 final size:39
Alignment explanation
Indices: 43512220--43512413 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
43512210 TGTGTATGAA
* *
43512220 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
43512259 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
43512298 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
43512337 TGCGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
43512377 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
43512414 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 96 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:43515819 original size:49 final size:50
Alignment explanation
Indices: 43515748--43515993 Score: 275
Period size: 49 Copynumber: 5.0 Consensus size: 50
43515738 TGATCTATTG
* * * *
43515748 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCGGATTA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA
* *
43515798 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA
* * * * * * * * **
43515847 CTTCGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGG
1 -TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA
**
43515898 TTAGGTCG--TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA
* *
43515946 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
43515994 GCTTTCGCTA
Statistics
Matches: 163, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
47 5 0.03
48 36 0.22
49 76 0.47
50 9 0.06
51 37 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA
Found at i:43523005 original size:49 final size:50
Alignment explanation
Indices: 43522776--43523010 Score: 185
Period size: 49 Copynumber: 4.8 Consensus size: 50
43522766 CAAGGTCATG
* ** * *
43522776 TGTGTAGTACTAAGTGCAGGCCACTACGTGTACGGGATTATT-GGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTAGGTCGCA
* * * * ** * * * *
43522825 TGTGTAGTACTAAGTGTAGGCAACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAA-TTAGGTCGCA
* **
43522876 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTA-TCAGATGGTTAGGTCG--
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATTAGGTCGCA
* * *
43522924 TGTGTAGTAATAA-TGCAGGCTACTACATGTACTGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTAGGTCGCA
* ** *
43522972 TGTGTAGTACTAAGTGCAAGCTACTGTGCGTACTAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATA
43523011 GCTTTGGCTA
Statistics
Matches: 144, Mismatches: 35, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
46 5 0.03
47 21 0.15
48 25 0.17
49 52 0.36
50 7 0.05
51 34 0.24
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTAGGTCGCA
Found at i:43525475 original size:29 final size:28
Alignment explanation
Indices: 43525443--43525498 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
43525433 AAGATAAACC
43525443 GATTTGGCTTCGGGCCATGCATATCAGTT
1 GATTTGGCTTCGGGCCATG-ATATCAGTT
43525472 GATTTGGCTTCGGGCCATGATATCAGT
1 GATTTGGCTTCGGGCCATGATATCAGT
43525499 ATTTCGGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.34
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGTT
Found at i:43526908 original size:21 final size:21
Alignment explanation
Indices: 43526882--43526922 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
43526872 CATTAAATTA
* * *
43526882 ATATATGTTATAATATAATAT
1 ATATATATCATAAAATAATAT
43526903 ATATATATCATAAAATAATA
1 ATATATATCATAAAATAATA
43526923 ATAAGCCATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATATATCATAAAATAATAT
Found at i:43528047 original size:56 final size:56
Alignment explanation
Indices: 43527958--43528160 Score: 282
Period size: 56 Copynumber: 3.6 Consensus size: 56
43527948 AATATGTGGA
* * *
43527958 ATCGATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGAC
1 ATCGATATGTGA-TTCTGATATATGTGTACGAGTAAGTCCACGTTTAATACGTTGGC
* * * *
43528014 ATCGATATGTGATTCCGATATATGTGTATGAGTAAGTCCACATTTAATATGTTGGC
1 ATCGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACGTTTAATACGTTGGC
* * *
43528070 ATCAATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGC
1 ATCGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACGTTTAATACGTTGGC
* *
43528126 ATCGATATGTGATTCTGATATGTGTTTACGAGTAA
1 ATCGATATGTGATTCTGATATATGTGTACGAGTAA
43528161 TGTAACACCC
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
55 2 0.02
56 126 0.98
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (56 bp):
ATCGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACGTTTAATACGTTGGC
Found at i:43528104 original size:112 final size:111
Alignment explanation
Indices: 43527948--43528160 Score: 320
Period size: 112 Copynumber: 1.9 Consensus size: 111
43527938 TACCTGGAAG
*
43527948 AATATGTGGAATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGA
1 AATATGTGGAATCAATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGA
*
43528013 CATCGATATGTGATTCCGATATATGTGTATGAGTAAGTCCACATTT
66 CATCGATATGTGATTCCGATATATGTGTACGAGTAAGTCCACATTT
* * *
43528059 AATATGTTGGCATCAATATGTGA-TTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTT
1 AATATG-TGGAATCAATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACGTT
* * * *
43528123 GGCATCGATATGTGATTCTGATATGTGTTTACGAGTAA
64 GACATCGATATGTGATTCCGATATATGTGTACGAGTAA
43528161 TGTAACACCC
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 8 0.09
112 83 0.91
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (111 bp):
AATATGTGGAATCAATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGA
CATCGATATGTGATTCCGATATATGTGTACGAGTAAGTCCACATTT
Found at i:43528910 original size:31 final size:31
Alignment explanation
Indices: 43528869--43528928 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
43528859 CCTTTTCATA
*
43528869 TTTCATATTTCATAACACTGGGCCGAAGCAT
1 TTTCAAATTTCATAACACTGGGCCGAAGCAT
**
43528900 TTTCAAATTTCATATTACTGGGCCGAAGC
1 TTTCAAATTTCATAACACTGGGCCGAAGC
43528929 CTTTACTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCAT
Found at i:43529203 original size:25 final size:25
Alignment explanation
Indices: 43529145--43529244 Score: 179
Period size: 25 Copynumber: 4.1 Consensus size: 25
43529135 GCCTAGCCTC
43529145 TTTTAATAACTGGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCT
43529169 -TTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
43529193 TTTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
43529218 TTTT-ATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
43529242 TTT
1 TTT
43529245 GCACTTCCTC
Statistics
Matches: 74, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
23 23 0.31
24 23 0.31
25 28 0.38
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (25 bp):
TTTTAATAACTGGGGCATAAGCCCT
Found at i:43529225 original size:24 final size:24
Alignment explanation
Indices: 43529139--43529244 Score: 178
Period size: 24 Copynumber: 4.4 Consensus size: 24
43529129 TTGGAGGCCT
43529139 AGCCTCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATA
43529164 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
43529187 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
*
43529212 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
43529236 AGCCCTTTT
1 AGCCCTTTT
43529245 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
23 23 0.29
24 28 0.36
25 27 0.35
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:43529316 original size:9 final size:9
Alignment explanation
Indices: 43529302--43529358 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
43529292 ATCTCGTGTG
43529302 CATATCATA
1 CATATCATA
*
43529311 CATATCATGTG
1 CATATCA--TA
43529322 CATATCATA
1 CATATCATA
* *
43529331 CATGTCATGTG
1 CATATCA--TA
43529342 CATATCATA
1 CATATCATA
43529351 CATATCAT
1 CATATCAT
43529359 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:43529321 original size:20 final size:20
Alignment explanation
Indices: 43529298--43529360 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
43529288 GAACATCTCG
43529298 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
43529318 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
43529338 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
43529358 TGT
1 TGT
43529361 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:43529425 original size:25 final size:25
Alignment explanation
Indices: 43529397--43529444 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43529387 ATATATAAAC
* * *
43529397 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43529422 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43529445 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43529876 original size:8 final size:8
Alignment explanation
Indices: 43529863--43529890 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
43529853 AAATGCCAGA
43529863 ATTTCGGC
1 ATTTCGGC
43529871 ATTTCGGC
1 ATTTCGGC
43529879 ATTTCGGC
1 ATTTCGGC
43529887 ATTT
1 ATTT
43529891 ATCGCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:43534087 original size:13 final size:13
Alignment explanation
Indices: 43534069--43534093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43534059 CCTATAGGTC
43534069 TATTTGGGGAGAT
1 TATTTGGGGAGAT
43534082 TATTTGGGGAGA
1 TATTTGGGGAGA
43534094 CTACTCATTT
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:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (13 bp):
TATTTGGGGAGAT
Found at i:43534105 original size:17 final size:17
Alignment explanation
Indices: 43534083--43534117 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
43534073 TGGGGAGATT
43534083 ATTTGGGGAGACTACTC
1 ATTTGGGGAGACTACTC
43534100 ATTTGGGGAGACTACTC
1 ATTTGGGGAGACTACTC
43534117 A
1 A
43534118 ACCCACCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (17 bp):
ATTTGGGGAGACTACTC
Found at i:43542380 original size:42 final size:42
Alignment explanation
Indices: 43542272--43542419 Score: 129
Period size: 42 Copynumber: 3.5 Consensus size: 42
43542262 TACCCCTGAT
* ** *
43542272 ATGGTCTTACATGGGATCATATATCGATGCCGATAG-CCCA-AC
1 ATGGTCTTACACGAAATCACATATCGATGCCG-T-GTCCCAGAC
* ** * *
43542314 TATGGCCTTACACGATGTCTCATATCGATGCTGTGTCCCAGAC
1 -ATGGTCTTACACGAAATCACATATCGATGCCGTGTCCCAGAC
* * * * *
43542357 ATGGTCTTACACGAAATCACATATCAATTCCATATCCCAGAT
1 ATGGTCTTACACGAAATCACATATCGATGCCGTGTCCCAGAC
43542399 ATGGTCTTACACGAAATCACA
1 ATGGTCTTACACGAAATCACA
43542420 CATAACCCTA
Statistics
Matches: 85, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 58 0.68
43 26 0.31
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCACATATCGATGCCGTGTCCCAGAC
Found at i:43548110 original size:18 final size:17
Alignment explanation
Indices: 43548070--43548110 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
43548060 AAAAAAGTGG
*
43548070 AAAAAAATAGAAAAATA
1 AAAAAAAAAGAAAAATA
*
43548087 AGAAAAAAAAGAAAAATT
1 A-AAAAAAAAGAAAAATA
43548105 AAAAAA
1 AAAAAA
43548111 TATTTTGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (17 bp):
AAAAAAAAAGAAAAATA
Found at i:43549829 original size:1 final size:1
Alignment explanation
Indices: 43549823--43549850 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
43549813 TATATACTAG
43549823 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
43549851 ATTATCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:43554198 original size:5 final size:5
Alignment explanation
Indices: 43554188--43554215 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43554178 TTGTGTGTTA
43554188 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
43554216 TCACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:43560589 original size:2 final size:2
Alignment explanation
Indices: 43560582--43560612 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
43560572 GGAACTCGTA
43560582 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
43560613 GAAAGGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43571478 original size:14 final size:14
Alignment explanation
Indices: 43571459--43571491 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
43571449 TATTCTTAAT
43571459 AGAAAAAAAAAAAA
1 AGAAAAAAAAAAAA
*
43571473 AGAAAAAGAAAAAA
1 AGAAAAAAAAAAAA
43571487 AGAAA
1 AGAAA
43571492 GTCTGAGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAAA
Found at i:43578254 original size:308 final size:308
Alignment explanation
Indices: 43577696--43578316 Score: 1152
Period size: 308 Copynumber: 2.0 Consensus size: 308
43577686 TTGTGATAGC
43577696 CGAATATGGCTTGGCACTAAAGTGATTAAATGTGAACTTCGATGAGGTAAACCATTAAAAGTGTG
1 CGAATATGGCTTGGCACTAAAGTGATTAAATGTGAACTTCGATGAGGTAAACCATTAAAAGTGTG
43577761 GTGCTATAAGACTATGGACTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTCAGGTAT
66 GTGCTATAAGACTATGGACTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTCAGGTAT
43577826 GCGATATGTACTTAGGCATGTTAAATCGATTGGAATTGAATCATGAATATGAATTGAGAAGCATA
131 GCGATATGTACTTAGGCATGTTAAATCGATTGGAATTGAATCATGAATATGAATTGAGAAGCATA
*
43577891 GATAAAAATGCCTATGACATATATGTGAGTAAGGGTAAAACCATCGTAAATTATCGATAAGGATG
196 GAGAAAAATGCCTATGACATATATGTGAGTAAGGGTAAAACCATCGTAAATTATCGATAAGGATG
*
43577956 GGCTATGTGCGGAACCATCTTATAATTAATAATTTGAAAGGTTGTGTA
261 GGCTATATGCGGAACCATCTTATAATTAATAATTTGAAAGGTTGTGTA
43578004 CGAATATGGCTTGGCACTAAAGTGATTAAATGTGAACTTCGATGAGGTAAACCATTAAAAGTGTG
1 CGAATATGGCTTGGCACTAAAGTGATTAAATGTGAACTTCGATGAGGTAAACCATTAAAAGTGTG
* *
43578069 GTGCTGTAAGACTATGGGCTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTCAGGTAT
66 GTGCTATAAGACTATGGACTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTCAGGTAT
* *
43578134 GCGATATGTACTTATGCATGTTAAATCGATTGGAATTGAATCATGAATGTGAATTGAGAAGCATA
131 GCGATATGTACTTAGGCATGTTAAATCGATTGGAATTGAATCATGAATATGAATTGAGAAGCATA
*
43578199 GGGAAAAATGCCTATGACATATATGTGAGTAAGGGTAAAACCATCGTAAATTATCGATAAGGATG
196 GAGAAAAATGCCTATGACATATATGTGAGTAAGGGTAAAACCATCGTAAATTATCGATAAGGATG
** *
43578264 GGCTATATGCGGAACCATCTTATAATTGCTAATTTGAAAGGTTGTGTG
261 GGCTATATGCGGAACCATCTTATAATTAATAATTTGAAAGGTTGTGTA
43578312 CGAAT
1 CGAAT
43578317 CAGTGAGCAC
Statistics
Matches: 303, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
308 303 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (308 bp):
CGAATATGGCTTGGCACTAAAGTGATTAAATGTGAACTTCGATGAGGTAAACCATTAAAAGTGTG
GTGCTATAAGACTATGGACTAATACGATATGTGGATTCGTTCCGTAAAGTAAATTATTCAGGTAT
GCGATATGTACTTAGGCATGTTAAATCGATTGGAATTGAATCATGAATATGAATTGAGAAGCATA
GAGAAAAATGCCTATGACATATATGTGAGTAAGGGTAAAACCATCGTAAATTATCGATAAGGATG
GGCTATATGCGGAACCATCTTATAATTAATAATTTGAAAGGTTGTGTA
Found at i:43578627 original size:38 final size:38
Alignment explanation
Indices: 43578529--43578631 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
43578519 GGCTTAAAGA
* * ** * *
43578529 CCCGCAGGCTTCGTGCTGGTAAAATATTCGGGTTAAAT
1 CCCGCAGGCATAGTGCTGGTATTATATCCGGGATAAAT
43578567 CCCGCAGGCATCA-TGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCAT-AGTGCTGGTATTATATCCGGGATAAAT
* *
43578605 CCCGCAGGCCTAGTGCTAGTATTATAT
1 CCCGCAGGCATAGTGCTGGTATTATAT
43578632 TCAGGCCTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.02
38 54 0.98
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCATAGTGCTGGTATTATATCCGGGATAAAT
Found at i:43578753 original size:43 final size:43
Alignment explanation
Indices: 43578629--43578740 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
43578619 GCTAGTATTA
* *
43578629 TATTCAGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
43578672 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
43578715 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
43578741 GTAATGCCGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.12, C:0.27, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:43579763 original size:17 final size:19
Alignment explanation
Indices: 43579728--43579764 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43579718 TTTAATTAGC
43579728 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
43579747 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
43579764 A
1 A
43579765 CTATATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:43583956 original size:17 final size:19
Alignment explanation
Indices: 43583921--43583957 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43583911 TTTAATTAGC
43583921 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
43583940 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
43583957 A
1 A
43583958 CTGTATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:43585784 original size:28 final size:27
Alignment explanation
Indices: 43585752--43585805 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
43585742 CGTAGATCAC
43585752 GAAATTACCCCTAAAGAGCAAAATTACT
1 GAAATTACCCCTAAA-AGCAAAATTACT
*
43585780 GAAATTACCCCTAAAAGCCAAATTAC
1 GAAATTACCCCTAAAAGCAAAATTAC
43585806 CGATATACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.20
Consensus pattern (27 bp):
GAAATTACCCCTAAAAGCAAAATTACT
Found at i:43587240 original size:93 final size:93
Alignment explanation
Indices: 43587128--43587299 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43587118 GCCCATAAGT
* *
43587128 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43587193 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43587221 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43587286 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43587300 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43587295 original size:46 final size:46
Alignment explanation
Indices: 43587120--43587295 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43587110 TGTAACCCGC
* * *
43587120 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43587166 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43587216 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43587259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43587296 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43589719 original size:29 final size:29
Alignment explanation
Indices: 43589680--43589767 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
43589670 CAAAGATAAC
*
43589680 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
43589709 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
43589738 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
43589768 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:43589738 original size:15 final size:15
Alignment explanation
Indices: 43589680--43589758 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
43589670 CAAAGATAAC
*
43589680 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43589694 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
43589709 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
43589723 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
43589738 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
43589753 AAGAAA
1 AAGAAA
43589759 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43589767 original size:15 final size:15
Alignment explanation
Indices: 43589691--43589767 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
43589681 AGAAAACCGA
43589691 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
43589706 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
43589720 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
43589734 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
43589750 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
43589765 ATA
1 ATA
43589768 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43592830 original size:93 final size:93
Alignment explanation
Indices: 43592718--43592889 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43592708 GCCCATAAGT
* *
43592718 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43592783 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43592811 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43592876 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43592890 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43592885 original size:46 final size:46
Alignment explanation
Indices: 43592710--43592885 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43592700 TGTAACCCGC
* * *
43592710 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43592756 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43592806 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43592849 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43592886 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43608858 original size:41 final size:41
Alignment explanation
Indices: 43608801--43608883 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
43608791 TAAATAAAGT
43608801 ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
1 ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
43608842 ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
1 ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
43608883 A
1 A
43608884 CTAATGATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (41 bp):
ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
Found at i:43610989 original size:39 final size:40
Alignment explanation
Indices: 43610796--43611011 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
43610786 AAACCAAGTA
* * * *
43610796 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
43610835 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43610875 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43610915 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * *
43610955 CCTTCGGG-CTTAGCCTAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
43610994 -CTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43611012 TTATCATCCG
Statistics
Matches: 160, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
38 7 0.04
39 46 0.29
40 107 0.67
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43616662 original size:9 final size:9
Alignment explanation
Indices: 43616648--43616674 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
43616638 CAATTCTCAA
43616648 ATGTTCATT
1 ATGTTCATT
43616657 ATGTTCATT
1 ATGTTCATT
43616666 ATGTTCATT
1 ATGTTCATT
43616675 TTTATCTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (9 bp):
ATGTTCATT
Found at i:43621484 original size:46 final size:46
Alignment explanation
Indices: 43621434--43621606 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
43621424 TGGTTGAGCA
43621434 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
43621480 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
43621525 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
43621573 GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43621607 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43621590 original size:93 final size:93
Alignment explanation
Indices: 43621431--43621601 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43621421 GGATGGTTGA
* * *
43621431 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
43621496 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
43621524 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
43621589 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43621602 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:43621842 original size:23 final size:23
Alignment explanation
Indices: 43621816--43621863 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
43621806 TAGATACAAC
43621816 AACGATAAGGTAGTAAGATGATG
1 AACGATAAGGTAGTAAGATGATG
43621839 AACGATAAGGTAGTAAGATGATG
1 AACGATAAGGTAGTAAGATGATG
43621862 AA
1 AA
43621864 TGATGTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.29, T:0.21
Consensus pattern (23 bp):
AACGATAAGGTAGTAAGATGATG
Found at i:43631390 original size:76 final size:75
Alignment explanation
Indices: 43631241--43631394 Score: 245
Period size: 76 Copynumber: 2.0 Consensus size: 75
43631231 AAGTTTCTAT
* * * *
43631241 TTACTATGGTTTATTAAATGGAAGGTCCTTATGTTGATATTAGACCATTGATACTGGATTTTTTT
1 TTACTATGGTTTATTAAATGAAAGGTCCTTATGTTGATATTAGACCATTGATACTGGAATTTGTC
43631306 ATAAATGGCC
66 ATAAATGGCC
* *
43631316 TTACTATGGTTTATTAAATGAAAGGTCCTTCTGTTTGATATTAGACCATTGATAGTGGAATTTGT
1 TTACTATGGTTTATTAAATGAAAGGTCCTTATG-TTGATATTAGACCATTGATACTGGAATTTGT
43631381 CATAAATGGCC
65 CATAAATGGCC
43631392 TTA
1 TTA
43631395 TATTAATTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 31 0.43
76 41 0.57
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.42
Consensus pattern (75 bp):
TTACTATGGTTTATTAAATGAAAGGTCCTTATGTTGATATTAGACCATTGATACTGGAATTTGTC
ATAAATGGCC
Found at i:43632402 original size:43 final size:42
Alignment explanation
Indices: 43632309--43632459 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 42
43632299 GGTTACCAAG
* * *
43632309 ATGTGATTACATGTATGACCATGTCTGGGACACTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTAGGACACTGGCATCGT
* *
43632351 ATTGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACACTGGCATCG-T
* *** * * * *
43632395 ATATGATTTTGTGTAAGACCCTGTCTTGGACAGTGGCATCAAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACACTGGCATC-GT
*
43632438 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
43632460 ATTTGGGATA
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 85 0.97
44 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACACTGGCATCGT
Found at i:43638591 original size:21 final size:20
Alignment explanation
Indices: 43638567--43638605 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
43638557 AAACTTGTAT
43638567 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
43638588 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
43638606 AAACTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:43641604 original size:40 final size:40
Alignment explanation
Indices: 43641549--43641649 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
43641539 ATATGTGCAA
43641549 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
43641589 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
43641629 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
43641650 TCCGAGCCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:43641667 original size:40 final size:40
Alignment explanation
Indices: 43641549--43641667 Score: 130
Period size: 40 Copynumber: 3.0 Consensus size: 40
43641539 ATATGTGCAA
* ** *
43641549 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
* ** *
43641589 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
* * * *
43641629 GCATTCGTGCTGGTTGTTATATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAA
43641668 AGTATTTATG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
Found at i:43657590 original size:40 final size:39
Alignment explanation
Indices: 43657425--43657608 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
43657415 AAATTGAATG
* * *
43657425 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
43657465 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
43657505 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
43657545 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
43657584 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
43657609 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:43657633 original size:80 final size:81
Alignment explanation
Indices: 43657465--43657653 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
43657455 GCTGGAAATT
* * * *
43657465 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
43657530 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
43657546 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
43657609 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
43657625 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
43657654 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:43661119 original size:40 final size:41
Alignment explanation
Indices: 43661063--43661288 Score: 230
Period size: 40 Copynumber: 5.6 Consensus size: 41
43661053 AATTCAAATA
* *
43661063 TATATATGGCACTTAGTGTGCGATTC-AAGAAAGCTTCAGC
1 TATATATGGCACTTAGTGTGCAATTCGAAGAAAGCTTCGGC
* *
43661103 TATATATGGCATTTAGTGTGTAATTC-AAGAAAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATTCGAAGAAAGCTTCGGC
* * *
43661143 TATATATGACACTTAGTGTGCAATTCGAA-ATAGCTTTGGC
1 TATATATGGCACTTAGTGTGCAATTCGAAGAAAGCTTCGGC
* *
43661183 TATATATGGCACTTAGTGTGCGAGACT-G-AGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGC-A-ATTCGAAGAAAGCTTCGGC
* * ** * *
43661224 TATATAAGGCACTTAGTGTGCAA-ACTTATAATAGCTTAGGC
1 TATATATGGCACTTAGTGTGCAATTCGAAGAA-AGCTTCGGC
*
43661265 TATGTATTGGCACTTAGTGTGCAA
1 TATATA-TGGCACTTAGTGTGCAA
43661289 GATATCAAGT
Statistics
Matches: 158, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 92 0.58
41 47 0.30
42 18 0.11
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCAATTCGAAGAAAGCTTCGGC
Found at i:43667606 original size:42 final size:43
Alignment explanation
Indices: 43667515--43667625 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
43667505 AATGCCAACA
** * *
43667515 TCCCAGACGTGGTCTTACATGTAATCAAATATTGATGTAACTG
1 TCCCAGACAAGGTCTTACACGAAATCAAATATTGATGTAACTG
* *
43667558 TCCCAGATAAGGTCTTACACGAAATCAAATA-TGATGTTGA-TG
1 TCCCAGACAAGGTCTTACACGAAATCAAATATTGATG-TAACTG
* *
43667600 TCCCAGACATGGTTTTACACGTAAAT
1 TCCCAGACAAGGTCTTACACG-AAAT
43667626 ATCAAATCGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (43 bp):
TCCCAGACAAGGTCTTACACGAAATCAAATATTGATGTAACTG
Found at i:43673463 original size:23 final size:23
Alignment explanation
Indices: 43673437--43673481 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
43673427 TTATATCCAT
* *
43673437 ACCAAAATCATGCCAAATCATAA
1 ACCAAAATCATACCAAAACATAA
*
43673460 ACCAAAGTCATACCAAAACATA
1 ACCAAAATCATACCAAAACATA
43673482 TGTTTCATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.27, G:0.04, T:0.16
Consensus pattern (23 bp):
ACCAAAATCATACCAAAACATAA
Found at i:43674322 original size:43 final size:44
Alignment explanation
Indices: 43674210--43674322 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
43674200 CAATGTCAAC
* **
43674210 GTCCCATACGTGGTCTTACATGT-AATCAAATATTGATGCCACT
1 GTCCCATACATGGTCTTACATGTAAATCAAATATCAATGCCACT
* * * * *
43674253 ATCCCAGACAAGGTCTTACACG-AAATCAAATA-CAATGCTGA-T
1 GTCCCATACATGGTCTTACATGTAAATCAAATATCAATGC-CACT
43674295 GTCCCATACATGGTCTTACATGTAAATC
1 GTCCCATACATGGTCTTACATGTAAATC
43674323 TCAAATTGAT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (44 bp):
GTCCCATACATGGTCTTACATGTAAATCAAATATCAATGCCACT
Found at i:43674366 original size:86 final size:85
Alignment explanation
Indices: 43674210--43674366 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 85
43674200 CAATGTCAAC
*
43674210 GTCCCATACGTGGTCTTACATGTAATCAAATATTGATGCCACTATCCCAGACAAGGTCTTACACG
1 GTCCCATACATGGTCTTACATGTAATCAAATATTGATGCCACTATCCCAGACAAGGTCTTACACG
43674275 AAATCAAATACAATGCTGAT
66 AAATCAAATACAATGCTGAT
* *** *
43674295 GTCCCATACATGGTCTTACATGTAAATCTCAA-ATTGATGCCAAC-ATCCCAGATGTGGTTTTAC
1 GTCCCATACATGGTCTTACATGT-AATC-AAATATTGATGCC-ACTATCCCAGACAAGGTCTTAC
43674358 ACGAAATCA
63 ACGAAATCA
43674367 CATATCGGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 22 0.35
86 37 0.59
87 4 0.06
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (85 bp):
GTCCCATACATGGTCTTACATGTAATCAAATATTGATGCCACTATCCCAGACAAGGTCTTACACG
AAATCAAATACAATGCTGAT
Found at i:43679956 original size:40 final size:41
Alignment explanation
Indices: 43679796--43680020 Score: 240
Period size: 41 Copynumber: 5.5 Consensus size: 41
43679786 GATAATTATA
* * *
43679796 CCTGAATTGCACATACGTGCCCC-TATTGTGCTTTAGTACC
1 CCTGAATTGCACATACGTGCCCCTTTTTGTACTTTGGTACC
* * *
43679836 CTTGAATTGTACATACGTGCCCCTGTTTGTA-TTTCGGTACC
1 CCTGAATTGCACATACGTGCCCCTTTTTGTACTTT-GGTACC
* * ** *
43679877 CATGAATTGCAAATACGTGATCCTTTTTGTACTTCGGTACC
1 CCTGAATTGCACATACGTGCCCCTTTTTGTACTTTGGTACC
* * *
43679918 CCTAAATTGCACATACATG-CCTTTTTTGTACTTTGGTACC
1 CCTGAATTGCACATACGTGCCCCTTTTTGTACTTTGGTACC
* * *
43679958 CCTGAATTGCACATACATGCCCCTGTTTGTACTTTGATACC
1 CCTGAATTGCACATACGTGCCCCTTTTTGTACTTTGGTACC
* * *
43679999 CATGAATAGCACTTACGTGCCC
1 CCTGAATTGCACATACGTGCCC
43680021 TTGTTCCCAC
Statistics
Matches: 153, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
40 60 0.39
41 91 0.59
42 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (41 bp):
CCTGAATTGCACATACGTGCCCCTTTTTGTACTTTGGTACC
Found at i:43688573 original size:45 final size:45
Alignment explanation
Indices: 43688498--43688587 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
43688488 TCCTATACGG
43688498 GGCAATAGAAATAGGTGTTGTTCCTTGCATCAACTCAATACCAAA
1 GGCAATAGAAATAGGTGTTGTTCCTTGCATCAACTCAATACCAAA
*
43688543 GGCAATAGAAATAGGTGTT-TTTCTTGGCATCAACTCAATACCAAA
1 GGCAATAGAAATAGGTGTTGTTCCTT-GCATCAACTCAATACCAAA
43688588 CTCTACTTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 5 0.12
45 38 0.88
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (45 bp):
GGCAATAGAAATAGGTGTTGTTCCTTGCATCAACTCAATACCAAA
Found at i:43693984 original size:28 final size:27
Alignment explanation
Indices: 43693919--43693985 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
43693909 GTGAGTCCGC
* * *
43693919 ACACTTAGTGCTTTATAATCAGCTCGC
1 ACACTTAGTGCTATATAATCAACTCGA
* *
43693946 ACACATAGTGCTATATAATCAAATTCGA
1 ACACTTAGTGCTATATAATC-AACTCGA
43693974 ACACTTAGTGCT
1 ACACTTAGTGCT
43693986 GTACAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 18 0.55
28 15 0.45
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (27 bp):
ACACTTAGTGCTATATAATCAACTCGA
Found at i:43695361 original size:14 final size:15
Alignment explanation
Indices: 43695324--43695364 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
43695314 AGCATCCACA
43695324 CACATTT-TTTTTTT
1 CACATTTCTTTTTTT
43695338 CATCATTTTCTTTTTTT
1 CA-CA-TTTCTTTTTTT
43695355 C-CATTTCTTT
1 CACATTTCTTT
43695365 ATTCCTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 3 0.12
17 8 0.33
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (15 bp):
CACATTTCTTTTTTT
Found at i:43702145 original size:31 final size:32
Alignment explanation
Indices: 43702103--43702167 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 32
43702093 TGATAAAAGA
43702103 ATGAAAAAAAAAATGTGTGTGAGTGTGGTATT
1 ATGAAAAAAAAAATGTGTGTGAGTGTGGTATT
43702135 ATGAAAAAAAAAAATGTGTGTGAGTGTGGTATT
1 ATG-AAAAAAAAAATGTGTGTGAGTGTGGTATT
43702168 CCCCCCCCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.31
Consensus pattern (32 bp):
ATGAAAAAAAAAATGTGTGTGAGTGTGGTATT
Found at i:43703470 original size:39 final size:39
Alignment explanation
Indices: 43703408--43703603 Score: 275
Period size: 39 Copynumber: 5.0 Consensus size: 39
43703398 AGAGTGTATG
*
43703408 AATGCGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
43703447 AATGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* *
43703486 AATGTGCGAATTGTGATATCTGGGCTAAGCGCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
43703525 ATTGTGCGAGTTATGATATCCGGGCTATGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
43703564 ATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
43703604 TTTGTGCGGG
Statistics
Matches: 141, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 131 0.93
40 10 0.07
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:43703542 original size:78 final size:78
Alignment explanation
Indices: 43703408--43703642 Score: 299
Period size: 78 Copynumber: 3.0 Consensus size: 78
43703398 AGAGTGTATG
* * * * *
43703408 AATGCGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTGCAAATTGTGATATCCGGGCT
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
*
43703473 AAGCCCGAAGGCA
66 ATGCCCGAAGGCA
* *
43703486 AATGTGCGAATTGTGATATCTGGGCTAAGCGCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
43703551 ATGCCCGAAGGCA
66 ATGCCCGAAGGCA
* * * * * * ** *
43703564 ATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATGATATCCGGGC
43703629 TATGTCCCGAAGGC
65 TATG-CCCGAAGGC
43703643 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 94 0.69
79 33 0.24
80 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
ATGCCCGAAGGCA
Found at i:43711544 original size:39 final size:39
Alignment explanation
Indices: 43711490--43711607 Score: 182
Period size: 39 Copynumber: 3.0 Consensus size: 39
43711480 GATGTGTATG
*
43711490 AATGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
43711529 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
43711568 ATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
43711608 TTTGTGCGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
39 63 0.86
40 10 0.14
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:43711631 original size:40 final size:40
Alignment explanation
Indices: 43711509--43711651 Score: 128
Period size: 39 Copynumber: 3.6 Consensus size: 40
43711499 ATTGTGATAT
** * *** *
43711509 CCGGGCTAAG-CCCGAAGGCAAATGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
43711548 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
43711587 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
43711627 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43711652 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 45 0.50
40 45 0.50
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:43714749 original size:31 final size:31
Alignment explanation
Indices: 43714709--43714792 Score: 114
Period size: 31 Copynumber: 2.6 Consensus size: 31
43714699 AACCCTTCCT
*
43714709 GCATTAAATCCAACCAAAAATAGCAAATATA
1 GCATAAAATCCAACCAAAAATAGCAAATATA
* *
43714740 GCATGAAATCCAACCAAAAATAGCAAATGTA
1 GCATAAAATCCAACCAAAAATAGCAAATATA
*
43714771 GCATAAAAAATACAACCAAAAA
1 GCAT--AAAATCCAACCAAAAA
43714793 CATTAAATCT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
31 33 0.70
33 14 0.30
ACGTcount: A:0.57, C:0.19, G:0.08, T:0.15
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAATAGCAAATATA
Found at i:43715063 original size:21 final size:21
Alignment explanation
Indices: 43715039--43715085 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
43715029 GCTGTTGCCT
* *
43715039 CTGCCTCCCTTGCTGCTACCG
1 CTGCCTCCCTCGCTGCTACCA
*
43715060 CTGCCTCCCTCGCTGCTGCCA
1 CTGCCTCCCTCGCTGCTACCA
43715081 CTGCC
1 CTGCC
43715086 CTAGTCTCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.51, G:0.19, T:0.26
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTACCA
Found at i:43730879 original size:40 final size:39
Alignment explanation
Indices: 43730814--43731014 Score: 213
Period size: 40 Copynumber: 5.0 Consensus size: 39
43730804 CGGAATACAA
** * *
43730814 CCGGATATAACCACACGCACGAATGCCTTCAGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
*
43730854 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
*
43730894 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43730934 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43730974 CCGGATATAAATACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATAT-AACACTTGCACAAATGCCTTCGGGTCTTAGC
43731014 C
1 C
43731015 TGGGTATCAT
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 133 0.98
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:43730954 original size:80 final size:80
Alignment explanation
Indices: 43730814--43731014 Score: 237
Period size: 80 Copynumber: 2.5 Consensus size: 80
43730804 CGGAATACAA
* * *
43730814 CCGGATATAACCAC-ACGCACGAATGCCTTCAGGTCTTAGCCCGGATATAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAAT
*
43730878 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * *
43730894 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
43730958 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * *
43730974 CCGGATATAA-ATACTAGCATAAATGTCTTCGGGACTTAGCC
1 CCGGATATAACA-ACTAGCACGAATGCCTTCGGGTCTTAGCC
43731015 TGGGTATCAT
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 102 0.98
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:43738801 original size:40 final size:40
Alignment explanation
Indices: 43738756--43738918 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
43738746 CGGAATACAA
43738756 CCGGATATAACCAC-ACGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTA-GCACGAATGCCTTCGGGACTTAGC
* * *
43738796 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGACTTAGC
* ** *
43738836 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTA-C
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGACTTAGC
* ** ** *
43738875 CCAGATATAAATACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGACTTAGC
43738915 CCGG
1 CCGG
43738919 TATCATTCAA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 30 0.29
40 72 0.71
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGACTTAGC
Found at i:43746899 original size:30 final size:30
Alignment explanation
Indices: 43746863--43747022 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
43746853 GACAAGATTG
* * * * *
43746863 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
43746893 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
43746921 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43746950 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43746980 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43747009 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43747023 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:43746990 original size:59 final size:57
Alignment explanation
Indices: 43746863--43747022 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
43746853 GACAAGATTG
* * * * * *
43746863 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
43746921 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
43746980 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
43747023 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:43757013 original size:14 final size:14
Alignment explanation
Indices: 43756994--43757020 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43756984 TCTAAATAGA
43756994 AAACAAACAAACAC
1 AAACAAACAAACAC
43757008 AAACAAACAAACA
1 AAACAAACAAACA
43757021 AAAAAGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACAAACAAACAC
Found at i:43757465 original size:24 final size:24
Alignment explanation
Indices: 43757438--43757483 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
43757428 GAATTTAACA
43757438 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATGC-GCACACATAGTGCCT
* *
43757462 TTCAACTGCGCACACGTAGTGC
1 TTCAAATGCGCACACATAGTGC
43757484 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (24 bp):
TTCAAATGCGCACACATAGTGCCT
Found at i:43757561 original size:2 final size:2
Alignment explanation
Indices: 43757554--43757586 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
43757544 TTATAAATGC
*
43757554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43757587 ATCAATCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43761955 original size:28 final size:29
Alignment explanation
Indices: 43761915--43761986 Score: 112
Period size: 28 Copynumber: 2.5 Consensus size: 29
43761905 AAAATTGTAC
*
43761915 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-TTGAATACATAT
43761943 AGCACTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
43761972 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43761987 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.07
28 19 0.46
29 19 0.46
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:43768470 original size:24 final size:24
Alignment explanation
Indices: 43768443--43768488 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
43768433 GAATTTAACA
43768443 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
43768467 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
43768489 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:43768566 original size:2 final size:2
Alignment explanation
Indices: 43768559--43768593 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
43768549 TTATAAATGC
*
43768559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43768594 ATCAATCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43772525 original size:39 final size:39
Alignment explanation
Indices: 43772331--43772526 Score: 311
Period size: 39 Copynumber: 5.0 Consensus size: 39
43772321 CCCGCACAAA
* * * *
43772331 TGCCTTCGGGACTTAACCCGGGTATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACATT
* * *
43772371 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
*
43772410 TGCCTTCGGGCTTAGCCCGAATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
43772449 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
43772488 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
43772527 CATACACATC
Statistics
Matches: 148, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 138 0.93
40 10 0.07
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
Found at i:43774817 original size:9 final size:9
Alignment explanation
Indices: 43774793--43774826 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
43774783 AAATAAACAA
43774793 AGTAAGC-T
1 AGTAAGCTT
*
43774801 ATTAAGCTT
1 AGTAAGCTT
43774810 AGTAAGCTT
1 AGTAAGCTT
43774819 AGTAAGCT
1 AGTAAGCT
43774827 CGTATGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (9 bp):
AGTAAGCTT
Found at i:43779898 original size:52 final size:54
Alignment explanation
Indices: 43779705--43779910 Score: 211
Period size: 55 Copynumber: 3.8 Consensus size: 54
43779695 ACTAGGGTTT
* * * * * *
43779705 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGT
1 AAGGATACTATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * *
43779759 AAGGA-AATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACT-ATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * * *
43779814 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACTATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
*
43779867 AAGGATACTA-GTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACTATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
43779911 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
52 31 0.25
53 15 0.12
54 35 0.29
55 41 0.34
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACTATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:43785976 original size:43 final size:43
Alignment explanation
Indices: 43785929--43786094 Score: 190
Period size: 43 Copynumber: 3.9 Consensus size: 43
43785919 TATCACATAT
* * * *
43785929 CGATGCCACTATCCCCGACAAGGTCTTACAC-TAAATCGAAAAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGT-AATCGAAAAA
* * *
43785972 CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCGTATAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCGAAAAA
* * * *
43786015 TGATGCCAATGTCCCAGACATGGTCTTACACATAATCGCAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCGAAAAA
* * *
43786058 CAATGTCAATGTCCCAGACATGGTCTTACATGTAATC
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATC
43786095 TCGTCTCGGT
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
43 103 0.99
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCGAAAAA
Found at i:43786068 original size:86 final size:86
Alignment explanation
Indices: 43785886--43786094 Score: 226
Period size: 86 Copynumber: 2.4 Consensus size: 86
43785876 ATAAGCTCGT
* * * * * ** * *
43785886 ACAATGCC-ATATCCCAGATATGATCTTACACATTATCACAT-ATCGATGCCACTATCCCCGACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCGTATAAT-GATGCCAATATCCCAGACA
43785949 AGGTCTTACACTAAATCGAAAA
65 AGGTCTTACACTAAATCGAAAA
* * * *
43785971 ACGATGCCAATGTCCTAGACATGGTCTTACACGTAATCGTATAATGATGCCAATGTCCCAGACAT
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCGTATAATGATGCCAATATCCCAGACAA
* *
43786036 GGTCTTACAC-ATAATCGCAAT
66 GGTCTTACACTA-AATCGAAAA
* *
43786057 ACAATGTCAATGTCCCAGACATGGTCTTACATGTAATC
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
43786095 TCGTCTCGGT
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
85 8 0.08
86 92 0.90
87 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (86 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCGTATAATGATGCCAATATCCCAGACAA
GGTCTTACACTAAATCGAAAA
Found at i:43797525 original size:40 final size:40
Alignment explanation
Indices: 43797300--43797497 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
43797290 TCGAATGATG
* * * *
43797300 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
43797340 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
43797380 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
43797420 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
43797460 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
43797498 TAACCGGGCT
Statistics
Matches: 149, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 137 0.92
41 11 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43797539 original size:40 final size:40
Alignment explanation
Indices: 43797353--43797544 Score: 121
Period size: 40 Copynumber: 4.8 Consensus size: 40
43797343 GGACTAAGAT
** *
43797353 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
43797393 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
43797433 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
43797473 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
43797513 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
43797545 TTAAACTCCG
Statistics
Matches: 141, Mismatches: 7, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
39 3 0.02
40 133 0.94
41 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:43797544 original size:120 final size:120
Alignment explanation
Indices: 43797300--43797532 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 120
43797290 TCGAATGATG
* *
43797300 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* **
43797365 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
* *
43797420 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGC
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GGACTAAGAT-CCGAAGGC
* * *
43797481 ATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
62 ATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
43797533 AGCTATATCC
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
119 2 0.02
120 82 0.85
121 13 0.13
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:43805532 original size:40 final size:40
Alignment explanation
Indices: 43805475--43805671 Score: 294
Period size: 40 Copynumber: 5.0 Consensus size: 40
43805465 TCGAATGATG
* * * *
43805475 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
43805515 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
43805555 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
43805595 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
43805635 TCCGGGA-TAAG-TCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
43805672 TAACCGGGCT
Statistics
Matches: 149, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 25 0.17
40 113 0.76
41 11 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43805718 original size:119 final size:120
Alignment explanation
Indices: 43805475--43805706 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
43805465 TCGAATGATG
* *
43805475 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* **
43805540 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
* *
43805595 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GGACTAAGATCCGAAGGCA
* * *
43805656 TTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
63 TTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
43805707 AGCTATATCC
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
118 1 0.01
119 50 0.52
120 35 0.36
121 11 0.11
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:43805729 original size:79 final size:79
Alignment explanation
Indices: 43805488--43805732 Score: 243
Period size: 79 Copynumber: 3.1 Consensus size: 79
43805478 GGGCTAAGTC
* * **
43805488 CCGAAGGC-TTTGTGCTAAG-TGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
1 CCGAAGGCATTTGTGC-GAGCT-ACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTAC
*
43805551 TAAATCC-GGACTAAGAT
64 TAAATCCGGGA-TAA-CT
* **
43805568 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
*
43805633 AATCCGGGATAAGT
66 AATCCGGGATAACT
* * *
43805647 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA-
* *
43805709 CTATATCC-GGTTAAACT
63 CTAAATCCGGGAT-AACT
43805726 CCGAAGG
1 CCGAAGG
43805733 TACGTGATTC
Statistics
Matches: 146, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
78 6 0.04
79 66 0.45
80 63 0.43
81 11 0.08
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
AATCCGGGATAACT
Found at i:43811210 original size:28 final size:27
Alignment explanation
Indices: 43811147--43811216 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
43811137 ATAGTGAGTC
43811147 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
43811174 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
43811202 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43811217 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:43813069 original size:27 final size:27
Alignment explanation
Indices: 43813039--43813198 Score: 221
Period size: 27 Copynumber: 5.9 Consensus size: 27
43813029 GGGCAAAATA
* * * *
43813039 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
43813066 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
43813093 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* **
43813120 ATAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
43813147 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
43813174 GTAATTCTATCCTACAGGGATATTT
1 GTAATTCTACCCTACAGGGGTATTT
43813199 TAATAATTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:43813198 original size:54 final size:54
Alignment explanation
Indices: 43813037--43813206 Score: 259
Period size: 54 Copynumber: 3.1 Consensus size: 54
43813027 AGGGGCAAAA
* * *
43813037 TAGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* *
43813091 CAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * *
43813145 TAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCCTACAGGGATATTT
1 TAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
*
43813199 TAATAATT
1 TAGTAATT
43813207 TTGTAAATCG
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
TAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:43813604 original size:27 final size:27
Alignment explanation
Indices: 43813244--43813610 Score: 351
Period size: 27 Copynumber: 13.6 Consensus size: 27
43813234 CTGTAAATTG
* * *
43813244 AGGGTACTTTGGTAATTTTTACAAGTCG
1 AGGGTATTTTGGTAA-TTTTACAAATCA
** **
43813272 AGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCA
* ** *
43813299 AGGGCATTTCAGTAATTTTACAAACTGA
1 AGGGTATTTTGGTAATTTTACAAA-TCA
* *
43813327 A-GGTATTTCGGTAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTACAAATCA
* *
43813353 GGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCA
* * ** *
43813380 GGGGTATTTTGGCAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCA
* *
43813407 AGGGTATTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCA
* *
43813434 AGGGTATTTTAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAATCA
* * *
43813461 TGGGTATTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCA
** *
43813488 AGGGTATTTCAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAATCA
* *
43813515 AAGGTATTTTGGTAATTTCACAAA-CTA
1 AGGGTATTTTGGTAATTTTACAAATC-A
* *
43813542 GGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCA
* *
43813569 GGGGTATTTTGGTAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTACAAATCA
* *
43813596 AGGGCATTTTAGTAA
1 AGGGTATTTTGGTAA
43813611 CTTGGTAAAC
Statistics
Matches: 284, Mismatches: 51, Indels: 9
0.83 0.15 0.03
Matches are distributed among these distances:
26 3 0.01
27 266 0.94
28 15 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCA
Done.