Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 146 of 235
Found at i:49102731 original size:48 final size:48
Alignment explanation
Indices: 49102674--49102992 Score: 297
Period size: 48 Copynumber: 6.6 Consensus size: 48
49102664 GGTGAATTTT
* * *
49102674 CGATGCCATGTTCCA-ATCATGGTCTTACATTGGCT-TACATGTCGAGGC
1 CGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCT-CATATCGAGGC
* * * ** * * * **
49102722 TGATGCCATGTCCCAGACAGGGTCTTACATTATCTCTTATCTCAATAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGC
* * * * *
49102770 CGATGTCATGTCCCAGACATGGTCTTACATTGGCTCTCATGTTGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGC
* * * * *
49102818 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGC
*
49102866 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCACAATATC---GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTC-ATATCGAGGC
* * * *
49102914 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGC
*
49102962 CGACGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
49102993 AGCACACATA
Statistics
Matches: 222, Mismatches: 41, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
45 5 0.02
46 3 0.01
48 204 0.92
49 2 0.01
50 3 0.01
51 5 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGC
Found at i:49102934 original size:144 final size:143
Alignment explanation
Indices: 49102674--49103005 Score: 391
Period size: 144 Copynumber: 2.3 Consensus size: 143
49102664 GGTGAATTTT
* * * ** * * *
49102674 CGATGCCATGTTCCA-ATCATGGTCTTACATTGGCTTACATGTCGAGGCTGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGA-CATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATGTCCCAG
* * * * *
49102738 ACAGGGTCTTACATTATCTCTTATCTCAATACCGATGTCATGTCCCAGACATGGTCTTACATTGG
65 ACAGGGTCTTACA-TATCGCTTATCACAATACCGATGCCATGTCCCAAACATGGTCTTACACTGG
* *
49102803 CTCTCATGTTGTGGC
129 CTCTCATATCGTGGC
* *
49102818 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATGTCCCAGA
* * * *
49102883 CATGGTCTTACA-CTGGCTT-TCACAATATCGCCGATGCCATGTTCCAAACATGGTCTTACACTG
66 CAGGGTCTTACATATCGCTTATCACAATA---CCGATGCCATGTCCCAAACATGGTCTTACACTG
*
49102946 GCTCTCATATCGTGGT
128 GCTCTCATATCGTGGC
*
49102962 CGACGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
49103006 CCAAAATGTC
Statistics
Matches: 161, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
141 7 0.04
142 4 0.02
144 149 0.93
145 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (143 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATGTCCCAGA
CAGGGTCTTACATATCGCTTATCACAATACCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
CTCATATCGTGGC
Found at i:49105085 original size:12 final size:12
Alignment explanation
Indices: 49105068--49105097 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49105058 ACTTTTTCCA
49105068 AAACCTCAAAGT
1 AAACCTCAAAGT
*
49105080 AAACCTCGAAGT
1 AAACCTCAAAGT
49105092 AAACCT
1 AAACCT
49105098 TAGATCTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.17
Consensus pattern (12 bp):
AAACCTCAAAGT
Found at i:49107430 original size:40 final size:40
Alignment explanation
Indices: 49107332--49107594 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
49107322 TCCTCGTTCA
* * * ** *
49107332 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
49107371 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
49107411 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
49107451 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
49107491 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
49107531 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
49107571 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
49107595 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:49121426 original size:29 final size:29
Alignment explanation
Indices: 49121393--49121449 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
49121383 GAATGAACGC
49121393 TTTG-AAATATGAATAAAATTTTATGGCGT
1 TTTGAAAATAT-AATAAAATTTTATGGCGT
*
49121422 TTTGAAAAATATAATGAAATTTTATGGC
1 TTTG-AAAATATAATAAAATTTTATGGC
49121450 CCGTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 15 0.60
31 6 0.24
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (29 bp):
TTTGAAAATATAATAAAATTTTATGGCGT
Found at i:49123262 original size:44 final size:44
Alignment explanation
Indices: 49123178--49123266 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
49123168 ACCCCTAGTC
* * ***
49123178 ATACCTCTGCTGCTAGTCCCTCTTCCTGGATTCTTCTGTGGTCT
1 ATACCTCTACTGCTAATCCCTCTTCCCAAATTCTTCTGTGGTCT
* *
49123222 ATACCTCTACTGCTAATCCCTCTTCCCAAATTTTTTTGTGGTCT
1 ATACCTCTACTGCTAATCCCTCTTCCCAAATTCTTCTGTGGTCT
49123266 A
1 A
49123267 CTCGTCGAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.15, C:0.30, G:0.13, T:0.42
Consensus pattern (44 bp):
ATACCTCTACTGCTAATCCCTCTTCCCAAATTCTTCTGTGGTCT
Found at i:49125886 original size:144 final size:142
Alignment explanation
Indices: 49125626--49125957 Score: 373
Period size: 144 Copynumber: 2.3 Consensus size: 142
49125616 AGTGAATTGT
* * * * * *
49125626 CGATGCCATGTTCCAAACATGGTCTTACATTG-GCTTACATGTCGAGGCCGATGCTATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGCGC--ACATATCAAGGCCGATGCCATGTCCCAG
* * * * *
49125690 ACATGGTCTTACATTAGCTCTCGTCTCAATACCGATGTCATATCCCAGACATGGTCTTACATTGG
64 ACATGGTCTTACACTAGCTCTC-TCACAATACCGATGCCATATCCCAAACATGGTCTTACACTGG
* *
49125755 CTCTCATGTTGTGGC
128 CTCTCATATCGTGGC
* *
49125770 CGATGCCATGTCCCAGACATGGTATTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCGCACATATCAAGGCCGATGCCATGTCCCAGA
* * *
49125835 CATGGTCTTACACTGGCT-T-TCACAATATCCCTGATGCCATGTTCCAAACATGGTCTTACACTG
65 CATGGTCTTACACTAGCTCTCTCACAATA--CC-GATGCCATATCCCAAACATGGTCTTACACTG
49125898 GCTCTCATATCGTGGC
127 GCTCTCATATCGTGGC
* * * *
49125914 TGACGCCATGTCCTAGACATGGTCTTACACTGGGACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGCG-CACATATCA
49125958 CCCAAATGTC
Statistics
Matches: 159, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
141 7 0.04
143 5 0.03
144 144 0.91
145 1 0.01
146 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (142 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCGCACATATCAAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCTCACAATACCGATGCCATATCCCAAACATGGTCTTACACTGGCTC
TCATATCGTGGC
Found at i:49125943 original size:48 final size:48
Alignment explanation
Indices: 49125626--49125946 Score: 285
Period size: 48 Copynumber: 6.7 Consensus size: 48
49125616 AGTGAATTGT
* * * *
49125626 CGATGCCATGTTCCAAACATGGTCTTACATTGGCT-TACATGTCGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATATC-ATGGC
* * * * * *
49125674 CGATGCTATGTCCCAGACATGGTCTTACATTAGCTCTCGTCTCAAT-AC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * * **
49125722 CGATGTCATATCCCAGACATGGTCTTACATTGGCTCTCATGTTGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
* * * *
49125770 CGATGCCATGTCCCAGACATGGTATTACACTAGCGCACATATCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * *
49125818 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCACAAT-AT-CC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TATCATGGC
* * *
49125865 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
* * *
49125914 TGACGCCATGTCCTAGACATGGTCTTACACTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG
49125947 GACACATATC
Statistics
Matches: 220, Mismatches: 45, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
47 7 0.03
48 208 0.95
49 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
Found at i:49128943 original size:17 final size:17
Alignment explanation
Indices: 49128921--49128958 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
49128911 TCAAGGAACT
49128921 TAAATTTCTTTTCATTG
1 TAAATTTCTTTTCATTG
*
49128938 TAAATTTCTTTTCGTTG
1 TAAATTTCTTTTCATTG
49128955 TAAA
1 TAAA
49128959 GAAAAAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (17 bp):
TAAATTTCTTTTCATTG
Found at i:49132171 original size:18 final size:19
Alignment explanation
Indices: 49132150--49132199 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
49132140 TTTATATAAA
49132150 AATAAATTTAAAATATA-T
1 AATAAATTTAAAATATATT
*
49132168 AATAAA--TCAAATATATT
1 AATAAATTTAAAATATATT
49132185 AA-AAATATTAAAATA
1 AATAAAT-TTAAAATA
49132200 AATATTTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 11 0.42
17 3 0.12
18 6 0.23
19 6 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAAATTTAAAATATATT
Found at i:49132180 original size:27 final size:28
Alignment explanation
Indices: 49132149--49132202 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
49132139 TTTTATATAA
* *
49132149 AAATAAATTTAAAATA-TATAATAAATC
1 AAATAAATTAAAAATATTAAAATAAATC
*
49132176 AAATATATTAAAAATATTAAAATAAAT
1 AAATAAATTAAAAATATTAAAATAAAT
49132203 ATTTCGTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATAAATTAAAAATATTAAAATAAATC
Found at i:49138202 original size:27 final size:27
Alignment explanation
Indices: 49138161--49138214 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49138151 TATCATGTGA
* *
49138161 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
49138188 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
49138215 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:49138540 original size:49 final size:49
Alignment explanation
Indices: 49138468--49138642 Score: 251
Period size: 49 Copynumber: 3.5 Consensus size: 49
49138458 TGAGGTCACG
* *
49138468 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * *
49138517 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
*
49138568 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
49138617 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
49138643 TGCGTACCAG
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 64 0.59
50 4 0.04
51 40 0.37
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:49138636 original size:100 final size:100
Alignment explanation
Indices: 49138463--49138655 Score: 350
Period size: 100 Copynumber: 1.9 Consensus size: 100
49138453 TATTGTGAGG
*
49138463 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
49138528 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* *
49138563 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
49138628 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
49138656 GCCTTGTCTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 89 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:49145848 original size:16 final size:17
Alignment explanation
Indices: 49145829--49145871 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
49145819 TACATCTGAA
49145829 AAATAATAAAATAAA-T
1 AAATAATAAAATAAATT
* *
49145845 AAATAATACATTAAATT
1 AAATAATAAAATAAATT
*
49145862 AAAAAATAAA
1 AAATAATAAA
49145872 TCTTATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAATAAAATAAATT
Found at i:49146121 original size:7 final size:7
Alignment explanation
Indices: 49146109--49146137 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
49146099 AAATTTTATA
49146109 AAATAAT
1 AAATAAT
49146116 AAATAAT
1 AAATAAT
49146123 AAATAAT
1 AAATAAT
49146130 AAATAAT
1 AAATAAT
49146137 A
1 A
49146138 TTAGATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:49146775 original size:22 final size:21
Alignment explanation
Indices: 49146734--49146781 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
49146724 GACAGAGGCG
*
49146734 AAACAGAAGCGAAACCATACA
1 AAACAGAAGCGAAACAATACA
* *
49146755 GAACAGAGGCAGAAACAATACA
1 AAACAGAAGC-GAAACAATACA
49146777 AAACA
1 AAACA
49146782 ATGATTGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.58, C:0.21, G:0.17, T:0.04
Consensus pattern (21 bp):
AAACAGAAGCGAAACAATACA
Found at i:49147848 original size:18 final size:19
Alignment explanation
Indices: 49147804--49147857 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
49147794 AATTATTTTT
*
49147804 TATTTTTTATT-TATATTA
1 TATTTTTTATTATATATCA
*
49147822 TGTTATTTTATTATATA-CA
1 TATT-TTTTATTATATATCA
*
49147841 TATTTTTTAATATATAT
1 TATTTTTTATTATATAT
49147858 TATCTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 14 0.48
19 11 0.38
20 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTTATTATATATCA
Found at i:49155188 original size:129 final size:130
Alignment explanation
Indices: 49154925--49155212 Score: 391
Period size: 129 Copynumber: 2.2 Consensus size: 130
49154915 GTGAACTCAC
* * * * * * ** *
49154925 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAAGACAGTGAATCTTGTCTTCTGAAGCA
1 AGATATTATCTCCCTAA-GTAGCAGTGGAACATATCGAAGACGGCAAATCTTCTCTTCTGAAGCA
* * *
49154990 TTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
65 GTAGTGGAGCAGATTTAAACCACCATCCTATCTCCCTAAGCAGTAGTAGAGTAGGCTGAAGATTG
49155055 T
130 T
*
49155056 AGATATTATCTCTCTAAG-AGCAGTGGAACATATCGAAGACGGCAAATCTTCTCTCTCT-AAGCA
1 AGATATTATCTCCCTAAGTAGCAGTGGAACATATCGAAGACGGCAAATCTTCTCT-TCTGAAGCA
* *
49155119 GTAGTGGAGCAGATTTAAACCACTATCCTATCTCCTTAAGCAGTAGTAGAGTAGGCTGAAGATTG
65 GTAGTGGAGCAGATTTAAACCACCATCCTATCTCCCTAAGCAGTAGTAGAGTAGGCTGAAGATTG
49155184 T
130 T
* *
49155185 AGATCTTATCTCCCTAAGTAGTAGTGGA
1 AGATATTATCTCCCTAAGTAGCAGTGGA
49155213 GTAGATCGAA
Statistics
Matches: 137, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
129 111 0.81
130 12 0.09
131 14 0.10
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (130 bp):
AGATATTATCTCCCTAAGTAGCAGTGGAACATATCGAAGACGGCAAATCTTCTCTTCTGAAGCAG
TAGTGGAGCAGATTTAAACCACCATCCTATCTCCCTAAGCAGTAGTAGAGTAGGCTGAAGATTGT
Found at i:49155208 original size:86 final size:86
Alignment explanation
Indices: 49155101--49155386 Score: 291
Period size: 86 Copynumber: 3.4 Consensus size: 86
49155091 AAGACGGCAA
* * * *
49155101 ATCTTCTCTCTCTAAGCAGTAGTGGAGCAGATTTAAACCACTATCCTATCTCCTTAAGCAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAACCACCATCCTATCTCCCTAAGCAGTAGT
*
49155166 AGAGTAGGCTGAAGATTGTAG
66 GGAGTAGGCTGAAGATTGTAG
* * * ** * *
49155187 ATCTTATCTCCCTAAGTAGTAGTGGAGTAGA--TCGA--ACGATCTTATCTCCCTAAGCAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAACCACCATCCTATCTCCCTAAGCAGTAGT
* ** * *
49155248 GGAGCT--GATCGAAG-GCGACAA
66 GGAG-TAGGCT-GAAGATTG-TAG
* * *
49155269 ATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGCCACCATCCTATATCCCTAAGC-GATAG
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAACCACCATCCTATCTCCCTAAGCAG-TAG
49155333 TGGAGTAGGCTGAAGATTGTAG
65 TGGAGTAGGCTGAAGATTGTAG
*
49155355 ATCTTGTCTCCCTCAGCAGTAGTGGAGCAGAT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGAT
49155387 CGAAGACGGC
Statistics
Matches: 157, Mismatches: 32, Indels: 22
0.74 0.15 0.10
Matches are distributed among these distances:
81 3 0.02
82 58 0.37
83 1 0.01
84 3 0.02
85 2 0.01
86 87 0.55
87 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (86 bp):
ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAACCACCATCCTATCTCCCTAAGCAGTAGT
GGAGTAGGCTGAAGATTGTAG
Found at i:49155228 original size:38 final size:38
Alignment explanation
Indices: 49155186--49155296 Score: 125
Period size: 38 Copynumber: 2.8 Consensus size: 38
49155176 GAAGATTGTA
*
49155186 GATCTTATCTCCCTAAGTAGTAGTGGAG-TAGATCGAAC
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCT-GATCGAAC
49155224 GATCTTATCTCCCTAAGCAGTAGTGGAGCTGATCGAAGGC
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCTGATCGAA--C
* *
49155264 GACAAATCTTGTCTCCCTAACCAGTAGTGGAGC
1 G----ATCTTATCTCCCTAAGCAGTAGTGGAGC
49155297 AGATTTAAGC
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
38 34 0.54
39 1 0.02
40 2 0.03
44 26 0.41
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (38 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCTGATCGAAC
Found at i:49155304 original size:168 final size:172
Alignment explanation
Indices: 49155018--49155425 Score: 490
Period size: 168 Copynumber: 2.4 Consensus size: 172
49155008 GCCACCATCC
* * ** * * *
49155018 TATCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTGTAGATATTATCTCTCTAAG-AGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGAGCG-A-ATCTTATCTCCCTAAGCAGTAGTG
* * * * *
49155081 GAACATATCGAAGACGGCAAATCTTCTCTCTCTAAGCAGTAGTGGAGCAGATTTAAACCACTATC
63 GAGCATATCGAAGACGACAAATCTTCTCTCCCTAACCAGTAGTGGAGCAGATTTAAACCACCATC
* *
49155146 CTATCTCCTTAAGC-AGTAGTAGAGTAGGCTGAAGATTGTAGATCT
128 CTATATCCCTAAGCGA-TAGTAGAGTAGGCTGAAGATTGTAGATCT
* *
49155191 TATCTCCCTAAGTAGTAGTGGAGTAGATCG-A-A-CG-ATCTTATCTCCCTAAGCAGTAGTGGAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAGCGAATCTTATCTCCCTAAGCAGTAGTGGAG
* * *
49155252 C-TGATCGAAGGCGACAAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGCCACCATCCT
66 CAT-ATCGAAGACGACAAATCTTCTCTCCCTAACCAGTAGTGGAGCAGATTTAAACCACCATCCT
*
49155316 ATATCCCTAAGCGATAGTGGAGTAGGCTGAAGATTGTAGATCT
130 ATATCCCTAAGCGATAGTAGAGTAGGCTGAAGATTGTAGATCT
* * *
49155359 TGTCTCCCTCAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA--GCGAATCTTATCTCCCTAAGCAGTAGTGG
49155424 AG
64 AG
49155426 AAAATTTAAG
Statistics
Matches: 203, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
167 15 0.07
168 127 0.63
169 2 0.01
170 2 0.01
171 1 0.00
172 1 0.00
173 28 0.14
174 27 0.13
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (172 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAGCGAATCTTATCTCCCTAAGCAGTAGTGGAG
CATATCGAAGACGACAAATCTTCTCTCCCTAACCAGTAGTGGAGCAGATTTAAACCACCATCCTA
TATCCCTAAGCGATAGTAGAGTAGGCTGAAGATTGTAGATCT
Found at i:49155378 original size:130 final size:129
Alignment explanation
Indices: 49155224--49155606 Score: 588
Period size: 130 Copynumber: 2.9 Consensus size: 129
49155214 TAGATCGAAC
* * * * *
49155224 GATCTTATCTCCCTAAGCAGTAGTGGAGCTGATCGAAGGCGACAAATCTTGTCTCCCTAACCAGT
1 GATCTTGTCTCCCTAAGCAGTAGTGGAGCTGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAGT
* *
49155289 AGTGGAGCAGATTTAAGCCACCATCCTATATCCCTAAGCGATAGTGGAGTAGGCTGAAGATTGTA
66 AGTGGAGAAGATTTAAGCCACCATCCTATCTCCCTAAGC-ATAGTGGAGTAGGCTGAAGATTGTA
* *
49155354 GATCTTGTCTCCCTCAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAGT
1 GATCTTGTCTCCCTAAGCAGTAGTGGAGCTGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAGT
*
49155419 AGTGGAGAAAATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTAGGCTGAAGATTGTA
66 AGTGGAGAAGATTTAAGCCACCATCCTATCTCCCTAAGC-ATAGTGGAGTAGGCTGAAGATTGTA
* *
49155484 GATCTTGTCTTCCTAAGCAGTAGTGGAG-TAGATCGAAGACGGCGAATCTTGTCTCCTTAAGCAG
1 GATCTTGTCTCCCTAAGCAGTAGTGGAGCT-GATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
* * *
49155548 TAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAA
65 TAGTGGAGAAGATTTAAGCCACCATCCTATCTCCCTAAGCA-TAGTGGAGTAGGCTGAA
49155607 ATCAACAATT
Statistics
Matches: 232, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
129 1 0.00
130 231 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (129 bp):
GATCTTGTCTCCCTAAGCAGTAGTGGAGCTGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAGT
AGTGGAGAAGATTTAAGCCACCATCCTATCTCCCTAAGCATAGTGGAGTAGGCTGAAGATTGTA
Found at i:49155559 original size:44 final size:43
Alignment explanation
Indices: 49155018--49155597 Score: 301
Period size: 44 Copynumber: 13.5 Consensus size: 43
49155008 GCCACCATCC
* ** * *
49155018 TATCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTGTAGATAT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATC-GAAGACGGCA-ATCT
* * ** *
49155062 TATCTCTCTAAG-AGCAGTGGAACATATCGAAGACGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGC-AATCT
* * * ** ** * *
49155105 TCTCTCTCTAAGCAGTAGTGGAGCAGATTTAA-ACCACTATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCAATCT
* * * ** *
49155147 TATCTCCTTAAGCAGTAGTAGAGTAG-GCTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATC-GAAGACGGCA-ATCT
*
49155191 TATCTCCCTAAGTAGTAGTGGAGTAGATCG-A-AC-G--ATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCAATCT
* *
49155229 TATCTCCCTAAGCAGTAGTGGAGCT-GATCGAAGGCGACAAATCT
1 TATCTCCCTAAGCAGTAGTGGAG-TAGATCGAAGACGGC-AATCT
* * * ** ** * *
49155273 TGTCTCCCTAACCAGTAGTGGAGCAGATTTAAG-CCACCATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCAATCT
* * ** *
49155315 TATATCCCTAAGC-GATAGTGGAGTAG-GCTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAG-TAGTGGAGTAGATC-GAAGACGGCA-ATCT
* * *
49155359 TGTCTCCCTCAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGC-AATCT
* * * ** ** * *
49155403 TGTCTCCCTAAGCAGTAGTGGAGAAAATTTAAG-CCACCATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCAATCT
* * ** *
49155445 TATCTCCCTAAGCAATAGTGGAGTAG-GCTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATC-GAAGACGGCA-ATCT
* *
49155489 TGTCTTCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGC-AATCT
* * ** ** * *
49155533 TGTCTCCTTAAGCAGTAGTGGAGTAGATTTAAG-CCACCATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCAATCT
49155575 TATCTCCCTAAGCAGTAGTGGAG
1 TATCTCCCTAAGCAGTAGTGGAG
49155598 CAGGTTGAAA
Statistics
Matches: 399, Mismatches: 110, Indels: 56
0.71 0.19 0.10
Matches are distributed among these distances:
38 31 0.08
39 2 0.01
40 1 0.00
41 2 0.01
42 105 0.26
43 41 0.10
44 211 0.53
45 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCAATCT
Found at i:49155783 original size:88 final size:88
Alignment explanation
Indices: 49155611--49156251 Score: 800
Period size: 88 Copynumber: 7.4 Consensus size: 88
49155601 GTTGAAATCA
* * * *
49155611 ACAATTCTTATCTCCTTCAAGTTCCAGCGGAGTAG----AAGCTACAGAT-T-TCCTCCCTAAAA
1 ACAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAA
*
49155670 TGACATTGGAGCGGCTTGAAGCC
66 TGGCATTGGAGCGGCTTGAAGCC
*
49155693 ACAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAA
*
49155758 TGACATTGGAGCGGCTTGAAGCC
66 TGGCATTGGAGCGGCTTGAAGCC
* * *
49155781 ACAATTCTTATCTCCTTGAAGTTCCAGTGGAGTAGATTAAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAA
* *
49155846 TGGCATTGGAGCGACTCGAAGCC
66 TGGCATTGGAGCGGCTTGAAGCC
* * *
49155869 ACAATTCTTATCT-CTATGAAGTTTCAGCGGAGTAGATCAAAACTACAAATCTCTTCTCCCTGAA
1 ACAATTCTTATCTCCT-TAAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAA
*
49155933 ATGGCATTGGAGCGG-TTCGAA-CT
65 ATGGCATTGGAGCGGCTT-GAAGCC
* * * * * *
49155956 ATAATCCTTATCTCCTTAAAGTTCCAGCAGAGTAGACCGAAGCTACAAATCTCTTCTCCCTAAAA
1 ACAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAA
* * *
49156021 TGGTATTAGAGCGGCTCGAAGCC
66 TGGCATTGGAGCGGCTTGAAGCC
* * *
49156044 ACAATTCTTATCTCCTTGAAA-TTCCAGTGGAGTAGATAAAAGCTACAAATCTCTTCTCCCTAAA
1 ACAATTCTTATCTCCTT-AAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAA
*
49156108 ATGGCATTGGAGCAGCTTGAAGCC
65 ATGGCATTGGAGCGGCTTGAAGCC
* * * *
49156132 ATAATTTTTATCTCCTTGAAA-TTCCAGCGGAGTAGGTCAAAGCTGCAAATCTCTTCTCCCTGAA
1 ACAATTCTTATCTCCTT-AAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAA
* * **
49156196 ATGGCATTGGAGCAGATTGAAGAT
65 ATGGCATTGGAGCGGCTTGAAGCC
* * * *
49156220 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAG
1 ACAATTCTTATCTCCTTAAAGTTCCAGCGGAG
49156252 CAAACTGAAG
Statistics
Matches: 488, Mismatches: 58, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
82 34 0.07
86 10 0.02
87 76 0.16
88 365 0.75
89 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (88 bp):
ACAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAA
TGGCATTGGAGCGGCTTGAAGCC
Found at i:49155812 original size:44 final size:44
Alignment explanation
Indices: 49155676--49155900 Score: 150
Period size: 44 Copynumber: 5.1 Consensus size: 44
49155666 AAAATGACAT
*
49155676 TGGAGCGGCTTGAAGCCACAATTCTTATCTCCTTAAAGTTCCAG
1 TGGAGCGGCTTGAAGCCACAATTCTTATCTCCTTGAAGTTCCAG
* ** * * * * * * ** *
49155720 CGGAGTAGATCGAAGCTACAAATCTCT-TCTCCCTGAAATGACAT
1 TGGAGCGGCTTGAAGCCACAATTCT-TATCTCCTTGAAGTTCCAG
49155764 TGGAGCGGCTTGAAGCCACAATTCTTATCTCCTTGAAGTTCCAG
1 TGGAGCGGCTTGAAGCCACAATTCTTATCTCCTTGAAGTTCCAG
** * * * * * * ** *
49155808 TGGAGTAGATTAAAGCTACAAATCTCT-TCTCCCTGAAATGGCAT
1 TGGAGCGGCTTGAAGCCACAATTCT-TATCTCCTTGAAGTTCCAG
* * *
49155852 TGGAGCGACTCGAAGCCACAATTCTTATCT-CTATGAAGTTTCAG
1 TGGAGCGGCTTGAAGCCACAATTCTTATCTCCT-TGAAGTTCCAG
*
49155896 CGGAG
1 TGGAG
49155901 TAGATCAAAA
Statistics
Matches: 126, Mismatches: 50, Indels: 10
0.68 0.27 0.05
Matches are distributed among these distances:
43 3 0.02
44 121 0.96
45 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
TGGAGCGGCTTGAAGCCACAATTCTTATCTCCTTGAAGTTCCAG
Found at i:49156044 original size:263 final size:264
Alignment explanation
Indices: 49155611--49156242 Score: 854
Period size: 263 Copynumber: 2.4 Consensus size: 264
49155601 GTTGAAATCA
* * * * * *
49155611 ACAATTCTTATCTCCTTCAAGTTCCAGCGGAGTAG----AAGCTACAGAT-T-TCCTCCCTAAAA
1 ACAATTCTTATCTCCTTGAAATTCCAGCGGAGTAGATCAAAACTACAAATCTCTTCTCCCTGAAA
* * * *
49155670 TGACATTGGAGCGGCTTGAAGCCACAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAG
66 TGGCATTGGAGCGGCTTGAAGCCACAATCCTTATCTCCTTAAAGTTCCAGCAGAGTAGACCGAAG
* * *
49155735 CTACAAATCTCTTCTCCCTGAAATGACATTGGAGCGGCTTGAAGCCACAATTCTTATCTCCTTGA
131 CTACAAATCTCTTCTCCCTAAAATGACATTAGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGA
* * *
49155800 AGTTCCAGTGGAGTAGATTAAAGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGC-GACTCG
196 AATTCCAGTGGAGTAGATAAAAGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAG-CTCG
49155864 AAGCC
260 AAGCC
* *
49155869 ACAATTCTTATCT-CTATGAAGTTTCAGCGGAGTAGATCAAAACTACAAATCTCTTCTCCCTGAA
1 ACAATTCTTATCTCCT-TGAAATTCCAGCGGAGTAGATCAAAACTACAAATCTCTTCTCCCTGAA
* *
49155933 ATGGCATTGGAGCGG-TTCGAA-CTATAATCCTTATCTCCTTAAAGTTCCAGCAGAGTAGACCGA
65 ATGGCATTGGAGCGGCTT-GAAGCCACAATCCTTATCTCCTTAAAGTTCCAGCAGAGTAGACCGA
**
49155996 AGCTACAAATCTCTTCTCCCTAAAATGGTATTAGAGCGGCTCGAAGCCACAATTCTTATCTCCTT
129 AGCTACAAATCTCTTCTCCCTAAAATGACATTAGAGCGGCTCGAAGCCACAATTCTTATCTCCTT
*
49156061 GAAATTCCAGTGGAGTAGATAAAAGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTT
194 GAAATTCCAGTGGAGTAGATAAAAGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTC
49156126 GAAGCC
259 GAAGCC
* * * * *
49156132 ATAATTTTTATCTCCTTGAAATTCCAGCGGAGTAGGTCAAAGCTGCAAATCTCTTCTCCCTGAAA
1 ACAATTCTTATCTCCTTGAAATTCCAGCGGAGTAGATCAAAACTACAAATCTCTTCTCCCTGAAA
* * ** *
49156197 TGGCATTGGAGCAGATTGAAGATACAAGT-CTTATCTCCCTAAAGTT
66 TGGCATTGGAGCGGCTTGAAGCCACAA-TCCTTATCTCCTTAAAGTT
49156243 GCAGTGGAGC
Statistics
Matches: 329, Mismatches: 32, Indels: 20
0.86 0.08 0.05
Matches are distributed among these distances:
257 2 0.01
258 30 0.09
262 9 0.03
263 236 0.72
264 51 0.16
265 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (264 bp):
ACAATTCTTATCTCCTTGAAATTCCAGCGGAGTAGATCAAAACTACAAATCTCTTCTCCCTGAAA
TGGCATTGGAGCGGCTTGAAGCCACAATCCTTATCTCCTTAAAGTTCCAGCAGAGTAGACCGAAG
CTACAAATCTCTTCTCCCTAAAATGACATTAGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGA
AATTCCAGTGGAGTAGATAAAAGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTCGA
AGCC
Found at i:49156235 original size:44 final size:44
Alignment explanation
Indices: 49156186--49156439 Score: 237
Period size: 44 Copynumber: 5.8 Consensus size: 44
49156176 GCAAATCTCT
* * *
49156186 TCTCCCTGAAATGGCATTGGAGCAGATTGAAGATACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTA
* * * ** ** *
49156230 TCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGCCACAAACCTCA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTA
* * * * *
49156274 TCTCCCTGAAGTTGCAGTGGGGTAGGTTGAA-ATTATAAGTTTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAGTCTTA
* * * * *
49156318 TCTCCTTGAAGTTGCAATGGAGCAGACTT-AAGACATTAA-CCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATA-CAAGTCTTA
* *
49156362 TCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-AAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTA
*
49156405 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
49156440 GTGAATCTCA
Statistics
Matches: 163, Mismatches: 41, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
42 2 0.01
43 38 0.23
44 117 0.72
45 6 0.04
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTA
Found at i:49156462 original size:88 final size:88
Alignment explanation
Indices: 49156186--49156437 Score: 326
Period size: 88 Copynumber: 2.9 Consensus size: 88
49156176 GCAAATCTCT
* * * * * *
49156186 TCTCCCTGAAATGGCATTGGAGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
* * *
49156251 GCAAACTGAAGCCACAAACCTCA
66 GCAGACTGAAGACATAAACCTCA
* * * * * * *
49156274 TCTCCCTGAAGTTGCAGTGGGGTAGGTTGAAATTATAAGTTTTATCTCCTTGAAGTTGCAATGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
* * *
49156339 GCAGACTTAAGACATTAACCTTA
66 GCAGACTGAAGACATAAACCTCA
49156362 TCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-AAGTCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
49156426 GCAGACTGAAGA
66 GCAGACTGAAGA
49156438 TAGTGAATCT
Statistics
Matches: 138, Mismatches: 26, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
87 37 0.27
88 101 0.73
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (88 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
GCAGACTGAAGACATAAACCTCA
Found at i:49156634 original size:51 final size:51
Alignment explanation
Indices: 49156505--49156623 Score: 229
Period size: 51 Copynumber: 2.3 Consensus size: 51
49156495 GATCTTATCT
49156505 CTCTAAAGTTGCAGTAGAGCAGATCAAAGCTACAAGTTACAAGTCATATAC
1 CTCTAAAGTTGCAGTAGAGCAGATCAAAGCTACAAGTTACAAGTCATATAC
*
49156556 CTCTAAAGTTGCAGTAGAGCAGATCAAAGCTACAAGTTACAAGTCCTATAC
1 CTCTAAAGTTGCAGTAGAGCAGATCAAAGCTACAAGTTACAAGTCATATAC
49156607 CTCTAAAGTTGCAGTAG
1 CTCTAAAGTTGCAGTAG
49156624 GTCGGATCAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (51 bp):
CTCTAAAGTTGCAGTAGAGCAGATCAAAGCTACAAGTTACAAGTCATATAC
Found at i:49159187 original size:46 final size:46
Alignment explanation
Indices: 49159137--49159312 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49159127 TGGTTGAGCA
49159137 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49159183 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49159228 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49159276 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49159313 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49159293 original size:93 final size:93
Alignment explanation
Indices: 49159134--49159305 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49159124 GGATGGTTGA
* *
49159134 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49159199 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49159227 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49159292 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
49159306 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49161035 original size:18 final size:19
Alignment explanation
Indices: 49160991--49161044 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
49160981 AATTATTTTT
*
49160991 TATTTTTTATT-TATATTA
1 TATTTTTTATTATATATCA
*
49161009 TGTTATTTTATTATATA-CA
1 TATT-TTTTATTATATATCA
*
49161028 TATTTTTTAATATATAT
1 TATTTTTTATTATATAT
49161045 TATCTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 14 0.48
19 11 0.38
20 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTTATTATATATCA
Found at i:49161277 original size:20 final size:20
Alignment explanation
Indices: 49161252--49161309 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 20
49161242 AATTGTTTTG
49161252 TTATTTCTTTTTTATATCA-T-
1 TTATTT-TTTTTTATAT-ATTC
49161272 TTATTTTTTTTATATATATTC
1 TTATTTTTTTT-TATATATTC
49161293 TTATTTTATTTTTATAT
1 TTATTTT-TTTTTATAT
49161310 TCGATTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.18
20 12 0.35
21 12 0.35
22 4 0.12
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTTTTTTATATATTC
Found at i:49161460 original size:15 final size:15
Alignment explanation
Indices: 49161442--49161475 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49161432 TTTGGATTTT
*
49161442 TTTTTATTTTTATCA
1 TTTTTATTATTATCA
*
49161457 TTTTTATTATTATTA
1 TTTTTATTATTATCA
49161472 TTTT
1 TTTT
49161476 CATATTAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATTATTATCA
Found at i:49162012 original size:80 final size:80
Alignment explanation
Indices: 49161879--49162192 Score: 601
Period size: 80 Copynumber: 3.9 Consensus size: 80
49161869 GATGTGGCAT
* *
49161879 TTTATTACTTCAGGACAAGAAGGTCTTTAGCATTTGTTTCGATTTACTCAAGCAAATTCTTCATA
1 TTTATTACTTCGGGACAAGAAGGTCTTTAGCATCTGTTTCGATTTACTCAAGCAAATTCTTCATA
49161944 AAAATCAACACAAAA
66 AAAATCAACACAAAA
49161959 TTTATTACTTCGGGACAAGAAGGTCTTTAGCATCTGTTTCGATTTACTCAAGCAAATTCTTCATA
1 TTTATTACTTCGGGACAAGAAGGTCTTTAGCATCTGTTTCGATTTACTCAAGCAAATTCTTCATA
49162024 AAAATCAACACAAAA
66 AAAATCAACACAAAA
49162039 TTTATTACTTCGGGACAAGAAGGTCTTTAGCATCTGTTTCGATTTACTCAAGCAAATTCTTCATA
1 TTTATTACTTCGGGACAAGAAGGTCTTTAGCATCTGTTTCGATTTACTCAAGCAAATTCTTCATA
49162104 AAAATCAACACAAAA
66 AAAATCAACACAAAA
*
49162119 TTTATTACTTCGGGACAAGAAGGTCTTTAGCATCTGTTTCGATTTACTCAAGCAAATTCTTCGTA
1 TTTATTACTTCGGGACAAGAAGGTCTTTAGCATCTGTTTCGATTTACTCAAGCAAATTCTTCATA
49162184 AAAATCAAC
66 AAAATCAAC
49162193 GTAAAAAAGA
Statistics
Matches: 231, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 231 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (80 bp):
TTTATTACTTCGGGACAAGAAGGTCTTTAGCATCTGTTTCGATTTACTCAAGCAAATTCTTCATA
AAAATCAACACAAAA
Found at i:49169483 original size:33 final size:33
Alignment explanation
Indices: 49169441--49169518 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
49169431 GAGCCAGGAT
* * *
49169441 GAGTGGAGTACTGTAGTGGATACGAGTC-GGGAG
1 GAGTGGAGTACTGCAGTAGATAC-AGGCTGGGAG
*
49169474 GAGTGGAGTACTGCGGTAGATACAGGCTGGGAG
1 GAGTGGAGTACTGCAGTAGATACAGGCTGGGAG
49169507 GAGTGGAGTACT
1 GAGTGGAGTACT
49169519 AAGATAGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 3 0.08
33 37 0.93
ACGTcount: A:0.24, C:0.10, G:0.45, T:0.21
Consensus pattern (33 bp):
GAGTGGAGTACTGCAGTAGATACAGGCTGGGAG
Found at i:49171610 original size:16 final size:17
Alignment explanation
Indices: 49171587--49171623 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
49171577 AAAAACAAAT
49171587 AAAA-TTACATT-ATAA
1 AAAATTTACATTCATAA
49171602 AAAATTTACATTCATAA
1 AAAATTTACATTCATAA
49171619 AAAAT
1 AAAAT
49171624 CACAAAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTTACATTCATAA
Found at i:49171723 original size:104 final size:103
Alignment explanation
Indices: 49171600--49172116 Score: 617
Period size: 104 Copynumber: 5.0 Consensus size: 103
49171590 ATTACATTAT
* * *
49171600 AAAAAATTTACATTCATAAAAAATCACAAAACAGTAAACT-AAACACTAACAATTTCTAAACTAA
1 AAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAAACAC-AACAATTTATAAACTAA
49171664 TCATAAATTACTAACAAAATAACTATAAAATAATTTTAA
65 TCATAAATTACTAACAAAATAACTATAAAATAATTTTAA
* * * * *
49171703 AAATAAATTTACATTCATAAAAAATCACAAAACGCTAAACT-AAACACAAAAATTAATAACCTAA
1 AAA-AAATTTACATTAATAAAAAATCACAAAACACTAAACTAAAACACAACAATTTATAAACTAA
*
49171767 TTATAAATTACTAACAAAATAACTATAAAATAATTTTAAA
65 TCATAAATTACTAACAAAATAACTATAAAATAATTTT-AA
* * *
49171807 AAATAAATTTACATTAATAAAAAATCACAAAATACTAAACTGAAA-ACAACAATTTATAACCTAA
1 AAA-AAATTTACATTAATAAAAAATCACAAAACACTAAACTAAAACACAACAATTTATAAACTAA
* * *
49171871 TCATAATTTATTAACAAAATAACTATAAAGTAA-TTT-A
65 TCATAAATTACTAACAAAATAACTATAAAATAATTTTAA
* *
49171908 AAAAAA-TTACATTAATAAAAATTCACAAAACACTAAACTAAAACATCAAACAAATTAT-AACAT
1 AAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAAACA-C-AACAATTTATAAAC-T
* *
49171971 AATCATAAATTACTAACAAAATAATTTTAAAATAA-TTT--
63 AATCATAAATTACTAACAAAATAACTATAAAATAATTTTAA
* * * * * *
49172009 AAAAAATTGA-ATTAATAAAAATTCACAAAATACTAAGCTAAAACACAAAGAAATTAT-AACATA
1 AAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAAACAC-AACAATTTATAAAC-TA
* * *
49172072 ATCATAAATTACTAACAAAATAATTTTAAAATAATTGTAA
64 ATCATAAATTACTAACAAAATAACTATAAAATAATTTTAA
49172112 AAAAA
1 AAAAA
49172117 TAAAAAAATT
Statistics
Matches: 372, Mismatches: 31, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
99 34 0.09
100 55 0.15
101 48 0.13
102 45 0.12
103 60 0.16
104 127 0.34
105 3 0.01
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (103 bp):
AAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAAACACAACAATTTATAAACTAAT
CATAAATTACTAACAAAATAACTATAAAATAATTTTAA
Found at i:49173151 original size:13 final size:14
Alignment explanation
Indices: 49173133--49173161 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
49173123 AATTGTTTTA
49173133 AAGGTTAA-TTAGT
1 AAGGTTAATTTAGT
49173146 AAGGTTAATTTAGT
1 AAGGTTAATTTAGT
49173160 AA
1 AA
49173162 TTAATAAATA
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:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (14 bp):
AAGGTTAATTTAGT
Found at i:49174045 original size:49 final size:49
Alignment explanation
Indices: 49173953--49174046 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
49173943 TATATATGGT
* *
49173953 ACTTAGTGTGCAATTCGACATAGCTTCGGCTATATATGGCACTTATGAC
1 ACTTAGTGTGCAATTCGACATAGCTTCGGCTATATACGACACTTATGAC
* * * *
49174002 ACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTACGACACTTA
1 ACTTAGTGTGCAATTCGACATAGCTTCGGCTATATACGACACTTA
49174047 GTGTGTGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (49 bp):
ACTTAGTGTGCAATTCGACATAGCTTCGGCTATATACGACACTTATGAC
Found at i:49177327 original size:45 final size:43
Alignment explanation
Indices: 49177216--49177332 Score: 139
Period size: 42 Copynumber: 2.7 Consensus size: 43
49177206 CGGGCTTCGG
*
49177216 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * * *
49177259 -CTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTTGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
*
49177303 GCCTAGCAGGCTATAATGTCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
49177333 AATGTTATGT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 2 0.03
44 7 0.12
45 23 0.38
46 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:49177670 original size:38 final size:37
Alignment explanation
Indices: 49177619--49177717 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 37
49177609 TTAAAGACCG
* *
49177619 CAGGCTATGTGCTGGAATTATATCTGGGTGAAATCCCA
1 CAGGCT-TGTGCTGGTATTATATCCGGGTGAAATCCCA
* **
49177657 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTG
1 CAGGCTT-GTGCTGGTATTATATCCGGGTGAAATCCCA
*
49177695 CAGGCCTAGTGCTGGTATTATAT
1 CAGG-CTTGTGCTGGTATTATAT
49177718 TTGAGCCTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 50 0.94
39 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (37 bp):
CAGGCTTGTGCTGGTATTATATCCGGGTGAAATCCCA
Found at i:49177780 original size:45 final size:45
Alignment explanation
Indices: 49177728--49177840 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
49177718 TTGAGCCTTT
*
49177728 GAGCCTAGCAGGCTATTATGCCGGTGAGACACTATTCGGGCCTGT-
1 GAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGG-CTGTC
* * * *
49177773 GGGCCTAGCAGGCTATAATGCCAGTGAGATACTATTCGGGCTTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCTGTC
49177818 GAGCCTAGCAGGCTATAATGCCG
1 GAGCCTAGCAGGCTATAATGCCG
49177841 ATGAAATGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 3 0.05
45 57 0.95
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (45 bp):
GAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCTGTC
Found at i:49178968 original size:96 final size:95
Alignment explanation
Indices: 49178837--49179028 Score: 330
Period size: 96 Copynumber: 2.0 Consensus size: 95
49178827 TGGTTGATAT
* * *
49178837 TTTGAGTCCATAATGGATATGTGAATGCCTTATATTATGTAGTTTGTGGAATTGATATCATGCTT
1 TTTGAGTCCAAAATGGATATGTGAATGACTTATATTATGTAGTTTATGGAATTGATATCATGCTT
*
49178902 ATGAATTGGTGCAAAATGATGCATGATAGG
66 ATAAATTGGTGCAAAATGATGCATGATAGG
49178932 TTTGAGTCCAAAAATGGATATGTGAATGACTTATATTATGTAGTTTATGGAATTGATATCATGCT
1 TTTGAGTCC-AAAATGGATATGTGAATGACTTATATTATGTAGTTTATGGAATTGATATCATGCT
*
49178997 TATAAATTGGTGCAAAATGATGTATGATAGG
65 TATAAATTGGTGCAAAATGATGCATGATAGG
49179028 T
1 T
49179029 AAGAATTTAA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
95 9 0.10
96 82 0.90
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (95 bp):
TTTGAGTCCAAAATGGATATGTGAATGACTTATATTATGTAGTTTATGGAATTGATATCATGCTT
ATAAATTGGTGCAAAATGATGCATGATAGG
Found at i:49179507 original size:12 final size:12
Alignment explanation
Indices: 49179490--49179517 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
49179480 ACAGGTTTGG
49179490 CACGGCCTAGCA
1 CACGGCCTAGCA
49179502 CACGGCCTAGCA
1 CACGGCCTAGCA
49179514 CACG
1 CACG
49179518 AGCGTGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.43, G:0.25, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:49181966 original size:40 final size:40
Alignment explanation
Indices: 49181906--49182156 Score: 269
Period size: 40 Copynumber: 6.3 Consensus size: 40
49181896 ATTTGAATGA
* *
49181906 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
49181946 TATCCGGGTTAAGACACGAAGGCGTTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
49181986 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
49182026 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
49182066 TATCCGGACTAAGATCCGAAGGCATTTGTG-T-GTG-TTACT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT--T
* * * * *
49182105 AAATCCGGGCTAAGACCCGAAGGCATTTGTCCTTGTGGTTA
1 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
49182146 TATCC-GGCTAA
1 TATCCGGGCTAA
49182157 ATTCCGAAGA
Statistics
Matches: 175, Mismatches: 28, Indels: 17
0.80 0.13 0.08
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 10 0.06
40 152 0.87
41 3 0.02
42 3 0.02
43 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:49182039 original size:80 final size:80
Alignment explanation
Indices: 49181906--49182156 Score: 299
Period size: 80 Copynumber: 3.1 Consensus size: 80
49181896 ATTTGAATGA
* * * * * * *
49181906 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTATCCGGGTTAAGACACGAAGGCG
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGTTAAGACCCGAAGGCA
49181970 TTTGTGCTAGTGATTT
65 TTTGTGCTAGTGATTT
* *
49181986 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAGGCAT
49182051 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * * * * * *
49182066 TATCCGGACTAAGATCCGAAGGCATTTGTGTGTGTTACTAAATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAGGCAT
* * * *
49182131 TTGTCCTTGTGGTTA
66 TTGTGCTAGTGATTT
49182146 TATCC-GGCTAA
1 TATCCGGGCTAA
49182157 ATTCCGAAGA
Statistics
Matches: 147, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 5 0.03
80 140 0.95
81 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAGGCAT
TTGTGCTAGTGATTT
Found at i:49182122 original size:120 final size:120
Alignment explanation
Indices: 49181909--49182134 Score: 316
Period size: 120 Copynumber: 1.9 Consensus size: 120
49181899 TGAATGATAT
* * ** *
49181909 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACACGAAGGCGTTTG
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTTTATCCGGACTAAGACACGAAGGCATTTG
*
49181974 TGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCTAGTGATTTAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
* *
49182029 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATC-CGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTTTATCCGGACTAAGA-CACGAAGGCATTT
49182093 GTG-T-GTG-TTACTAAATCCGGGCTAAGACCCGAAGGCATTTGT
65 GTGCTAGTGATT--T-AATCCGGGCTAAGACCCGAAGGCATTTGT
49182135 CCTTGTGGTT
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
117 2 0.02
118 3 0.03
119 2 0.02
120 86 0.91
121 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTTTATCCGGACTAAGACACGAAGGCATTTG
TGCTAGTGATTTAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
Found at i:49183508 original size:18 final size:18
Alignment explanation
Indices: 49183485--49183526 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
49183475 GAAGAGAGTC
49183485 ACCTGAGAATTCTTTTAG
1 ACCTGAGAATTCTTTTAG
49183503 ACCTGAGAATTCTTTTAG
1 ACCTGAGAATTCTTTTAG
49183521 A-CTGAG
1 ACCTGAG
49183527 TTTCGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (18 bp):
ACCTGAGAATTCTTTTAG
Found at i:49185551 original size:40 final size:40
Alignment explanation
Indices: 49185500--49185648 Score: 169
Period size: 40 Copynumber: 3.7 Consensus size: 40
49185490 CGGATGATAT
* * *
49185500 CCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGACTAAG-TCCCGAAGGCATTCGTGCTAGTTATTATAA
49185540 CCGGACTAAGAT-CCGAAGGCAATT-GTGCTAGTTATTATAA
1 CCGGACTAAG-TCCCGAAGGC-ATTCGTGCTAGTTATTATAA
** **
49185580 CCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAA
1 CCGGACTAAGTCCCGAAGGCATTCGTGCTAGTTATTATAA
**
49185620 CCGGGTTAAGTCCCGAAGGCATTCGTGCT
1 CCGGACTAAGTCCCGAAGGCATTCGTGCT
49185649 GGTTGTTACA
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
39 4 0.04
40 92 0.93
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGACTAAGTCCCGAAGGCATTCGTGCTAGTTATTATAA
Found at i:49196078 original size:40 final size:40
Alignment explanation
Indices: 49196016--49196098 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
49196006 TATTTGGATG
* * *
49196016 ATATCCGGACTCAGATCTGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
* *
49196056 ATATTCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
49196096 ATA
1 ATA
49196099 ATTGGGTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:49196116 original size:40 final size:41
Alignment explanation
Indices: 49196072--49196283 Score: 254
Period size: 40 Copynumber: 5.3 Consensus size: 41
49196062 GGACTAAGAT
** **
49196072 CCGAAGGCAATT-GTGCTAGTTATTATAATTGGGTTAAGTC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
49196112 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
49196152 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
* *
49196192 CGGAAGG-TATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
* * * * * * * *
49196232 CCAAAGGC-ATTTGTGCTGGTTGTTACATCCGGGCTAAATC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
49196272 CCGAAGGTAATT
1 CCGAAGGCAATT
49196284 GGGTTGGAAA
Statistics
Matches: 152, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 146 0.96
41 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (41 bp):
CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:49198675 original size:18 final size:18
Alignment explanation
Indices: 49198652--49198693 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
49198642 TGGGTAGGCT
49198652 GTGTGGTCAC-ACACGCTC
1 GTGTGG-CACGACACGCTC
49198670 GTGTGGCACGGGACACGCTC
1 GTGTGGCAC--GACACGCTC
49198690 GTGT
1 GTGT
49198694 CCTCAGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.14
18 6 0.29
20 12 0.57
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (18 bp):
GTGTGGCACGACACGCTC
Found at i:49208097 original size:43 final size:42
Alignment explanation
Indices: 49208010--49208100 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 42
49208000 AACTCATACA
* * * ** *
49208010 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATATCCCAGACAGGGTCTTACACGAAATCACATAACG
49208052 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCGA-ATAACG
1 ATGCCA-TATCCCAGACAGGGTCTTACACGAAATC-ACATAACG
49208095 ATGCCA
1 ATGCCA
49208101 ATGTCCCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 6 0.15
43 34 0.83
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCATATCCCAGACAGGGTCTTACACGAAATCACATAACG
Found at i:49215034 original size:15 final size:15
Alignment explanation
Indices: 49215016--49215048 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
49215006 TGGATTCTCG
49215016 TATCATGGATTTCTT
1 TATCATGGATTTCTT
*
49215031 TATCTTGGATTTCTT
1 TATCATGGATTTCTT
49215046 TAT
1 TAT
49215049 TCTGGGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (15 bp):
TATCATGGATTTCTT
Found at i:49217908 original size:51 final size:50
Alignment explanation
Indices: 49217790--49218018 Score: 268
Period size: 49 Copynumber: 4.6 Consensus size: 50
49217780 ATTGTGAGGC
* *
49217790 CACGTGTGTAGTACTAAGTGCCGGCTACTACGTGTAC-CGGATAATTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAATTGGT
* * * * *
49217839 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAA-TT-GGT
**
49217890 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAATT-GGT
* * *
49217940 CATGTGTGTAGTACTAAGTGGAGGCTACTACATGTAC-CAGATAATTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAATTGGT
***
49217989 CGTATGTGTAGTACTAAGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
49218019 TGCATACTAG
Statistics
Matches: 153, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 67 0.44
50 49 0.32
51 37 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAATTGGT
Found at i:49228460 original size:47 final size:45
Alignment explanation
Indices: 49228385--49228616 Score: 152
Period size: 47 Copynumber: 5.0 Consensus size: 45
49228375 ATTTGAGTGT
* * *
49228385 GAGCTAGTGTAAGACATGTCTAGGACATGCATGGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATGA
* *
49228431 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT---ATGA
* *
49228479 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-AC-ATTATGA
* * * * *
49228525 TAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTGGAGA-TAT--
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG---GCACATTATGA
* * *
49228572 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCAGTACATTAT
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATTAT
49228617 CCACGTCTGA
Statistics
Matches: 148, Mismatches: 23, Indels: 31
0.73 0.11 0.15
Matches are distributed among these distances:
44 3 0.02
45 7 0.05
46 33 0.22
47 71 0.48
48 27 0.18
49 4 0.03
50 2 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATTATGA
Found at i:49228550 original size:94 final size:93
Alignment explanation
Indices: 49228384--49228606 Score: 270
Period size: 94 Copynumber: 2.4 Consensus size: 93
49228374 CATTTGAGTG
* * *
49228384 TGAGCTAGTGTAAGACATGTCTAGGACATGCATGGGCCACATTATGAGAGCCACTGTAAGACCAT
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCACTGTAAGACCAT
* *
49228449 GTCTGGGACATGGCATCGGCATTGAGACGA
66 GTCTGGGACATGGCATCGAC-TGGAGA-GA
* * * *
49228479 -GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCA
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCACTGTAAGACCA
* *
49228542 TGTTTGGGACATGGCATCGACTGGAGATA
65 TGTCTGGGACATGGCATCGACTGGAGAGA
* *
49228571 TGAGCCAGTGTAAGACCATGTCTGGGATATGGCATC
1 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
49228607 AGTACATTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 18 0.16
94 86 0.77
95 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (93 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCACTGTAAGACCAT
GTCTGGGACATGGCATCGACTGGAGAGA
Found at i:49231089 original size:48 final size:47
Alignment explanation
Indices: 49230991--49231400 Score: 242
Period size: 47 Copynumber: 8.7 Consensus size: 47
49230981 TTTGTGTGCC
* *
49230991 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-A-TGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGAGAGAGCT
*
49231037 AGTGTAAGACCATGTCTGGGACATGGGATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-GAGAGCT
* * *
49231085 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-G-AGAGCT
* ** *
49231131 AGTGTAAGA-CATGTCTGGGACATGTC-TCGGC-TACA-AGATGTATC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGA-G-AGCT
* * * * *
49231175 GGTGTAAGACCATGCCTGGGACATCGCATCGACACGTAT-AGAG-GTG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGAGAGAGCT
* ** * *
49231222 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGAT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-GAGAGAGCT
* ** * ** * *
49231273 AGTGTAAGACCATGTGTGGGACATGGTGTCGGCCTTGATTTCGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GAGAGAGCT
* ** *
49231322 AGTGTAAGACCATGTCTAGGACATGGCATCAAC-TTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAGA-GAGCT
49231369 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
49231401 TATTATACCC
Statistics
Matches: 283, Mismatches: 54, Indels: 53
0.73 0.14 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 9 0.03
45 22 0.08
46 60 0.21
47 61 0.22
48 57 0.20
49 37 0.13
50 34 0.12
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGAGAGCT
Found at i:49231161 original size:46 final size:46
Alignment explanation
Indices: 49230991--49231154 Score: 206
Period size: 46 Copynumber: 3.5 Consensus size: 46
49230981 TTTGTGTGCC
* * *
49230991 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCT
* * * *
49231037 AGTGTAAGACCATGTCTGGGACATGGGATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCT
*
49231085 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCT
49231131 AGTGTAAGACATGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
49231155 TCTCGGCTAC
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
46 49 0.49
47 28 0.28
48 23 0.23
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCT
Found at i:49231170 original size:46 final size:46
Alignment explanation
Indices: 49230991--49231205 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 46
49230981 TTTGTGTGCC
* ** *
49230991 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCT
* ** *
49231037 AGTGTAAGACCATGTCTGGGACATGGGATCGGC-ATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGATGAGAGCT
* *
49231085 AGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATG-AGAGCT
* *
49231131 AGTGTAAGACATGTCTGGGACATGTC-TCGGCTACAAGATG-TATC-
1 AGTGTAAGACATGTCTGGGACATG-CATCGGCTACAAGATGAGAGCT
* *
49231175 GGTGTAAGACCATGCCTGGGACATCGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
49231206 ACACGTATAG
Statistics
Matches: 141, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
44 8 0.06
45 18 0.13
46 61 0.43
47 31 0.22
48 23 0.16
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCT
Found at i:49231301 original size:24 final size:24
Alignment explanation
Indices: 49231224--49231301 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
49231214 AGAGGTGTCA
*
49231224 GTGTAAGACCATGTCTGGGACATG
1 GTGTAAGACCATGTGTGGGACATG
** * * * * * *
49231248 GCATCAGCACGGATATGTGAGAGATA
1 GTGTAAG-AC-CATGTGTGGGACATG
49231274 GTGTAAGACCATGTGTGGGACATG
1 GTGTAAGACCATGTGTGGGACATG
49231298 GTGT
1 GTGT
49231302 CGGCCTTGAT
Statistics
Matches: 35, Mismatches: 17, Indels: 4
0.62 0.30 0.07
Matches are distributed among these distances:
24 18 0.51
25 4 0.11
26 13 0.37
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (24 bp):
GTGTAAGACCATGTGTGGGACATG
Found at i:49239215 original size:16 final size:15
Alignment explanation
Indices: 49239191--49239220 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
49239181 AACTGTTTTA
49239191 TTACAAATTTCACTC
1 TTACAAATTTCACTC
49239206 TTACATAATTTCACT
1 TTACA-AATTTCACT
49239221 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:49239544 original size:50 final size:50
Alignment explanation
Indices: 49239425--49239713 Score: 285
Period size: 50 Copynumber: 5.7 Consensus size: 50
49239415 AAGCTATGTA
* * * *
49239425 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
49239474 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
* * * * * *** *
49239524 ATACACGTAGTAGCTTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACAT-AA-CCATCTG
* * * *
49239575 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
* * * * *
49239625 GTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAAAACCATCTT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-ATAACCATCTG
** * * *
49239677 AAACAAATAGTAGCCTACACATAGTACTACACATGTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTG
49239714 TTCTCACAAT
Statistics
Matches: 194, Mismatches: 40, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
49 38 0.20
50 81 0.42
51 38 0.20
52 37 0.19
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
Found at i:49239605 original size:101 final size:101
Alignment explanation
Indices: 49239473--49239662 Score: 317
Period size: 101 Copynumber: 1.9 Consensus size: 101
49239463 CCAACAATCT
*
49239473 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACATAACCATCTGATACACGTAGTAGC
* *
49239538 TTGCACTTAGTACTACACACGTGATTGAAGTTGTCG
66 CTGCACTTAATACTACACACGTGATTGAAGTTGTCG
* * * *
49239574 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACATAACCATCTGATACACGTAGTAGC
49239639 CTGCACTTAATACTACACACGTGA
66 CTGCACTTAATACTACACACGTGA
49239663 CCTAAAACCA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACATAACCATCTGATACACGTAGTAGC
CTGCACTTAATACTACACACGTGATTGAAGTTGTCG
Found at i:49249921 original size:50 final size:50
Alignment explanation
Indices: 49249846--49250081 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
49249836 TAAGATGGGT
** *
49249846 TTAGGTCATGTGTGTAATACTAAGTGCAAGCTACTACGTGTACTAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAG
* * * * * * * * *
49249896 TTAGGTCGCATGTGCAGAACTAAGTGCAGGCTACTATGCGTACTCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGA-TAG
* * *
49249947 TTCA-ATCACATGTGTAGTACTAAGTG-TAGACTACTACGTGTA-TCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAAG-CTACTACGTGTACT-AGATAG
* ** *
49249997 TTAGGTCACATGTGTAGTACTAATTGC-AGACTACTACGTGTACCGGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAAG-CTACTACGTGTACTAGATAG
49250047 TT-GGTCACATGTGTAGTACTAAGTGCAAGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTA
49250082 TGCGTATCAG
Statistics
Matches: 148, Mismatches: 30, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
49 30 0.20
50 84 0.57
51 33 0.22
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAG
Found at i:49250587 original size:27 final size:27
Alignment explanation
Indices: 49250553--49250608 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
49250543 CATAATGAGT
49250553 ATATTTTTAATAGAAACATATGGGAAC
1 ATATTTTTAATAGAAACATATGGGAAC
49250580 ATATTTTTAATAGAAACATATGGGAAC
1 ATATTTTTAATAGAAACATATGGGAAC
49250607 AT
1 AT
49250609 TAATCAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (27 bp):
ATATTTTTAATAGAAACATATGGGAAC
Found at i:49254225 original size:200 final size:200
Alignment explanation
Indices: 49253882--49254281 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
49253872 TTCAAAATAT
*
49253882 CATGATAACCGAGCAAAGCTTCCGCAACGTAAATGTTTTCAAAGGAAATAAATATTTTAAATAGA
1 CATGATAACCGAGCAAAGCTTCCACAACGTAAATGTTTTCAAAGGAAATAAATATTTTAAATAGA
49253947 CTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAGTGTGGCAATGGATGTGTTCAT
66 CTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAGTGTGGCAATGGATGTGTTCAT
49254012 GTCTAGGATTGGATCATGGAAGAGCTAGGTACTGAAGCAGTCTAATTGACTCACCTCCTCTTTTC
131 GTCTAGGATTGGATCATGGAAGAGCTAGGTACTGAAGCAGTCTAATTGACTCACCTCCTCTTTTC
49254077 TTGAA
196 TTGAA
49254082 CATGATAACCGAGCAAAGCTTCCACAACGTAAATGTTTTCAAAGGAAATAAATATTTTAAATAGA
1 CATGATAACCGAGCAAAGCTTCCACAACGTAAATGTTTTCAAAGGAAATAAATATTTTAAATAGA
49254147 CTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAGTGTGGCAATGGATGTGTTCAT
66 CTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAGTGTGGCAATGGATGTGTTCAT
49254212 GTCTAGGATTGGATCATGGAAGAGCTAGGTACTGAAGCAGTCTAATTGACTCACCTCCTCTTTTC
131 GTCTAGGATTGGATCATGGAAGAGCTAGGTACTGAAGCAGTCTAATTGACTCACCTCCTCTTTTC
49254277 TTGAA
196 TTGAA
49254282 TCCTACATGG
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (200 bp):
CATGATAACCGAGCAAAGCTTCCACAACGTAAATGTTTTCAAAGGAAATAAATATTTTAAATAGA
CTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAGTGTGGCAATGGATGTGTTCAT
GTCTAGGATTGGATCATGGAAGAGCTAGGTACTGAAGCAGTCTAATTGACTCACCTCCTCTTTTC
TTGAA
Found at i:49255783 original size:72 final size:72
Alignment explanation
Indices: 49255697--49255841 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
49255687 TATATTGTAC
49255697 GACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAAC
1 GACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAAC
49255762 CGTTCTG
66 CGTTCTG
*
49255769 GACCCGTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAAC
1 GACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAAC
49255834 CGTTCTG
66 CGTTCTG
49255841 G
1 G
49255842 CCCTGTCCCA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (72 bp):
GACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAAC
CGTTCTG
Found at i:49256519 original size:122 final size:122
Alignment explanation
Indices: 49256377--49256622 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
49256367 ATTTACTCCA
*
49256377 TCCATACCGAACCATACCATAGTTCATCCAACTTATCAATTCAATTTCATATCAATTCATGCATT
1 TCCATACCGAAACATACCATAGTTCATCCAACTTATCAATTCAATTTCATATCAATTCATGCATT
49256442 CACATTCTATATACTCATCAATAGGACATTGAAGCAATTTCATAAATCGATTTATTT
66 CACATTCTATATACTCATCAATAGGACATTGAAGCAATTTCATAAATCGATTTATTT
49256499 TCCATACCGAAACATACCATAGTTCATCCAACTTATCAATTCAATTTCATATCAATTCATGCATT
1 TCCATACCGAAACATACCATAGTTCATCCAACTTATCAATTCAATTTCATATCAATTCATGCATT
49256564 CACATTCTATATACTCATCAATAGGACATTGAAGCAATTTCATAAATCGATTTATTT
66 CACATTCTATATACTCATCAATAGGACATTGAAGCAATTTCATAAATCGATTTATTT
49256621 TC
1 TC
49256623 GTTACAATCA
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (122 bp):
TCCATACCGAAACATACCATAGTTCATCCAACTTATCAATTCAATTTCATATCAATTCATGCATT
CACATTCTATATACTCATCAATAGGACATTGAAGCAATTTCATAAATCGATTTATTT
Found at i:49256883 original size:27 final size:27
Alignment explanation
Indices: 49256853--49257030 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 27
49256843 ATATTGAGCC
*
49256853 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* * *
49256880 CGCACACTTAGTGCCATGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
* *
49256907 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTATATAATCA-ACT
*** ** *
49256935 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACT
* **
49256962 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT-ATAATCAACT
* * * * *
49256989 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
*
49257016 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
49257031 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49256992 original size:82 final size:81
Alignment explanation
Indices: 49256874--49257029 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
49256864 TGCTATATAA
* * * *
49256874 TCAACTCGCACACTTAGTGCCATGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCATATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
49256939 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49256956 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCAT-ATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
49257020 CCCTTAGTGC
65 CACTTAGTGC
49257030 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCATATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49257013 original size:54 final size:55
Alignment explanation
Indices: 49256853--49257030 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 55
49256843 ATATTGAGCC
* * * * * ** *
49256853 CGCACACTCAGTGCTATATAATCA-ACTCGCACACTTAGTGCCATGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
* ** * *
49256907 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
* **
49256962 CGCACACTTAGTGC-ATCATATTCA-TTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
*
49257016 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
49257031 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 58 0.56
55 45 0.44
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
Found at i:49268783 original size:50 final size:50
Alignment explanation
Indices: 49268708--49268943 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
49268698 TAAGATGGGT
** *
49268708 TTAGGTCATGTGTGTAATACTAAGTGCAAGCTACTACGTGTACTAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAG
* * * * * * * * *
49268758 TTAGGTCGCATGTGCAGAACTAAGTGCAGGCTACTATGCGTACTCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGA-TAG
* * *
49268809 TTCA-ATCACATGTGTAGTACTAAGTG-TAGACTACTACGTGTA-TCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAAG-CTACTACGTGTACT-AGATAG
* ** *
49268859 TTAGGTCACATGTGTAGTACTAATTGC-AGACTACTACGTGTACCGGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAAG-CTACTACGTGTACTAGATAG
49268909 TT-GGTCACATGTGTAGTACTAAGTGCAAGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTA
49268944 TGCGTATCAG
Statistics
Matches: 148, Mismatches: 30, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
49 30 0.20
50 84 0.57
51 33 0.22
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAG
Found at i:49269449 original size:27 final size:27
Alignment explanation
Indices: 49269415--49269470 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
49269405 CATAATGAGT
49269415 ATATTTTTAATAGAAACATATGGGAAC
1 ATATTTTTAATAGAAACATATGGGAAC
49269442 ATATTTTTAATAGAAACATATGGGAAC
1 ATATTTTTAATAGAAACATATGGGAAC
49269469 AT
1 AT
49269471 TAATCAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (27 bp):
ATATTTTTAATAGAAACATATGGGAAC
Found at i:49270297 original size:27 final size:26
Alignment explanation
Indices: 49270249--49270308 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
49270239 GCGAGGCTGC
*
49270249 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
49270276 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
49270302 CAGATAT
1 CAGATAT
49270309 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49277744 original size:27 final size:26
Alignment explanation
Indices: 49277696--49277755 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
49277686 ACGAGGCTGC
*
49277696 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
49277723 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
49277749 CAGATAT
1 CAGATAT
49277756 ATACATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49280988 original size:16 final size:15
Alignment explanation
Indices: 49280964--49280993 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
49280954 AACTGTTTTA
49280964 TTACAAATTTCACTC
1 TTACAAATTTCACTC
49280979 TTACATAATTTCACT
1 TTACA-AATTTCACT
49280994 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:49281317 original size:50 final size:50
Alignment explanation
Indices: 49281198--49281486 Score: 285
Period size: 50 Copynumber: 5.7 Consensus size: 50
49281188 AAGCTATGTA
* * * *
49281198 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
49281247 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
* * * * * *** *
49281297 ATACACGTAGTAGCTTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACAT-AA-CCATCTG
* * * *
49281348 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
* * * * *
49281398 GTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAAAACCATCTT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-ATAACCATCTG
** * * *
49281450 AAACAAATAGTAGCCTACACATAGTACTACACATGTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTG
49281487 TTCTCACAAT
Statistics
Matches: 194, Mismatches: 40, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
49 38 0.20
50 81 0.42
51 38 0.20
52 37 0.19
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTG
Found at i:49281378 original size:101 final size:101
Alignment explanation
Indices: 49281246--49281435 Score: 317
Period size: 101 Copynumber: 1.9 Consensus size: 101
49281236 CCAACAATCT
*
49281246 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACATAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACATAACCATCTGATACACGTAGTAGC
* *
49281311 TTGCACTTAGTACTACACACGTGATTGAAGTTGTCG
66 CTGCACTTAATACTACACACGTGATTGAAGTTGTCG
* * * *
49281347 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACATAACCATCTGATACACGTAGTAGC
49281412 CTGCACTTAATACTACACACGTGA
66 CTGCACTTAATACTACACACGTGA
49281436 CCTAAAACCA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACATAACCATCTGATACACGTAGTAGC
CTGCACTTAATACTACACACGTGATTGAAGTTGTCG
Found at i:49286733 original size:124 final size:124
Alignment explanation
Indices: 49286513--49286762 Score: 482
Period size: 124 Copynumber: 2.0 Consensus size: 124
49286503 CTTGCATACA
49286513 CGAATATGTCTGTTCTGTTTTGGAATGGGCCTATGGGCCATACTGTTATCTAAAAAGGTACTAAG
1 CGAATATGTCTGTTCTGTTTTGGAATGGGCCTATGGGCCATACTGTTATCTAAAAAGGTACTAAG
49286578 GCCCAGTTTATTGTATTCTGAAAAGGGCTTCGGCCCAGTACCCGCTGTTATCTGAATAG
66 GCCCAGTTTATTGTATTCTGAAAAGGGCTTCGGCCCAGTACCCGCTGTTATCTGAATAG
*
49286637 CGAATATGTCTGTTCTGTTTTGGAATGGGCCTATGGGCCATACTGTTATCTAAAAAGGTGCTAAG
1 CGAATATGTCTGTTCTGTTTTGGAATGGGCCTATGGGCCATACTGTTATCTAAAAAGGTACTAAG
*
49286702 GCCTAGTTTATTGTATTCTGAAAAGGGCTTCGGCCCAGTACCCGCTGTTATCTGAATAG
66 GCCCAGTTTATTGTATTCTGAAAAGGGCTTCGGCCCAGTACCCGCTGTTATCTGAATAG
49286761 CG
1 CG
49286763 CTTAGGCCCA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (124 bp):
CGAATATGTCTGTTCTGTTTTGGAATGGGCCTATGGGCCATACTGTTATCTAAAAAGGTACTAAG
GCCCAGTTTATTGTATTCTGAAAAGGGCTTCGGCCCAGTACCCGCTGTTATCTGAATAG
Found at i:49302384 original size:31 final size:31
Alignment explanation
Indices: 49302346--49302407 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
49302336 GTTAGGAGAC
*
49302346 TGCAGTTAATCCGTGCTCCAAACACTCTTAG
1 TGCAGTTAATCCGCGCTCCAAACACTCTTAG
49302377 TGCAGTTAATCCGCGCTCCAAACACTCTTAG
1 TGCAGTTAATCCGCGCTCCAAACACTCTTAG
49302408 CTGACGTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (31 bp):
TGCAGTTAATCCGCGCTCCAAACACTCTTAG
Found at i:49308001 original size:20 final size:20
Alignment explanation
Indices: 49307972--49308017 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
49307962 ATTTTGTACG
* *
49307972 TTGGCTTATTTTCTCTATTT
1 TTGGCCTATTTTCTCCATTT
*
49307992 TTGGCCTATTTTCTCCGTTT
1 TTGGCCTATTTTCTCCATTT
49308012 TTGGCC
1 TTGGCC
49308018 CGTTTCTCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.07, C:0.22, G:0.15, T:0.57
Consensus pattern (20 bp):
TTGGCCTATTTTCTCCATTT
Found at i:49320250 original size:20 final size:20
Alignment explanation
Indices: 49320219--49320256 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49320209 AAAGTAAGTA
49320219 AAATGAAAAGTAATGAAATGC
1 AAATGAAAAGTAAT-AAATGC
49320240 AAATG-AAAGTAATAAAT
1 AAATGAAAAGTAATAAAT
49320257 TTTGAAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.16, T:0.21
Consensus pattern (20 bp):
AAATGAAAAGTAATAAATGC
Found at i:49322011 original size:48 final size:48
Alignment explanation
Indices: 49321943--49322114 Score: 201
Period size: 48 Copynumber: 3.7 Consensus size: 48
49321933 ATATCTATGT
**
49321943 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAAACCTCTATACGTGC
* * **
49321991 CGATGCCATGCCCCAAACATGGTCTTACAAAGAAACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAAACCTCTATACGTGC
* * * *
49322039 CGATGCCATGTCCCGGACATGGTCTTACACTGACACATC---GCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAAACCTCTATACGT-GC
*
49322085 CGATG-CATGTCCCAGACAT-GTCTTATACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
49322115 GCTCTCATCT
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
44 10 0.09
45 16 0.15
46 7 0.07
48 74 0.69
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGAAACCTCTATACGTGC
Found at i:49326703 original size:40 final size:40
Alignment explanation
Indices: 49326629--49326839 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
49326619 TCTTTGGGAT
** * *
49326629 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * *
49326667 TTAGCCCGGATATGGTCACTAGCATAACTGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
49326707 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
49326747 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
49326787 TTAGTCCAGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
49326827 TTAGCTCGGATAT
1 TTAGCCCGGATAT
49326840 CATTCGAATA
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 122 0.85
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:49334923 original size:40 final size:40
Alignment explanation
Indices: 49334840--49335059 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
49334830 ACCCAAGTAT
** * *
49334840 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
49334878 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
49334918 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
49334958 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * * * *
49334998 CTTCGGATCTTAGTCCGGATCTAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
49335038 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
49335060 CATTCGAATA
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 123 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:49336633 original size:40 final size:40
Alignment explanation
Indices: 49336588--49336775 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
49336578 GCAAACACAT
** * * *
49336588 TTGCCTTCTTGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
49336628 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
49336668 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49336708 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49336748 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
49336776 TCCAATGCTC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:49345352 original size:40 final size:40
Alignment explanation
Indices: 49345304--49345571 Score: 491
Period size: 40 Copynumber: 6.7 Consensus size: 40
49345294 GCAAACACAT
* * *
49345304 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
49345344 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
49345384 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49345424 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49345464 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49345504 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49345544 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
49345572 TCCAATGCTC
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:49364715 original size:40 final size:40
Alignment explanation
Indices: 49364614--49364838 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
49364604 TATTCGAATG
* *
49364614 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * * *
49364655 AAAACCAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
49364695 ATATCCGGGCTAAGACCCGAAGGCATTTTTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
49364735 ATATCCGGGCTAAAACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
49364775 ATATCCGGGCTAAGTCCCGGAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
49364815 ACATCCGGGCTAAGACTCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
49364839 CTTGTGCAAG
Statistics
Matches: 148, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 120 0.81
41 27 0.18
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:49364808 original size:80 final size:79
Alignment explanation
Indices: 49364614--49364874 Score: 222
Period size: 80 Copynumber: 3.3 Consensus size: 79
49364604 TATTCGAATG
* * * * * * * * *
49364614 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTAAAACCAGACTAAGA-TCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTA-GCGACCACATCCGGGCTAAAACT-CGAAGG
* * ** *
49364678 CATTCGTGCGAGTTGCT
64 CCTT-GTGCAAGGAGTT
* * ** *
49364695 ATATCCGGGCTAAGACCCGAAGGCATTTTTGCTAGCGATTATATCCGGGCTAAAACTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACCACATCCGGGCTAAAACTCGAAGGC-
* *
49364760 TTTGTGCTAGCGA-TT
65 CTTGTGCAAG-GAGTT
* * *
49364775 ATATCCGGGCTAAGTCCCGGAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACTCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACCACATCCGGGCTAAAACTCGAAGGCC
*
49364840 TTGTGCAAGTAGTT
66 TTGTGCAAGGAGTT
*
49364854 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
49364875 ATTACTTGAG
Statistics
Matches: 148, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
78 14 0.09
79 16 0.11
80 84 0.57
81 34 0.23
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACCACATCCGGGCTAAAACTCGAAGGCC
TTGTGCAAGGAGTT
Found at i:49366592 original size:19 final size:19
Alignment explanation
Indices: 49366568--49366604 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49366558 TTGATAAATC
*
49366568 TAAAATTGAAACCATTGAG
1 TAAAATTAAAACCATTGAG
49366587 TAAAATTAAAACCATTGA
1 TAAAATTAAAACCATTGA
49366605 AAAACTACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (19 bp):
TAAAATTAAAACCATTGAG
Found at i:49372674 original size:21 final size:21
Alignment explanation
Indices: 49372645--49372720 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
49372635 CTGGGAACTA
49372645 TGTGATCTGAACTCATTGAGT
1 TGTGATCTGAACTCATTGAGT
* ** *
49372666 TGTGGTCTGAGTTCA-TGATAT
1 TGTGATCTGAACTCATTGA-GT
*
49372687 ATGTGACATCTAAACTCATTGAGT
1 -TGTG--ATCTGAACTCATTGAGT
*
49372711 TGTGGTCTGA
1 TGTGATCTGA
49372721 GTTCATGATG
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
20 3 0.08
21 17 0.44
22 4 0.10
23 4 0.10
24 8 0.21
25 3 0.08
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (21 bp):
TGTGATCTGAACTCATTGAGT
Found at i:49372705 original size:45 final size:45
Alignment explanation
Indices: 49372649--49372736 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
49372639 GAACTATGTG
*
49372649 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
*
49372694 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTG
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTG
49372737 GCACATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:49375097 original size:158 final size:158
Alignment explanation
Indices: 49374804--49375121 Score: 582
Period size: 158 Copynumber: 2.0 Consensus size: 158
49374794 AAACTTAGGA
49374804 AAAGTTTCATTTTAATCCAAAATTGTTCCCAGTTTGTTTTAAATGTTTTATAAGATCGAATTAGG
1 AAAGTTTCATTTTAATCCAAAATTGTTCCCAGTTTGTTTTAAATGTTTTATAAGATCGAATTAGG
49374869 TCTCGTTTTGATTGAATAGCATGGAAATGATTATAAACGAACTATTTGGTTATTTTAATTAAATT
66 TCTCGTTTTGATTGAATAGCATGGAAATGATTATAAACGAACTATTTGGTTATTTTAATTAAATT
*
49374934 GTGAACGATGTTAAAGTTTTATAGTTGT
131 GTGAACGATGTTAAAGCTTTATAGTTGT
* * *
49374962 AAAGTTTCATTTTAATCCAGAATTGTTCCCAGTTTGTTTTAAATGTTTTGTAAGTTCGAATTAGG
1 AAAGTTTCATTTTAATCCAAAATTGTTCCCAGTTTGTTTTAAATGTTTTATAAGATCGAATTAGG
*
49375027 TCTCGTTTTGATTGAATAGCATGGAAATGATTATAAATGAACTATTTGGTTATTTTAATTAAATT
66 TCTCGTTTTGATTGAATAGCATGGAAATGATTATAAACGAACTATTTGGTTATTTTAATTAAATT
*
49375092 TTGAACGATGTTAAAGCTTTATAGTTGT
131 GTGAACGATGTTAAAGCTTTATAGTTGT
49375120 AA
1 AA
49375122 TATCTTATAG
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
158 154 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (158 bp):
AAAGTTTCATTTTAATCCAAAATTGTTCCCAGTTTGTTTTAAATGTTTTATAAGATCGAATTAGG
TCTCGTTTTGATTGAATAGCATGGAAATGATTATAAACGAACTATTTGGTTATTTTAATTAAATT
GTGAACGATGTTAAAGCTTTATAGTTGT
Found at i:49383003 original size:16 final size:17
Alignment explanation
Indices: 49382982--49383019 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
49382972 TCTATATTGC
*
49382982 TTCTTCTT-TCCATAGT
1 TTCTTCTTCCCCATAGT
*
49382998 TTCTTCTTCCCCATTGT
1 TTCTTCTTCCCCATAGT
49383015 TTCTT
1 TTCTT
49383020 TGAAAACCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.08, C:0.29, G:0.05, T:0.58
Consensus pattern (17 bp):
TTCTTCTTCCCCATAGT
Found at i:49383016 original size:17 final size:16
Alignment explanation
Indices: 49382977--49383019 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
49382967 CTTCTTCTAT
* *
49382977 ATTGCTTCTTCTTTCC
1 ATTGTTTCTTCTTCCC
*
49382993 ATAGTTTCTTCTTCCCC
1 ATTGTTTCTTCTT-CCC
49383010 ATTGTTTCTT
1 ATTGTTTCTT
49383020 TGAAAACCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.09, C:0.28, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTGTTTCTTCTTCCC
Found at i:49398347 original size:21 final size:20
Alignment explanation
Indices: 49398321--49398359 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
49398311 GAGTATTTTG
49398321 ATGTTTGACGATAGATTATGA
1 ATGTTTGACGATAG-TTATGA
*
49398342 ATGTTTGATGATAGTTAT
1 ATGTTTGACGATAGTTAT
49398360 ACAAGTTTTG
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:0.31, C:0.03, G:0.23, T:0.44
Consensus pattern (20 bp):
ATGTTTGACGATAGTTATGA
Found at i:49400814 original size:42 final size:43
Alignment explanation
Indices: 49400709--49400816 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
49400699 GAAATTTGAG
*
49400709 CTCGTTGAGCGGTCCGAGTTCATGATATATGTGAGAATCCAAA
1 CTCGTTGAGAGGTCCGAGTTCATGATATATGTGAGAATCCAAA
* * * * ** *
49400752 CTTGTTGAGTGGTCCAAGTTCGTGATATATGTG-GCAA-CTGAC
1 CTCGTTGAGAGGTCCGAGTTCATGATATATGTGAG-AATCCAAA
*
49400794 CTCGTTGAGAGGTTCGAGTTCAT
1 CTCGTTGAGAGGTCCGAGTTCAT
49400817 AATGGATGCG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 21 0.40
43 31 0.60
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
CTCGTTGAGAGGTCCGAGTTCATGATATATGTGAGAATCCAAA
Found at i:49409658 original size:46 final size:46
Alignment explanation
Indices: 49409605--49409777 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
49409595 TTGGGCATCT
* *
49409605 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*** * *
49409651 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCC
* *
49409698 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
49409744 GAGCTCATTGAGTTGAGTCCGAGTTCAATTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49409778 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.61
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:49409757 original size:93 final size:93
Alignment explanation
Indices: 49409598--49409769 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
49409588 AGGATGTTTG
* * * *
49409598 GGCATCTGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
49409663 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
49409691 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
49409756 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49409770 AATTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:49412697 original size:15 final size:15
Alignment explanation
Indices: 49412678--49412745 Score: 75
Period size: 15 Copynumber: 4.5 Consensus size: 15
49412668 TATCTTGGGT
49412678 TTCTTTATCCTGG-A
1 TTCTTTATCCTGGAA
*
49412692 TCTCTTTATTCTGGAA
1 T-TCTTTATCCTGGAA
*
49412708 TTCTTTATTCTGGAA
1 TTCTTTATCCTGGAA
* * *
49412723 TTCTCTATCTTGGAT
1 TTCTTTATCCTGGAA
49412738 TTCTTTAT
1 TTCTTTAT
49412746 TCGGTTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
14 1 0.02
15 43 0.93
16 2 0.04
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.54
Consensus pattern (15 bp):
TTCTTTATCCTGGAA
Found at i:49412742 original size:30 final size:30
Alignment explanation
Indices: 49412668--49412747 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
49412658 CATAGTATCA
* * *
49412668 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
49412698 TAT-TCTGGAATTCTTTATTCTGGAAT-TCTC
1 TATCT-TGGATTTCTTTATTCTGG-ATCTCTC
49412728 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
49412748 GGTTTCCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 1 0.02
30 38 0.90
31 3 0.07
ACGTcount: A:0.15, C:0.17, G:0.14, T:0.54
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:49415711 original size:32 final size:32
Alignment explanation
Indices: 49415675--49415738 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
49415665 GGGAACGGTC
49415675 GGAGGCATGCTCACACTATATCCGTATACCAT
1 GGAGGCATGCTCACACTATATCCGTATACCAT
*
49415707 GGAGGCATGCTCACACTATATGCGTATACCAT
1 GGAGGCATGCTCACACTATATCCGTATACCAT
49415739 ATTGGCATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (32 bp):
GGAGGCATGCTCACACTATATCCGTATACCAT
Found at i:49427839 original size:27 final size:28
Alignment explanation
Indices: 49427702--49427852 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
49427692 GAGATTGGCG
* * * *
49427702 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
49427731 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
49427759 CTACGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
49427787 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
49427815 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
49427842 CTGAGTGTGCG
1 CTAAGTGTGCG
49427853 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 23 0.21
28 73 0.66
29 15 0.14
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:49431436 original size:16 final size:16
Alignment explanation
Indices: 49431417--49431447 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49431407 CTTCTTCACT
49431417 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
49431433 TACTTACTTACTTAA
1 TACTCACTTACTTAA
49431448 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:49431453 original size:20 final size:20
Alignment explanation
Indices: 49431414--49431453 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49431404 AAACTTCTTC
* *
49431414 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
49431434 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
49431454 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:49431828 original size:55 final size:54
Alignment explanation
Indices: 49431686--49431893 Score: 214
Period size: 55 Copynumber: 3.9 Consensus size: 54
49431676 ATCCTTTTGA
*
49431686 AACTTACCATTGCCATGTCTTGACATGGTCTTACATG-GTAGCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTAGCCTTGCCTTATG
* * * *
49431739 AACTCACCAATGACATGCCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTAGCC-TTGCCTTAT-G
* **
49431793 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGA-TTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTAGCCTTGCCTTATG
* *
49431846 AAACCTTACCAATTGCCAT-TCCTTGGCATGGTCTTACATG-GTATCCTT
1 -AA-CTTACCAA-TGCCATGT-CTTGACATGGTCTTACATGAGTAGCCTT
49431894 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 10 0.08
55 71 0.55
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTAGCCTTGCCTTATG
Found at i:49434348 original size:27 final size:27
Alignment explanation
Indices: 49434318--49434495 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49434308 ATATTGAGTC
* * * *
49434318 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49434345 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49434372 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49434400 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49434427 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49434454 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49434481 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49434496 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49434457 original size:82 final size:81
Alignment explanation
Indices: 49434339--49434494 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49434329 TGCTATATAA
* *
49434339 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49434404 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49434421 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49434485 CACTTAGTGC
65 CACTTAGTGC
49434495 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49442408 original size:27 final size:27
Alignment explanation
Indices: 49442378--49442555 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
49442368 ATATCGAGTC
* *
49442378 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
49442405 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49442432 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49442460 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49442487 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
49442514 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
49442541 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49442556 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49442517 original size:82 final size:81
Alignment explanation
Indices: 49442399--49442554 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49442389 TGCTATATAA
*
49442399 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49442464 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
49442481 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49442545 CACTTAGTGC
65 CACTTAGTGC
49442555 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49445275 original size:50 final size:50
Alignment explanation
Indices: 49445215--49445316 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
49445205 TTTTGTAAAT
49445215 ATTCGATTTAGTCCCTAATCTCAACTTAAGCACTTTATGCATAGAATTTC
1 ATTCGATTTAGTCCCTAATCTCAACTTAAGCACTTTATGCATAGAATTTC
*
49445265 ATTCGGTTTAGTCCCTAATCTCAACTTAAGCACTTTATGCATAGAATTTC
1 ATTCGATTTAGTCCCTAATCTCAACTTAAGCACTTTATGCATAGAATTTC
49445315 AT
1 AT
49445317 CACGAAATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (50 bp):
ATTCGATTTAGTCCCTAATCTCAACTTAAGCACTTTATGCATAGAATTTC
Found at i:49445553 original size:46 final size:45
Alignment explanation
Indices: 49445494--49445660 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
49445484 GACAAGGGCT
* *
49445494 AGTGTAAGACATGTCTAGGACATGCATCAGCCAC-AGTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAG-ATG-TAGCC
* * *
49445540 AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATG-TAGCC
* * * *
49445586 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACAAGATGT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTAGCC
*
49445630 AGTGTAAGACATGTTTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
49445661 ACGGTTACAT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
44 30 0.29
45 1 0.01
46 72 0.69
47 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTAGCC
Found at i:49445658 original size:90 final size:92
Alignment explanation
Indices: 49445494--49445659 Score: 239
Period size: 92 Copynumber: 1.8 Consensus size: 92
49445484 GACAAGGGCT
49445494 AGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGATAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGATAGCCAGTGTAAGACATGTCTGGG
49445559 ACATGCATCGGGCTCGAGATGTTAGCC
66 ACATGCATCGGGCTCGAGATGTTAGCC
* * * * * * *
49445586 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACAAG-ATG-T-GCTAGTGTAAGACATGTTTGG
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCAC-AGTATGATAGCCAGTGTAAGACATGTCTGG
49445648 GACATGCATCGG
65 GACATGCATCGG
49445660 CACGGTTACA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 31 0.47
91 1 0.02
92 32 0.48
93 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGATAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGGCTCGAGATGTTAGCC
Found at i:49456769 original size:32 final size:32
Alignment explanation
Indices: 49456728--49456796 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
49456718 TTAAGGGAGT
49456728 ATGTATTGCTGAATCTGGATATGGTTCAAGGA
1 ATGTATTGCTGAATCTGGATATGGTTCAAGGA
49456760 ATGTATTGCTGAATCTGGATATGGTTCAAGGA
1 ATGTATTGCTGAATCTGGATATGGTTCAAGGA
49456792 A-GTAT
1 ATGTAT
49456797 AATGAGGCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.35
Consensus pattern (32 bp):
ATGTATTGCTGAATCTGGATATGGTTCAAGGA
Found at i:49461655 original size:40 final size:40
Alignment explanation
Indices: 49461588--49461746 Score: 207
Period size: 40 Copynumber: 4.0 Consensus size: 40
49461578 GACTAATTCC
* *
49461588 CATTTGTGTGAGTTATTA-ATTCCGGGCTAAGTCCCGAAGG
1 CATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGG
*
49461628 CATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGG
1 CATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
** *
49461668 CATTTGTGCGAACTACTATATCCGGGCTAAGTCCCGAAGA
1 CATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
* *
49461708 CATTTGTGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
49461747 TACTTGGTTT
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 15 0.14
40 90 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
CATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
Found at i:49467179 original size:18 final size:17
Alignment explanation
Indices: 49467156--49467197 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
49467146 TCAGGCCAGA
49467156 ATGGGTTAAATGGGCCCG
1 ATGGGTTAAA-GGGCCCG
**
49467174 ATGGGTTGTAGGGCCCG
1 ATGGGTTAAAGGGCCCG
49467191 ATGGGTT
1 ATGGGTT
49467198 GTAGGGCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.17, C:0.14, G:0.43, T:0.26
Consensus pattern (17 bp):
ATGGGTTAAAGGGCCCG
Found at i:49467189 original size:17 final size:17
Alignment explanation
Indices: 49467167--49467206 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
49467157 TGGGTTAAAT
49467167 GGGCCCGATGGGTTGTA
1 GGGCCCGATGGGTTGTA
49467184 GGGCCCGATGGGTTGTA
1 GGGCCCGATGGGTTGTA
49467201 GGGCCC
1 GGGCCC
49467207 ATAATAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.10, C:0.23, G:0.47, T:0.20
Consensus pattern (17 bp):
GGGCCCGATGGGTTGTA
Done.