Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 132 of 770
Found at i:38608466 original size:19 final size:19
Alignment explanation
Indices: 38608438--38608496 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 19
38608428 TTCAAAAATA
*
38608438 ATAAATAAATTCTTAAAAC
1 ATAAAAAAATTCTTAAAAC
*
38608457 ATAAAAAAATTTTCTTAAAAT
1 ATAAAAAAA--TTCTTAAAAC
* *
38608478 ATAAAAGATTTC-TAAAAC
1 ATAAAAAAATTCTTAAAAC
38608496 A
1 A
38608497 AATTAAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 6 0.18
19 11 0.33
21 16 0.48
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAAAAAAATTCTTAAAAC
Found at i:38612309 original size:79 final size:79
Alignment explanation
Indices: 38612178--38612335 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
38612168 CTGGAAAGTC
38612178 TGTGCGATACTGAAATGTAGGTTCAAATATATTAGTTAACATGTATAAAAAGTAAATAAATAAAT
1 TGTGCGATACTGAAATGTAGGTTCAAATATATTAGTTAACATGTATAAAAAGTAAATAAATAAAT
38612243 AATGGAGGACAAAG
66 AATGGAGGACAAAG
38612257 TGTGCGATACTGAAATGTAGGTTCAAATATATTAGTTAACATGTATAAAAAGTAAATAAATAAAT
1 TGTGCGATACTGAAATGTAGGTTCAAATATATTAGTTAACATGTATAAAAAGTAAATAAATAAAT
*
38612322 AATGGGGGACAAAG
66 AATGGAGGACAAAG
38612336 CCACTTCAGA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (79 bp):
TGTGCGATACTGAAATGTAGGTTCAAATATATTAGTTAACATGTATAAAAAGTAAATAAATAAAT
AATGGAGGACAAAG
Found at i:38614000 original size:21 final size:21
Alignment explanation
Indices: 38613976--38614018 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38613966 AAAGTAACTT
38613976 CACAATCTCAAATGAACAAAC
1 CACAATCTCAAATGAACAAAC
38613997 CACAATCTCAAATGAACAAAC
1 CACAATCTCAAATGAACAAAC
38614018 C
1 C
38614019 TTGACAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.30, G:0.05, T:0.14
Consensus pattern (21 bp):
CACAATCTCAAATGAACAAAC
Found at i:38619686 original size:27 final size:27
Alignment explanation
Indices: 38619649--38619710 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
38619639 AATTTGGCAT
*
38619649 ACTA-GGGTTTG-TCAATTGAGTTGCGA
1 ACTAGGGGTTTGCT-AATTGAGTTGCAA
*
38619675 ACTAGGGGTTTGCTAGTTGAGTTGCAA
1 ACTAGGGGTTTGCTAATTGAGTTGCAA
38619702 ACT-GGGGTT
1 ACTAGGGGTT
38619711 CGCCAGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.31
27 21 0.66
28 1 0.03
ACGTcount: A:0.21, C:0.11, G:0.34, T:0.34
Consensus pattern (27 bp):
ACTAGGGGTTTGCTAATTGAGTTGCAA
Found at i:38620638 original size:17 final size:17
Alignment explanation
Indices: 38620616--38620649 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
38620606 ATGTCTCTAT
38620616 CTAAATTGAATTTTTAG
1 CTAAATTGAATTTTTAG
38620633 CTAAATTGAATTTTTAG
1 CTAAATTGAATTTTTAG
38620650 TGAGGAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
CTAAATTGAATTTTTAG
Found at i:38621223 original size:54 final size:54
Alignment explanation
Indices: 38621141--38621250 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
38621131 TAATCAGAGA
*
38621141 AAGCATGATAATGCTATGATCATGATTGTGTAGTATTAGCAATGACAAAATGTT
1 AAGCATGATAATGCTATGATCATGATTGTGTAATATTAGCAATGACAAAATGTT
38621195 AAGCATGATAATGCTATGATCATGATTGTGTAATATTAGCAATGACAAAATGTT
1 AAGCATGATAATGCTATGATCATGATTGTGTAATATTAGCAATGACAAAATGTT
38621249 AA
1 AA
38621251 ACGTAAAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (54 bp):
AAGCATGATAATGCTATGATCATGATTGTGTAATATTAGCAATGACAAAATGTT
Found at i:38622944 original size:13 final size:13
Alignment explanation
Indices: 38622926--38622951 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38622916 AGTCCATTGG
38622926 TTACTCTACTACA
1 TTACTCTACTACA
38622939 TTACTCTACTACA
1 TTACTCTACTACA
38622952 CTGTATCCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
TTACTCTACTACA
Found at i:38623179 original size:94 final size:94
Alignment explanation
Indices: 38623063--38623655 Score: 683
Period size: 94 Copynumber: 6.3 Consensus size: 94
38623053 TCAATCCATT
* * * *
38623063 CCACTGCAATTTTAAGGATATAGGATTTGTAGCCTCATCTTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTTAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGAT
* * * * *
38623128 AAAATTCGCTATGGTAGCTTTAATCAGCC
66 AAGATTCACTATTGTAGCTTCAATCAGAC
* * * * *
38623157 CCACTGCAACTTCAAGGGTATAGGATTTGTAGTTTCATCTTGCTCCACTACAACTTCAGGAGAGG
1 CCACTGCAACTTTAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGG-GAGA
* ** * *
38623222 TAAGATTCATTATCATAACTTCAATCCGAC
65 TAAGATTCACTATTGTAGCTTCAATCAGAC
* * * * *
38623252 CCACTACAAATTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTACAACTTTAGGGAGAT
1 CCACTGCAACTTTAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGAT
*
38623317 AAGATTCACTATTGTAGCTTCAATCCGAC
66 AAGATTCACTATTGTAGCTTCAATCAGAC
* * * * *
38623346 CCACTAG-AAC-TTCAGTGGTATAGGATTTGTAGCTTCATTTTGCTCCATTGCAACTTTAAGAAG
1 CCACT-GCAACTTTAAG-GGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAG
* * *
38623409 ATAACATTCACTATCGTAGCTTCAATCTGAC
64 ATAAGATTCACTATTGTAGCTTCAATCAGAC
* * * *
38623440 CCACTACAACTTTAGGGGTATAGGATTTATAGCTTTATCTTGCTCCACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTTAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGAT
*
38623505 AAGATTCATTATTGTAGCTTCAATCTA-AC
66 AAGATTCACTATTGTAGCTTCAATC-AGAC
* * *
38623534 CCACTACAACTTT-AGTGGTATAGGATTTGTAGCTTTATCTTGCTCCCCTGCAACTTTAGGGAGA
1 CCACTGCAACTTTAAG-GGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGA
* *
38623598 TAAGATTCGCTATTGTAGCTTTAATTC-GAC
65 TAAGATTCACTATTGTAGCTTCAA-TCAGAC
* * *
38623628 CAACTGCAACTTTAGGGGTATAAGATTT
1 CCACTGCAACTTTAAGGGTATAGGATTT
38623656 AGGGTTTCAC
Statistics
Matches: 425, Mismatches: 64, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
93 4 0.01
94 338 0.80
95 83 0.20
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (94 bp):
CCACTGCAACTTTAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGAT
AAGATTCACTATTGTAGCTTCAATCAGAC
Found at i:38623303 original size:44 final size:44
Alignment explanation
Indices: 38623252--38623594 Score: 185
Period size: 44 Copynumber: 7.4 Consensus size: 44
38623242 TCAATCCGAC
*
38623252 CCACTACAAATTTAGGGGTATAGGATTTGTAGCTTCATCTTACT
1 CCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACT
* **
38623296 CCACTACAACTTTAGGGAG-ATAAGATTCACTATTGTAGCTTCAATCCGAC-
1 CCACTACAACTTTAGGG-GTAT-AG---GA-T-TTGTAGCTTC-ATCTTACT
* * * * *
38623346 CCACTAGAACTTCAGTGGTATAGGATTTGTAGCTTCATTTTGCT
1 CCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACT
* * ** ** *
38623390 CCATTGCAACTTTAAGAAG-ATAACATTCACTATCGTAGCTTCAATCTGAC-
1 CCACTACAACTTT-AGGGGTATAGGA-T---T-T-GTAGCTTC-ATCTTACT
* * *
38623440 CCACTACAACTTTAGGGGTATAGGATTTATAGCTTTATCTTGCT
1 CCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACT
* * *
38623484 CCACTGCAACTTTAGGGAG-ATAAGATTCATTATTGTAGCTTCAATCTAAC-
1 CCACTACAACTTTAGGG-GTAT-AG---GA-T-TTGTAGCTTC-ATCTTACT
* * *
38623534 CCACTACAACTTTAGTGGTATAGGATTTGTAGCTTTATCTTGCT
1 CCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACT
* *
38623578 CCCCTGCAACTTTAGGG
1 CCACTACAACTTTAGGG
38623595 AGATAAGATT
Statistics
Matches: 221, Mismatches: 48, Indels: 60
0.67 0.15 0.18
Matches are distributed among these distances:
43 13 0.06
44 88 0.40
45 13 0.06
46 3 0.01
48 3 0.01
49 13 0.06
50 74 0.33
51 14 0.06
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (44 bp):
CCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACT
Found at i:38623357 original size:50 final size:50
Alignment explanation
Indices: 38623183--38623654 Score: 212
Period size: 50 Copynumber: 9.9 Consensus size: 50
38623173 GGTATAGGAT
* * *
38623183 TTGTAGTTTC-ATCTTG-CTCCACTACAACTTCAGGAGAGGTAAGATTCATTA
1 TTGTAGCTTCAATC-TGACTCCACTACAACTTTAGG-GAGATAAGATTCA-TA
** * * * *
38623234 TCATAACTTCAATCCGAC-CCACTACAAATTTAGGG-G-TATAG---GAT-
1 TTGTAGCTTCAATCTGACTCCACTACAACTTTAGGGAGATA-AGATTCATA
*
38623278 TTGTAGCTTC-ATCTTACTCCACTACAACTTTAGGGAGATAAGATTCACTA
1 TTGTAGCTTCAATCTGACTCCACTACAACTTTAGGGAGATAAGATTCA-TA
* * * * *
38623328 TTGTAGCTTCAATCCGAC-CCACTAGAACTTCAGTG-G-TATAG---GAT-
1 TTGTAGCTTCAATCTGACTCCACTACAACTTTAGGGAGATA-AGATTCATA
* * * * * * *
38623372 TTGTAGCTTCATTTTG-CTCCATTGCAACTTTAAGAAGATAACATTCACTA
1 TTGTAGCTTCAATCTGACTCCACTACAACTTTAGGGAGATAAGATTCA-TA
* *
38623422 TCGTAGCTTCAATCTGAC-CCACTACAACTTTAGGG-GTATAGGATT--TA
1 TTGTAGCTTCAATCTGACTCCACTACAACTTTAGGGAG-ATAAGATTCATA
* *
38623469 ---TAGCTT-TATCTTG-CTCCACTGCAACTTTAGGGAGATAAGATTCATTA
1 TTGTAGCTTCAATC-TGACTCCACTACAACTTTAGGGAGATAAGATTCA-TA
* * *
38623516 TTGTAGCTTCAATCTAAC-CCACTACAACTTTAGTG-G-TATAG---GAT-
1 TTGTAGCTTCAATCTGACTCCACTACAACTTTAGGGAGATA-AGATTCATA
* * * *
38623560 TTGTAGCTT-TATCTTG-CTCCCCTGCAACTTTAGGGAGATAAGATTCGCTA
1 TTGTAGCTTCAATC-TGACTCCACTACAACTTTAGGGAGATAAGATTC-ATA
* * *
38623610 TTGTAGCTTTAAT-TCGAC-CAACTGCAACTTTAGGG-GTATAAGATT
1 TTGTAGCTTCAATCT-GACTCCACTACAACTTTAGGGAG-ATAAGATT
38623655 TAGGGTTTCA
Statistics
Matches: 313, Mismatches: 60, Indels: 97
0.67 0.13 0.21
Matches are distributed among these distances:
43 14 0.04
44 101 0.32
45 12 0.04
46 9 0.03
47 4 0.01
48 8 0.03
49 15 0.05
50 112 0.36
51 34 0.11
52 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (50 bp):
TTGTAGCTTCAATCTGACTCCACTACAACTTTAGGGAGATAAGATTCATA
Found at i:38631121 original size:29 final size:27
Alignment explanation
Indices: 38631087--38631189 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
38631077 TACTCGATCA
*
38631087 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* * *
38631116 CGCACACATAGTGCCATATAGTTCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
38631145 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
38631174 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
38631190 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.95
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:38632901 original size:40 final size:40
Alignment explanation
Indices: 38632856--38632998 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
38632846 GGGCTGTCAC
*
38632856 ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 ACAACTCGCACAAATGCCTTCGGGTCATAGCCCGGATATA
* *
38632896 GCAACTCGCACAAATGCCTTCGGGTCATAGCTCGGATATA
1 ACAACTCGCACAAATGCCTTCGGGTCATAGCCCGGATATA
* * *
38632936 ATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
1 A-CAACTCGCACAAATGCCTTCGGGTCATAGCCCGGATATA
*
38632976 ACAACTCGCACGAATGCCTTCGG
1 ACAACTCGCACAAATGCCTTCGG
38632999 ATCTTAGTCC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 88 0.98
41 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
ACAACTCGCACAAATGCCTTCGGGTCATAGCCCGGATATA
Found at i:38642249 original size:49 final size:47
Alignment explanation
Indices: 38642071--38642267 Score: 268
Period size: 47 Copynumber: 4.1 Consensus size: 47
38642061 CCCTTCGGGA
* * * * * * *
38642071 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38642118 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38642165 CTTATCACATATGTACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38642212 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38642261 CTTATCA
1 CTTATCA
38642268 GCCATTAGGC
Statistics
Matches: 135, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 91 0.67
49 44 0.33
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38642267 original size:96 final size:94
Alignment explanation
Indices: 38642071--38642267 Score: 270
Period size: 96 Copynumber: 2.1 Consensus size: 94
38642061 CCCTTCGGGA
* * * *
38642071 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTCCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
38642136 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * * *
38642165 CTTATCACATATGTACACCTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACA-CTTCCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATA
38642229 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACTTTCACATTCATCACATCGGCCATTAGGC
38642261 CTTATCA
1 CTTATCA
38642268 GCCATTAGGC
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
94 43 0.48
95 3 0.03
96 44 0.49
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACTTCCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:38642273 original size:17 final size:17
Alignment explanation
Indices: 38642251--38642284 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
38642241 CATCACATCG
38642251 GCCATTAGGCCTTATCA
1 GCCATTAGGCCTTATCA
38642268 GCCATTAGGCCTTATCA
1 GCCATTAGGCCTTATCA
38642285 CATATATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (17 bp):
GCCATTAGGCCTTATCA
Found at i:38642276 original size:66 final size:66
Alignment explanation
Indices: 38642202--38642333 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
38642192 CATCACATCG
*
38642202 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
38642267 A
66 A
*
38642268 GCCATTAGGCCTTATCACATATATACACACTTTCATATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
38642333 A
66 A
38642334 CATATATACA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (66 bp):
GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
A
Found at i:38642324 original size:49 final size:49
Alignment explanation
Indices: 38642268--38642390 Score: 237
Period size: 49 Copynumber: 2.5 Consensus size: 49
38642258 GGCCTTATCA
*
38642268 GCCATTAGGCCTTATCACATATATACACACTTTCATATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCG
38642317 GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCG
38642366 GCCATTAGGCCTTATCACATATATA
1 GCCATTAGGCCTTATCACATATATA
38642391 TATCTCATAC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCG
Found at i:38642355 original size:115 final size:113
Alignment explanation
Indices: 38642155--38642382 Score: 402
Period size: 115 Copynumber: 2.0 Consensus size: 113
38642145 CATCACATTG
* *
38642155 GCCATTCGGCCTTATCACATATGTACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 GCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
38642220 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
66 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
38642268 GCCATTAGGCCTTATCACATATATACACACTTTCATATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGCCTTATC
38642333 ACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
64 ACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
38642383 CATATATATA
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
113 26 0.24
114 1 0.01
115 82 0.75
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (113 bp):
GCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:38645645 original size:40 final size:40
Alignment explanation
Indices: 38645578--38645749 Score: 233
Period size: 40 Copynumber: 4.3 Consensus size: 40
38645568 ACCCAAGTAT
38645578 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
*
38645617 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
38645657 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * *
38645697 CTTCGGGACATAGCCCGGATATAACAACTTGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
38645737 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
38645750 TCCAGTTATC
Statistics
Matches: 117, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 103 0.88
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:38653451 original size:39 final size:39
Alignment explanation
Indices: 38653382--38653600 Score: 280
Period size: 39 Copynumber: 5.6 Consensus size: 39
38653372 ACAAAGCATG
* *
38653382 CGGGACTTTAAGCCTGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAAAGCCTT
*
38653422 CGGGACTTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACGAAAGCCTT
* **
38653462 CGGGACTTAGCCCGGATATAATACCAGTACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAAAGCCTT
**
38653501 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAAAGCCTT
* *
38653540 CGGGACTTAGCCCGAATATAACACCAGCAC-AAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAAA-GCCTT
* *
38653579 CGGGACTTAACCCGAATATAAT
1 CGGGACTTAGCCCGGATATAAT
38653601 TCTCCATTAT
Statistics
Matches: 165, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
38 2 0.01
39 142 0.86
40 21 0.13
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAAAGCCTT
Found at i:38659149 original size:19 final size:18
Alignment explanation
Indices: 38659121--38659157 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
38659111 ATATATTGTA
38659121 TTTTTTTCTTTGTTTTTG
1 TTTTTTTCTTTGTTTTTG
38659139 TTTTTTATCTTTGTTTTTG
1 TTTTTT-TCTTTGTTTTTG
38659158 CTTGTTCGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.81
Consensus pattern (18 bp):
TTTTTTTCTTTGTTTTTG
Found at i:38659190 original size:15 final size:15
Alignment explanation
Indices: 38659170--38659203 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38659160 TGTTCGCTAT
38659170 TTCTGTTTCTCTGTC
1 TTCTGTTTCTCTGTC
* *
38659185 TTCTGTTTTTTTGTC
1 TTCTGTTTCTCTGTC
38659200 TTCT
1 TTCT
38659204 TACTCTTTTG
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:0.00, C:0.21, G:0.12, T:0.68
Consensus pattern (15 bp):
TTCTGTTTCTCTGTC
Found at i:38659793 original size:23 final size:23
Alignment explanation
Indices: 38659758--38659802 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38659748 TAAAACTTTT
*
38659758 ATTTTTATCATTTAAATCAAAATA
1 ATTTTAATCATTTAAAT-AAAATA
*
38659782 ATTTTAAT-ATTTATATAAAAT
1 ATTTTAATCATTTAAATAAAAT
38659803 TTTAATAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 7 0.37
24 7 0.37
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTTAATCATTTAAATAAAATA
Found at i:38660265 original size:44 final size:44
Alignment explanation
Indices: 38660213--38660302 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
38660203 TAATAAATAT
38660213 ATTTATTAAAAAATTATATAATATATAAAGTTTTGATTGAGATC
1 ATTTATTAAAAAATTATATAATATATAAAGTTTTGATTGAGATC
38660257 ATTTATTAAAAAATTATATAATATATAAAGTTTTGATTGAGATC
1 ATTTATTAAAAAATTATATAATATATAAAGTTTTGATTGAGATC
38660301 AT
1 AT
38660303 CAAATTAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (44 bp):
ATTTATTAAAAAATTATATAATATATAAAGTTTTGATTGAGATC
Found at i:38665819 original size:40 final size:40
Alignment explanation
Indices: 38665627--38665812 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
38665617 TTGAATGATG
* * * * *
38665627 TCCGGGCTAAGTCCCCAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
38665667 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38665707 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
38665747 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
38665788 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
38665813 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38665819 original size:80 final size:79
Alignment explanation
Indices: 38665680--38665835 Score: 208
Period size: 80 Copynumber: 2.0 Consensus size: 79
38665670 GGACTAAGAT
* * **
38665680 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTGGAACGAG-TAGCT
38665744 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* *
38665760 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCAAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCAAAGGCATTGGAACGAGTAGCT
*
38665824 ATATCCGGTTAA
65 AAATCCGGTTAA
38665836 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 8 0.12
80 57 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTGGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:38668528 original size:30 final size:30
Alignment explanation
Indices: 38668494--38668560 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
38668484 TGTGGCCTGA
*
38668494 CCGTGTCTCTCACACAGCCAACAGACATGC
1 CCGTGTCTCTCACACAGCCAACAGACACGC
38668524 CCGTGTCTCTCACACAGCCAACAGACACGC
1 CCGTGTCTCTCACACAGCCAACAGACACGC
38668554 CCGTGTC
1 CCGTGTC
38668561 ACAGGCCGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.24, C:0.42, G:0.18, T:0.16
Consensus pattern (30 bp):
CCGTGTCTCTCACACAGCCAACAGACACGC
Found at i:38671317 original size:30 final size:29
Alignment explanation
Indices: 38671223--38671324 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
38671213 TATAGTGAAT
* * *
38671223 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
38671252 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
38671280 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
38671310 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38671325 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:38672969 original size:48 final size:48
Alignment explanation
Indices: 38672917--38673018 Score: 168
Period size: 48 Copynumber: 2.1 Consensus size: 48
38672907 GTCACAAATG
*
38672917 AAGCTCGCATCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATA
1 AAGCTCGCATCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATA
* * *
38672965 AAGCTAGCATCCGAAGTGCTAATATCATGGCCCGAAGCCAAATTAATG
1 AAGCTCGCATCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATA
38673013 AAGCTC
1 AAGCTC
38673019 TTAATGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (48 bp):
AAGCTCGCATCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATA
Found at i:38677375 original size:30 final size:30
Alignment explanation
Indices: 38677339--38677469 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
38677329 GACAAGATTG
* * * * *
38677339 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
38677369 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
38677397 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38677427 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38677456 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38677470 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:38677430 original size:58 final size:58
Alignment explanation
Indices: 38677339--38677469 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
38677329 GACAAGATTG
* * * * * *
38677339 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
38677397 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
38677456 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38677470 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:38685360 original size:30 final size:30
Alignment explanation
Indices: 38685324--38685483 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
38685314 GACAAGATTG
* * * * *
38685324 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
38685354 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
38685382 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38685411 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38685441 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
38685470 GCACAAAGTGTGCG
1 GCACTAAGTGTGCG
38685484 GATTCACTAT
Statistics
Matches: 119, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:38685451 original size:59 final size:57
Alignment explanation
Indices: 38685324--38685483 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
38685314 GACAAGATTG
* * * * * *
38685324 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
38685382 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
*
38685441 GCACTAAGTGTGCGAGCTGAAAATATATAGCACAAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
38685484 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:38687991 original size:43 final size:43
Alignment explanation
Indices: 38687941--38688095 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
38687931 TATCTTAGAT
* * *
38687941 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAT
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * *
38687984 AGGGTCTTACATGAAATCGA-TTAAT-GATGTCAATGTCCCAGAC
1 ATGGTCTTACATGTAATC-ACAT-ATCGATGCCAATGTCCCAGAC
* * * *
38688027 ATGGTCTTACACGTAATCACA-ATACAATTCCAATGTCCAAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
38688070 ATGGTCTTACATGTAATCACATATCG
1 ATGGTCTTACATGTAATCACATATCG
38688096 GTAACCTAAT
Statistics
Matches: 89, Mismatches: 17, Indels: 12
0.75 0.14 0.10
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 81 0.91
44 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:38691492 original size:42 final size:42
Alignment explanation
Indices: 38691334--38691485 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
38691324 CATACCAATT
* * * *
38691334 CCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAG-TCTCATATAGATG
* * * * * ** *
38691376 CTAATAGCCTAGCTATGATCTTACACGAAGTCTTTTATTGATG
1 C-CATATCCCAGATATGGTCTTACACGAAGTCTCATATAGATG
38691419 CCATATCCCAGATATGGTCTTACACGAAGTCTCATATAGATG
1 CCATATCCCAGATATGGTCTTACACGAAGTCTCATATAGATG
38691461 CCATATCCCAGATATGGTCTTACAC
1 CCATATCCCAGATATGGTCTTACAC
38691486 ATAGTCTTAG
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 59 0.66
43 30 0.33
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAGTCTCATATAGATG
Found at i:38693747 original size:2 final size:2
Alignment explanation
Indices: 38693740--38693766 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38693730 TCGTTCGGAG
38693740 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
38693767 GAGTACGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38693834 original size:29 final size:29
Alignment explanation
Indices: 38693800--38693872 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
38693790 TACTCGATTT
* * *
38693800 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACATAGTGCCATACCATTTAAGCC
* * *
38693829 CGCACACATAGTGCCATACCCTTTGAGCT
1 CGCACACATAGTGCCATACCATTTAAGCC
*
38693858 CGCACACCTAGTGCC
1 CGCACACATAGTGCC
38693873 GTATATTTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (29 bp):
CGCACACATAGTGCCATACCATTTAAGCC
Found at i:38693891 original size:29 final size:29
Alignment explanation
Indices: 38693859--38693931 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
38693849 CTTTGAGCTC
* *
38693859 GCACACCTAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38693888 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38693917 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
38693932 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:38704337 original size:46 final size:46
Alignment explanation
Indices: 38704277--38704369 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
38704267 TTATATTTGA
*
38704277 TTGAAAACTATTGTTATACGCAAATTCAATCAACGGCAAATATTTT
1 TTGAAAACTATTGTTATACGCAAATTCAATCAACGACAAATATTTT
* *
38704323 TTGAAAACTATTGTTATACGTAAATTCAATCAATGACAAATATTTT
1 TTGAAAACTATTGTTATACGCAAATTCAATCAACGACAAATATTTT
38704369 T
1 T
38704370 CCCATGTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.38
Consensus pattern (46 bp):
TTGAAAACTATTGTTATACGCAAATTCAATCAACGACAAATATTTT
Found at i:38707069 original size:27 final size:26
Alignment explanation
Indices: 38707019--38707135 Score: 119
Period size: 27 Copynumber: 4.4 Consensus size: 26
38707009 ACTTTGTAGA
* *
38707019 GTAAAATGA-TCTAATGCCCGTATAGG
1 GTAAAATGACTGTAATACCC-TATAGG
*
38707045 GTAAAATGACCGTAATACCTCTATAGG
1 GTAAAATGACTGTAATACC-CTATAGG
* * *
38707072 GTAAAATGACTGTAATGCCCTTGTAAG
1 GTAAAATGACTGTAATACCC-TATAGG
* *
38707099 GTAAAATGACTGTAATACCCCTTTATG
1 GTAAAATGACTGTAATA-CCCTATAGG
38707126 GTAAAATGAC
1 GTAAAATGAC
38707136 GATTATGGCC
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
26 10 0.13
27 63 0.82
28 4 0.05
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (26 bp):
GTAAAATGACTGTAATACCCTATAGG
Found at i:38707105 original size:54 final size:54
Alignment explanation
Indices: 38707019--38707135 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
38707009 ACTTTGTAGA
* *
38707019 GTAAAATGA-TCTAATGCCCGTATAGGGTAAAATGACCGTAATACCTCTATAGG
1 GTAAAATGACTCTAATGCCCGTATAAGGTAAAATGACCGTAATACCCCTATAGG
* * * * * *
38707072 GTAAAATGACTGTAATGCCCTTGTAAGGTAAAATGACTGTAATACCCCTTTATG
1 GTAAAATGACTCTAATGCCCGTATAAGGTAAAATGACCGTAATACCCCTATAGG
38707126 GTAAAATGAC
1 GTAAAATGAC
38707136 GATTATGGCC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 9 0.16
54 46 0.84
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (54 bp):
GTAAAATGACTCTAATGCCCGTATAAGGTAAAATGACCGTAATACCCCTATAGG
Found at i:38707528 original size:28 final size:28
Alignment explanation
Indices: 38707483--38707542 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
38707473 GCATTACACT
* *
38707483 ACTGATACTACATTGGGCTTAGGCCCAC
1 ACTGATACTACATAGGGCTAAGGCCCAC
* * *
38707511 ACTGCTACTATATAGGGCTAAGGCCCAG
1 ACTGATACTACATAGGGCTAAGGCCCAC
38707539 ACTG
1 ACTG
38707543 TATGTACTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (28 bp):
ACTGATACTACATAGGGCTAAGGCCCAC
Found at i:38714075 original size:46 final size:46
Alignment explanation
Indices: 38714025--38714200 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
38714015 TGGTTGAGCA
38714025 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38714071 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38714116 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38714164 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38714201 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38714181 original size:93 final size:93
Alignment explanation
Indices: 38714022--38714192 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38714012 GGATGGTTGA
* *
38714022 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38714087 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38714115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38714180 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38714193 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38717161 original size:15 final size:15
Alignment explanation
Indices: 38717141--38717209 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
38717131 GTATCTTGGG
38717141 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
38717156 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
38717171 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
38717186 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
38717201 TTTCTTTAT
1 TTTCTTTAT
38717210 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:38717210 original size:30 final size:30
Alignment explanation
Indices: 38717132--38717219 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
38717122 CATAGTATCG
* * * *
38717132 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
38717162 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
38717192 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
38717220 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:38719628 original size:46 final size:46
Alignment explanation
Indices: 38719575--38719750 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
38719565 GGATTGAGCA
38719575 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38719621 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38719666 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38719714 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38719751 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38719731 original size:93 final size:93
Alignment explanation
Indices: 38719572--38719742 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38719562 CTAGGATTGA
* *
38719572 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38719637 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38719665 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38719730 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38719743 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38721193 original size:16 final size:16
Alignment explanation
Indices: 38721168--38721200 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38721158 ACTCGCACAC
38721168 TTAGTACAATAATGAT
1 TTAGTACAATAATGAT
*
38721184 TTAGTGCAATAATGAT
1 TTAGTACAATAATGAT
38721200 T
1 T
38721201 AGCTGAAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (16 bp):
TTAGTACAATAATGAT
Found at i:38723487 original size:23 final size:22
Alignment explanation
Indices: 38723461--38723512 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
38723451 TAATATTTAT
*
38723461 AACATCACAATTTACTTATTCAA
1 AACATCACAATTT-CATATTCAA
*
38723484 AACAT-ACCAATTTCATATTCAC
1 AACATCA-CAATTTCATATTCAA
38723506 AA-ATCAC
1 AACATCAC
38723513 CTAGTTGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 11 0.44
23 11 0.44
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (22 bp):
AACATCACAATTTCATATTCAA
Found at i:38727782 original size:5 final size:5
Alignment explanation
Indices: 38727772--38727823 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
38727762 GATGCCAACC
38727772 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
38727822 AT
1 AT
38727824 TTTATTTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:38731383 original size:29 final size:28
Alignment explanation
Indices: 38731345--38731447 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
38731335 GTGACGAGAT
* *
38731345 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
38731374 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
38731403 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
38731432 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38731448 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:38736810 original size:27 final size:26
Alignment explanation
Indices: 38736766--38736817 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38736756 CTCACTGCAA
*
38736766 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
38736793 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
38736818 GCAGTCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:38751669 original size:40 final size:40
Alignment explanation
Indices: 38751597--38751781 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
38751587 GCTACTCGTT
* ** *
38751597 CAAATACCTTCGGGACAAAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38751637 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
38751677 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
38751716 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38751757 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38751782 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38751708 original size:79 final size:80
Alignment explanation
Indices: 38751625--38751781 Score: 221
Period size: 79 Copynumber: 2.0 Consensus size: 80
38751615 AGCCTGGTTA
* * *
38751625 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTC
38751688 GGG-CTTAGCCCGGAAT
64 GGGACTTAGCCCGGAAT
** *
38751704 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
38751769 GACTTAGCCCGGA
66 GACTTAGCCCGGA
38751782 CATCATTCGA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 3 0.04
79 51 0.74
80 15 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:38759761 original size:79 final size:80
Alignment explanation
Indices: 38759648--38759829 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
38759638 TACTCGTTCA
* *
38759648 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC--GATCTTAACCCGG
* *
38759711 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
38759728 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGATCTTAACCCGGAT
*
38759791 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
38759806 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38759830 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 28 0.31
79 47 0.52
80 13 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:38759829 original size:40 final size:40
Alignment explanation
Indices: 38759627--38759829 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
38759617 TCGAATTTAA
** *
38759627 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38759667 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38759707 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38759746 CCGGA-ATTAGTAACTCGCACAAATGCCTTC--GATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
38759785 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38759825 CCGGA
1 CCGGA
38759830 CATCATTCGA
Statistics
Matches: 140, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
37 1 0.01
39 55 0.39
40 82 0.59
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38764851 original size:191 final size:191
Alignment explanation
Indices: 38764525--38764900 Score: 590
Period size: 191 Copynumber: 2.0 Consensus size: 191
38764515 TATAGACAGT
* ** * ** *
38764525 TTGTGAAAGGTTTCTCTATGATTGTAATGCCGATGATGAAGCTATTATAGAAAGATGTTAAGTTC
1 TTGTGAAAGGTTTCTCTATGATTGAAACCCCAATGACAAAGCTATTACAGAAAGATGTTAAGTTC
* * *
38764590 GAATGGTTAGAAAAGTGCCAGAAAAATTTTGATTAGTTGAAAGCCCTTTTCACTGAAGCTCTAAT
66 GAATGGTTAGAAAAGTGCCAGAAAAATTTTGATCAGTTGAAAGCCCTTTTCACCGAAGCTCCAAT
* *
38764655 GCTAGTTCAGCCAGAATCGGGGAAAGAATTTTTTATCTATAGTGATGCATCTTTAGACGGA
131 GCTAGTTCAGCCAGAATCGGGGAAAGAATTTGTTATCTATAGTGATACATCTTTAGACGGA
*
38764716 TTGTGAAAGGTTTCTCTATGATTGAAACCCCAATGACAAAGCTATTGCAGAAAGATGTTAAGTTC
1 TTGTGAAAGGTTTCTCTATGATTGAAACCCCAATGACAAAGCTATTACAGAAAGATGTTAAGTTC
* * *
38764781 GAATGGTTAGAAAAGTGCCAGAAAAGTTTTGATCAGTTGAAAGCCCTTTTGACCGAAGCTCCAGT
66 GAATGGTTAGAAAAGTGCCAGAAAAATTTTGATCAGTTGAAAGCCCTTTTCACCGAAGCTCCAAT
* *
38764846 GCTAGTTCAGCCAGAATTGGGTAAAGAATTTGTTATCTATAGTGATACATCTTTA
131 GCTAGTTCAGCCAGAATCGGGGAAAGAATTTGTTATCTATAGTGATACATCTTTA
38764901 AATGGTTTGG
Statistics
Matches: 167, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
191 167 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (191 bp):
TTGTGAAAGGTTTCTCTATGATTGAAACCCCAATGACAAAGCTATTACAGAAAGATGTTAAGTTC
GAATGGTTAGAAAAGTGCCAGAAAAATTTTGATCAGTTGAAAGCCCTTTTCACCGAAGCTCCAAT
GCTAGTTCAGCCAGAATCGGGGAAAGAATTTGTTATCTATAGTGATACATCTTTAGACGGA
Found at i:38768041 original size:43 final size:43
Alignment explanation
Indices: 38767991--38768147 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
38767981 TATGTGTTCT
*
38767991 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* * * *
38768034 CGTGTAAGAGCATGTCTAGGACATTGGCATCG-TATTTGATT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* *
38768075 TGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGA-TA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATTA
* *
38768117 GCATGTAAGACCATGTCTGGGACATTGGCAT
1 -CGTGTAAGACCACGTCTGGGACATTGGCAT
38768148 TGTACAATAT
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 27 0.29
42 14 0.15
43 53 0.56
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
Found at i:38768093 original size:84 final size:84
Alignment explanation
Indices: 38767992--38768147 Score: 237
Period size: 84 Copynumber: 1.9 Consensus size: 84
38767982 ATGTGTTCTC
* *
38767992 GTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGATTA-CGTGTAAGAGCATGTCTAGGA
1 GTGTAAGACCACGTCTGGGACAG-TGGCATCGATATGTGA-TAGCATGTAAGACCATGTCTAGGA
38768055 CATTGGCATCGTATTTGATTT
64 CATTGGCATCGTATTTGATTT
*
38768076 GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATAGCATGTAAGACCATGTCTGGGAC
1 GTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATGTGATAGCATGTAAGACCATGTCTAGGAC
38768140 ATTGGCAT
65 ATTGGCAT
38768148 TGTACAATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
83 3 0.05
84 62 0.94
85 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGATATGTGATAGCATGTAAGACCATGTCTAGGACA
TTGGCATCGTATTTGATTT
Found at i:38772913 original size:15 final size:15
Alignment explanation
Indices: 38772877--38772906 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38772867 TACTCGTAAA
38772877 TACATAAACTCATAG
1 TACATAAACTCATAG
38772892 TACATAAACTCATAG
1 TACATAAACTCATAG
38772907 ATCATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
TACATAAACTCATAG
Found at i:38779303 original size:80 final size:80
Alignment explanation
Indices: 38779219--38779367 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38779209 TATGGTAACC
* * * *
38779219 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38779283 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38779299 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38779364 CCGG
66 CCGG
38779368 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38779309 original size:40 final size:38
Alignment explanation
Indices: 38779260--38779367 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38779250 ATCACGATTT
*
38779260 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38779300 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38779340 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38779368 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38787398 original size:80 final size:80
Alignment explanation
Indices: 38787314--38787462 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38787304 TATGGTAACC
* * * *
38787314 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38787378 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38787394 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38787459 CCGG
66 CCGG
38787463 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38787404 original size:40 final size:38
Alignment explanation
Indices: 38787355--38787462 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38787345 ATCACGATTT
*
38787355 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38787395 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38787435 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38787463 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38789346 original size:40 final size:40
Alignment explanation
Indices: 38789286--38789469 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
38789276 TATTCGAATG
* * * *
38789286 ATATCTGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGACTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
38789326 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGACTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
38789366 ATATCC-GAGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGA-CTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
38789406 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGACTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
38789446 ATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGACTAAGACCCGAAGGC
38789470 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.95
41 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGACTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:38797523 original size:27 final size:27
Alignment explanation
Indices: 38797502--38797685 Score: 226
Period size: 27 Copynumber: 6.9 Consensus size: 27
38797492 TTACCCTCAA
*
38797502 TTTACAGAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* * *
38797529 TTTATAAAATCACCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** *
38797556 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
38797583 TTTACAAAATTACCAAAATACCC-TGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
38797609 TTTGTAAAATTACTAAAATACCCTTTG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
38797636 TTTATAAAATTACCAAAATACCCATGG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
38797663 TTTGCAAAATTACTAAAATACCC
1 TTTACAAAATTACCAAAATACCC
38797686 CTGTAGGGTA
Statistics
Matches: 134, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.17
27 111 0.83
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:38797630 original size:53 final size:53
Alignment explanation
Indices: 38797509--38797685 Score: 291
Period size: 54 Copynumber: 3.3 Consensus size: 53
38797499 CAATTTACAG
* *
38797509 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCCTGGTTTGTAA
*
38797563 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTGGTTTGTAA
* *
38797616 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-TGGTTTGTAA
38797670 AATTACTAAAATACCC
1 AATTACTAAAATACCC
38797686 CTGTAGGGTA
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
53 54 0.47
54 62 0.53
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (53 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTGGTTTGTAA
Found at i:38797698 original size:27 final size:27
Alignment explanation
Indices: 38797533--38797731 Score: 99
Period size: 27 Copynumber: 7.4 Consensus size: 27
38797523 CCTTGGTTTA
* **
38797533 TAAAATCACCAAAATACCCCTGGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* *
38797560 TAAAATTACTAAAATA-CCCT-T-GGTT
1 TAAAATTACCAAAATACCCCTGTAGG-G
**
38797585 TACAAAATTACCAAAATA-CCCTGGT-TTG
1 T--AAAATTACCAAAATACCCCT-GTAGGG
* * ***
38797613 TAAAATTACTAAAATACCCTTTGT-TTA
1 TAAAATTACCAAAATACCC-CTGTAGGG
* **
38797640 TAAAATTACCAAAATACCCATGGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* *
38797667 CAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
* *
38797694 TAAAATTACCGAAATACCCTTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
*
38797721 TAGAATTACCA
1 TAAAATTACCA
38797732 TTTGCCCCTA
Statistics
Matches: 137, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 21 0.15
27 111 0.81
28 2 0.01
29 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGTAGGG
Found at i:38797698 original size:54 final size:52
Alignment explanation
Indices: 38797509--38797713 Score: 221
Period size: 54 Copynumber: 3.8 Consensus size: 52
38797499 CAATTTACAG
* * ** *
38797509 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTGGATAAAATTACCAAAATA-CCCTGGTTTGTAA
* ** *
38797563 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTGGATAAAATTACCAAAATACCCTGGTTTGTAA
* ** *
38797616 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCC-CTGTGGATAAAATTACCAAAATACCC-TGGTTTGTAA
* *
38797670 AATTACTAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCT
1 AATTACTAAAATACCCCTGT-GGATAAAATTACCAAAATACCCT
38797714 TGTAGGGTAG
Statistics
Matches: 138, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
53 56 0.41
54 82 0.59
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (52 bp):
AATTACTAAAATACCCCTGTGGATAAAATTACCAAAATACCCTGGTTTGTAA
Found at i:38797699 original size:107 final size:106
Alignment explanation
Indices: 38797509--38797713 Score: 297
Period size: 107 Copynumber: 1.9 Consensus size: 106
38797499 CAATTTACAG
* *
38797509 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGCAAAATTACTAAAA
*
38797574 TACCCTTGGTTTACAAAATTACCAAAATACCCTGGTTTGTAA
66 TACCCTTGGTGTA-AAAATTACCAAAATACCCTGGTTTGTAA
* * *
38797616 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAA
1 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGCAAAATTACTAAAA
*
38797681 TACCCCTGTAGG-GT-AAAATTACCGAAATACCCT
66 TA-CCCT-T-GGTGTAAAAATTACCAAAATACCCT
38797714 TGTAGGGTAG
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
107 80 0.91
108 4 0.05
109 2 0.02
110 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (106 bp):
AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGCAAAATTACTAAAA
TACCCTTGGTGTAAAAATTACCAAAATACCCTGGTTTGTAA
Found at i:38801432 original size:27 final size:27
Alignment explanation
Indices: 38801362--38801595 Score: 145
Period size: 27 Copynumber: 8.7 Consensus size: 27
38801352 CTCGACTTGT
*
38801362 AAAATTACCAAAGTACTCC-CGATTTAC
1 AAAATTACCAAAATAC-CCTCGATTTAC
* **** *
38801389 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* * * *
38801416 AGAATTACCAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
* * **
38801443 AAAATCACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTAC
* * *
38801470 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* **
38801497 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTAC
* * *
38801524 AAAATTACTAAAATACCCTTTG-TTTAT
1 AAAATTACCAAAATACCC-TCGATTTAC
* *
38801551 AAAATTACCAAAATACCCAT-GGTTTGC
1 AAAATTACCAAAATACCC-TCGATTTAC
*
38801578 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
38801596 CTGTAGGGTA
Statistics
Matches: 165, Mismatches: 35, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.02
27 161 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTAC
Found at i:38801460 original size:54 final size:54
Alignment explanation
Indices: 38801418--38801595 Score: 302
Period size: 54 Copynumber: 3.3 Consensus size: 54
38801408 CAATTTACAG
* *
38801418 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
38801472 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* * *
38801526 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
38801580 AATTACTAAAATACCC
1 AATTACTAAAATACCC
38801596 CTGTAGGGTA
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:38801607 original size:81 final size:81
Alignment explanation
Indices: 38801411--38801625 Score: 252
Period size: 81 Copynumber: 2.7 Consensus size: 81
38801401 TTACCCTCAA
* * *** * *
38801411 TTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTGGTTTATAAAATT
* *
38801476 ACTAAAATACCCTTGG
66 ACCAAAATACCCATGG
** * * *
38801492 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTGGTTTATAAAATT
38801557 ACCAAAATACCCATGG
66 ACCAAAATACCCATGG
* * * *
38801573 TTTGCAAAATTACTAAAATACCCCT-GTAGGGTAAAATTATCGAAATACCCCTG
1 TTTACAAAATTACCAAAATACCCCTGGT-GGGTAAAATTACCAAAATACCCCTG
38801626 TAGGGTAGAA
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
80 2 0.02
81 112 0.98
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTGGTTTATAAAATT
ACCAAAATACCCATGG
Found at i:38801608 original size:27 final size:26
Alignment explanation
Indices: 38801418--38801626 Score: 186
Period size: 27 Copynumber: 7.8 Consensus size: 26
38801408 CAATTTACAG
* * *
38801418 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACTAAAATACCCCT-GTTTGTAA
* *
38801445 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTTTGTAA
* **
38801472 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCCT-GTTTGTAA
*
38801499 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTTTGTAA
* *
38801526 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACTAAAATACCC-CTGTTTGTAA
* * *
38801553 AATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCCCT-GTTTGTAA
**
38801580 AATTACTAAAATACCCCTGTAGGGTAA
1 AATTACTAAAATACCCCTGT-TTGTAA
*
38801607 AATTA-TCGAAATACCCCTGT
1 AATTACT-AAAATACCCCTGT
38801627 AGGGTAGAAT
Statistics
Matches: 153, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
26 4 0.03
27 148 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (26 bp):
AATTACTAAAATACCCCTGTTTGTAA
Found at i:38801608 original size:54 final size:53
Alignment explanation
Indices: 38801418--38801625 Score: 227
Period size: 54 Copynumber: 3.8 Consensus size: 53
38801408 CAATTTACAG
* * ** *
38801418 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTGGATAAAATTACCAAAATACCCCTGGTTTGTAA
* ** *
38801472 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTGGATAAAATTACCAAAATACCCCTGGTTTGTAA
* ** * *
38801526 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCC-CTGTGGATAAAATTACCAAAATACCCCTGGTTTGTAA
* * *
38801580 AATTACTAAAATACCCCTGTAGGGTAAAATTATCGAAATACCCCTG
1 AATTACTAAAATACCCCTGT-GGATAAAATTACCAAAATACCCCTG
38801626 TAGGGTAGAA
Statistics
Matches: 139, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 3 0.02
54 134 0.96
55 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
AATTACTAAAATACCCCTGTGGATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:38803953 original size:46 final size:46
Alignment explanation
Indices: 38803900--38804075 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
38803890 TATTTGGGCA
38803900 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
38803946 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
38803993 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
38804039 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38804076 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:38804034 original size:93 final size:93
Alignment explanation
Indices: 38803896--38804067 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
38803886 GGGATATTTG
* * *
38803896 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
38803961 TTGAGTCCAAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
*
38803989 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
38804054 TTGAGTCCGAGTTC
66 TTGAGTCCAAGTTC
38804068 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:38808130 original size:27 final size:27
Alignment explanation
Indices: 38808107--38808283 Score: 239
Period size: 27 Copynumber: 6.6 Consensus size: 27
38808097 CAATTTACAG
38808107 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
38808134 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38808161 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
38808188 AATTACCAAAATACCC-TGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38808214 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* **
38808241 AATTACCAAAATACCCATGGTTTGCAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
38808268 AATTACTAAAATACCC
1 AATTACCAAAATACCC
38808284 CTGTAGGGTA
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 23 0.18
27 106 0.82
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:38808165 original size:54 final size:54
Alignment explanation
Indices: 38808107--38808283 Score: 293
Period size: 54 Copynumber: 3.3 Consensus size: 54
38808097 CAATTTACAG
* *
38808107 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
38808161 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* * *
38808214 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
38808268 AATTACTAAAATACCC
1 AATTACTAAAATACCC
38808284 CTGTAGGGTA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
53 51 0.44
54 64 0.56
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:38808296 original size:27 final size:26
Alignment explanation
Indices: 38808186--38808327 Score: 94
Period size: 27 Copynumber: 5.4 Consensus size: 26
38808176 CTTGGTTTAC
**
38808186 AAAATTACCAAAATACCCTGGT-TTGT
1 AAAATTACCAAAATACCCT-GTAGGGT
* ***
38808212 AAAATTACTAAAATACCCTTTGT-TTAT
1 AAAATTACCAAAATACCC--TGTAGGGT
** *
38808239 AAAATTACCAAAATACCCATGGT-TTGC
1 AAAATTACCAAAATACCC-T-GTAGGGT
*
38808266 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATA-CCCTGTAGGGT
*
38808293 AAAATTACCGAAATACCCTGTAGGGT
1 AAAATTACCAAAATACCCTGTAGGGT
*
38808319 -AGATTACCA
1 AAAATTACCA
38808328 TTTTGCCCCT
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.07
26 31 0.32
27 55 0.57
28 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGTAGGGT
Found at i:38808296 original size:54 final size:52
Alignment explanation
Indices: 38808107--38808312 Score: 223
Period size: 54 Copynumber: 3.8 Consensus size: 52
38808097 CAATTTACAG
* * ** *
38808107 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTGGATAAAATTACCAAAATA-CCCTGGTTTGTAA
* ** *
38808161 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTGGATAAAATTACCAAAATACCCTGGTTTGTAA
* ** *
38808214 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCC-CTGTGGATAAAATTACCAAAATACCC-TGGTTTGTAA
* *
38808268 AATTACTAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTG
1 AATTACTAAAATACCCCTGT-GGATAAAATTACCAAAATACCCTG
38808313 TAGGGTAGAT
Statistics
Matches: 139, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
53 57 0.41
54 82 0.59
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (52 bp):
AATTACTAAAATACCCCTGTGGATAAAATTACCAAAATACCCTGGTTTGTAA
Found at i:38808297 original size:107 final size:106
Alignment explanation
Indices: 38808107--38808312 Score: 299
Period size: 107 Copynumber: 1.9 Consensus size: 106
38808097 CAATTTACAG
* *
38808107 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGCAAAATTACTAAAA
*
38808172 TACCCTTGGTTTACAAAATTACCAAAATACCCTGGTTTGTAA
66 TACCCTTGGTGTA-AAAATTACCAAAATACCCTGGTTTGTAA
* * *
38808214 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAA
1 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGCAAAATTACTAAAA
*
38808279 TACCCCTGTAGG-GT-AAAATTACCGAAATACCCTG
66 TA-CCCT-T-GGTGTAAAAATTACCAAAATACCCTG
38808313 TAGGGTAGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
107 81 0.91
108 4 0.04
109 2 0.02
110 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (106 bp):
AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGCAAAATTACTAAAA
TACCCTTGGTGTAAAAATTACCAAAATACCCTGGTTTGTAA
Found at i:38808318 original size:26 final size:27
Alignment explanation
Indices: 38808131--38808327 Score: 90
Period size: 27 Copynumber: 7.4 Consensus size: 27
38808121 CCTTGGTTTA
* **
38808131 TAAAATCACCAAAATACCCCTGGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* *
38808158 TAAAATTACTAAAATA-CCCT-T-GGTT
1 TAAAATTACCAAAATACCCCTGTAGG-G
**
38808183 TACAAAATTACCAAAATA-CCCTGGT-TTG
1 T--AAAATTACCAAAATACCCCT-GTAGGG
* * ***
38808211 TAAAATTACTAAAATACCCTTTGT-TTA
1 TAAAATTACCAAAATACCC-CTGTAGGG
* **
38808238 TAAAATTACCAAAATACCCATGGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* *
38808265 CAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
*
38808292 TAAAATTACCGAAATA-CCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
*
38808318 T-AGATTACCA
1 TAAAATTACCA
38808328 TTTTGCCCCT
Statistics
Matches: 136, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
24 1 0.01
25 8 0.06
26 32 0.24
27 92 0.68
28 2 0.01
29 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGTAGGG
Found at i:38812028 original size:27 final size:27
Alignment explanation
Indices: 38811933--38812190 Score: 157
Period size: 27 Copynumber: 9.6 Consensus size: 27
38811923 TTAGTTTACC
* * * **
38811933 AATTACTAAAATGCCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGATTTACAA
* *
38811960 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCGATTTACAA
**** * *
38811987 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCGATTTACAA
* * *
38812014 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTACAA
* * **
38812041 AATCACCAAAATACCCT-GGTTTGTAA
1 AATTACCAAAATACCCTCGATTTACAA
* * *
38812067 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTCGATTTACAA
* **
38812094 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTACAA
* * *
38812121 AATTACTAAAATACCCTTTG-TTTATAA
1 AATTACCAAAATACCC-TCGATTTACAA
* *
38812148 AATTACCAAAATACCCAT-GGTTTGCAA
1 AATTACCAAAATACCC-TCGATTTACAA
*
38812175 AATTACTAAAATACCC
1 AATTACCAAAATACCC
38812191 CTGTAGGGTA
Statistics
Matches: 185, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 26 0.14
27 156 0.84
28 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTACAA
Found at i:38812079 original size:53 final size:53
Alignment explanation
Indices: 38812014--38812190 Score: 291
Period size: 54 Copynumber: 3.3 Consensus size: 53
38812004 CAATTTACAG
* *
38812014 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTGGTTTGTAA
*
38812067 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCCTGGTTTGTAA
* *
38812121 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-TGGTTTGTAA
38812175 AATTACTAAAATACCC
1 AATTACTAAAATACCC
38812191 CTGTAGGGTA
Statistics
Matches: 116, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
53 40 0.34
54 76 0.66
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (53 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTGGTTTGTAA
Found at i:38812186 original size:81 final size:80
Alignment explanation
Indices: 38812007--38812193 Score: 266
Period size: 81 Copynumber: 2.3 Consensus size: 80
38811997 TTACCCTCAA
* * *
38812007 TTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCTGGTTTGTAAAATTA
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCTGGTTTATAAAATTA
* *
38812072 CTAAAATACCCTTGG
66 CCAAAATACCCATGG
* * * *
38812087 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCC-TGGTTTATAAAATT
38812152 ACCAAAATACCCATGG
65 ACCAAAATACCCATGG
* *
38812168 TTTGCAAAATTACTAAAATACCCCTG
1 TTTACAAAATTACCAAAATACCCCTG
38812194 TAGGGTAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 45 0.47
81 50 0.53
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (80 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCTGGTTTATAAAATTA
CCAAAATACCCATGG
Found at i:38812202 original size:81 final size:81
Alignment explanation
Indices: 38812007--38812218 Score: 257
Period size: 81 Copynumber: 2.6 Consensus size: 81
38811997 TTACCCTCAA
* * *** * *
38812007 TTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCC-TGGTTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCTTGGTTTATAAAATT
* *
38812071 ACTAAAATACCCTTGG
66 ACCAAAATACCCATGG
** * *
38812087 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCTTGGTTTATAAAATT
38812152 ACCAAAATACCCATGG
66 ACCAAAATACCCATGG
* * *
38812168 TTTGCAAAATTACTAAAATACCCCT-GTAGGGTAAAATTACCGAAATACCCT
1 TTTACAAAATTACCAAAATACCCCTGGT-GGGTAAAATTACCAAAATACCCT
38812219 GTAGGGTAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
80 47 0.41
81 68 0.59
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAATACCCTTGGTTTATAAAATT
ACCAAAATACCCATGG
Found at i:38812203 original size:27 final size:26
Alignment explanation
Indices: 38812014--38812235 Score: 119
Period size: 27 Copynumber: 8.3 Consensus size: 26
38812004 CAATTTACAG
* ***
38812014 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCT-GTGGGTAA
* **
38812041 AATCACCAAAATA-CCCTGGTTTGTAA
1 AATTACCAAAATACCCCT-GTGGGTAA
* *
38812067 AATTACTAAAATA-CCCT-TGGTTTACAA
1 AATTACCAAAATACCCCTGTGG-GT--AA
**
38812094 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCT-GTGGGTAA
* * ***
38812121 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCC-CTGTGGGTAA
* ** *
38812148 AATTACCAAAATACCCATGGTTTGCAA
1 AATTACCAAAATACCCCT-GTGGGTAA
*
38812175 AATTACTAAAATACCCCTGTAGGGTAA
1 AATTACCAAAATACCCCTGT-GGGTAA
* *
38812202 AATTACCGAAATA-CCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGT-GGGTAA
38812228 AATTACCA
1 AATTACCA
38812236 TTTTGCCCCT
Statistics
Matches: 158, Mismatches: 28, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 48 0.30
27 101 0.64
28 5 0.03
29 1 0.01
30 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCCTGTGGGTAA
Found at i:38812203 original size:54 final size:52
Alignment explanation
Indices: 38812014--38812219 Score: 223
Period size: 54 Copynumber: 3.8 Consensus size: 52
38812004 CAATTTACAG
* * ** *
38812014 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTGGATAAAATTACCAAAATACCCTGGTTTGTAA
* ** *
38812067 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTGGATAAAATTACCAAAATA-CCCTGGTTTGTAA
* ** *
38812121 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCC-CTGTGGATAAAATTACCAAAATACCC-TGGTTTGTAA
* *
38812175 AATTACTAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTG
1 AATTACTAAAATACCCCTGT-GGATAAAATTACCAAAATACCCTG
38812220 TAGGGTAGAA
Statistics
Matches: 139, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
53 45 0.32
54 92 0.66
55 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (52 bp):
AATTACTAAAATACCCCTGTGGATAAAATTACCAAAATACCCTGGTTTGTAA
Found at i:38817391 original size:29 final size:29
Alignment explanation
Indices: 38817358--38817459 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
38817348 TGACGAGATC
38817358 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
38817387 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
38817416 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
38817445 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
38817460 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:38818958 original size:27 final size:27
Alignment explanation
Indices: 38818928--38818998 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
38818918 CGACTTGTAA
* *
38818928 AATTACCAAAGTACTCTCGATTTACAG
1 AATTACCAAAGTACCCTCAATTTACAG
* ****
38818955 AATTATCGTTTTACCCTCAATTTACAG
1 AATTACCAAAGTACCCTCAATTTACAG
*
38818982 AATTACCAAAATACCCT
1 AATTACCAAAGTACCCT
38818999 TGGTTTATAA
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCAATTTACAG
Found at i:38819005 original size:27 final size:27
Alignment explanation
Indices: 38818982--38819159 Score: 241
Period size: 27 Copynumber: 6.6 Consensus size: 27
38818972 CAATTTACAG
38818982 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
38819009 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38819036 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38819063 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38819090 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
38819117 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
38819144 AATTACTAAAATACCC
1 AATTACCAAAATACCC
38819160 CTATAGGGTA
Statistics
Matches: 130, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 129 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:38819024 original size:54 final size:54
Alignment explanation
Indices: 38818982--38819159 Score: 302
Period size: 54 Copynumber: 3.3 Consensus size: 54
38818972 CAATTTACAG
* *
38818982 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
38819036 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* * *
38819090 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
38819144 AATTACTAAAATACCC
1 AATTACTAAAATACCC
38819160 CTATAGGGTA
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:38819171 original size:81 final size:81
Alignment explanation
Indices: 38818975--38819189 Score: 236
Period size: 81 Copynumber: 2.7 Consensus size: 81
38818965 TTACCCTCAA
* * * *** * *
38818975 TTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCCTGATGGGTAAAATTACCAAAATACCCCTGGTTTATAAAATT
* *
38819040 ACTAAAATACCCTTGG
66 ACCAAAATACCCATGG
* ** * * *
38819056 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGATGGGTAAAATTACCAAAATACCCCTGGTTTATAAAATT
38819121 ACCAAAATACCCATGG
66 ACCAAAATACCCATGG
* *
38819137 TTTGA-AAAATTACTAAAATACCCCT-ATAGGGTAAAATTACCGAAATACCCCTG
1 TTT-ACAAAATTACCAAAATACCCCTGAT-GGGTAAAATTACCAAAATACCCCTG
38819190 TAGGGTAGAA
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 112 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTGATGGGTAAAATTACCAAAATACCCCTGGTTTATAAAATT
ACCAAAATACCCATGG
Found at i:38819172 original size:27 final size:27
Alignment explanation
Indices: 38819142--38819205 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
38819132 CATGGTTTGA
*
38819142 AAAATTACTAAAATACCCCTATAGGGT
1 AAAATTACCAAAATACCCCTATAGGGT
* *
38819169 AAAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTATAGGGT
*
38819196 AGAATTACCA
1 AAAATTACCA
38819206 TTTTGCCCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.23
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTATAGGGT
Found at i:38819172 original size:54 final size:51
Alignment explanation
Indices: 38818982--38819189 Score: 236
Period size: 54 Copynumber: 3.8 Consensus size: 51
38818972 CAATTTACAG
* *
38818982 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGG---ATAAAATTACCAAAATACCCCTGGTTTGTAA
*
38819036 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGG---ATAAAATTACCAAAATACCCCTGGTTTGTAA
* * *
38819090 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCC-TTG--GATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
38819144 AATTACTAAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTG
1 AATTACTAAAATA-CCCT-T-GGATAAAATTACCAAAATACCCCTG
38819190 TAGGGTAGAA
Statistics
Matches: 137, Mismatches: 11, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
54 129 0.94
55 7 0.05
56 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (51 bp):
AATTACTAAAATACCCTTGGATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:38822902 original size:27 final size:26
Alignment explanation
Indices: 38822834--38822902 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 26
38822824 CGACTTGTAA
* *
38822834 AATTACCAAAGTACTCCCGATTTACAG
1 AATTACCAAAATAC-CCCAATTTACAG
****
38822861 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCC-CAATTTACAG
38822888 AATTACCAAAATACC
1 AATTACCAAAATACC
38822903 TTGGTTTATA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCCAATTTACAG
Found at i:38822942 original size:27 final size:27
Alignment explanation
Indices: 38822888--38823066 Score: 218
Period size: 27 Copynumber: 6.7 Consensus size: 27
38822878 CAATTTACAG
*
38822888 AATTACCAAAATA-CCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTATAA
* *
38822914 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAA
* * *
38822941 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTATAA
*
38822968 AATTACCAAAATA-CCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAA
* * *
38822994 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCCTGGTTTATAA
* **
38823021 AATTACCAAAATACCCATGGTTTGCAA
1 AATTACCAAAATACCCCTGGTTTATAA
*
38823048 AATTACTAAAATACCCCTG
1 AATTACCAAAATACCCCTG
38823067 TAGGGTAAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 34 0.27
27 94 0.73
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTATAA
Found at i:38822945 original size:53 final size:54
Alignment explanation
Indices: 38822888--38823063 Score: 284
Period size: 53 Copynumber: 3.3 Consensus size: 54
38822878 CAATTTACAG
* *
38822888 AATTACCAAAATA-CCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
38822941 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* * *
38822994 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
38823048 AATTACTAAAATACCC
1 AATTACTAAAATACCC
38823064 CTGTAGGGTA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
53 63 0.55
54 51 0.45
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:38822945 original size:80 final size:80
Alignment explanation
Indices: 38822872--38823063 Score: 224
Period size: 80 Copynumber: 2.4 Consensus size: 80
38822862 ATTACCGTTT
* *
38822872 TACCCTCAATTTACAGAATTACCAAAATACCTTGGTTTATAAAATCACCAAAATACCCCTGGTTT
1 TACCCTCAATTTACAAAATTACCAAAATACCCTGGTTTATAAAATCACCAAAATACCCCTGGTTT
* *
38822937 GTAAAATTACTAAAA
66 ATAAAATTACCAAAA
*** * * * * *
38822952 TACCCTTGGTTTACAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTT
1 TACCCTCAATTTACAAAATTACCAAAATACCCTGGTTTATAAAATCACCAAAATACCCCTGGTTT
38823017 ATAAAATTACCAAAA
66 ATAAAATTACCAAAA
** * *
38823032 TACCCAT-GGTTTGCAAAATTACTAAAATACCC
1 TACCC-TCAATTTACAAAATTACCAAAATACCC
38823064 CTGTAGGGTA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 96 0.99
81 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
TACCCTCAATTTACAAAATTACCAAAATACCCTGGTTTATAAAATCACCAAAATACCCCTGGTTT
ATAAAATTACCAAAA
Found at i:38823076 original size:27 final size:26
Alignment explanation
Indices: 38822966--38823108 Score: 103
Period size: 27 Copynumber: 5.4 Consensus size: 26
38822956 CTTGGTTTAC
**
38822966 AAAATTACCAAAATACCCTGGT-TTGT
1 AAAATTACCAAAATACCCT-GTAGGGT
* ***
38822992 AAAATTACTAAAATACCCTTTGT-TTAT
1 AAAATTACCAAAATACCC--TGTAGGGT
** *
38823019 AAAATTACCAAAATACCCATGGT-TTGC
1 AAAATTACCAAAATACCC-T-GTAGGGT
*
38823046 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATA-CCCTGTAGGGT
*
38823073 AAAATTACCGAAATACCCTGTAGGGT
1 AAAATTACCAAAATACCCTGTAGGGT
*
38823099 AGAATTACCA
1 AAAATTACCA
38823109 TTTTGCCCCT
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
26 39 0.40
27 55 0.56
28 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGTAGGGT
Found at i:38823076 original size:54 final size:52
Alignment explanation
Indices: 38822910--38823092 Score: 222
Period size: 54 Copynumber: 3.4 Consensus size: 52
38822900 ACCTTGGTTT
* * **
38822910 ATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTT
1 ATAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACTAAAATACCCCT-GTGG
* * **
38822964 ACAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTT
1 ATAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCC-CTGTGG
*
38823017 ATAAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCCCTGTAGG
1 ATAAAATTACCAAAATACCC-TGGTTTGTAAAATTACTAAAATACCCCTGT-GG
* *
38823071 GTAAAATTACCGAAATACCCTG
1 ATAAAATTACCAAAATACCCTG
38823093 TAGGGTAGAA
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
53 57 0.49
54 60 0.51
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (52 bp):
ATAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCCCTGTGG
Found at i:38823098 original size:26 final size:27
Alignment explanation
Indices: 38822911--38823108 Score: 99
Period size: 27 Copynumber: 7.4 Consensus size: 27
38822901 CCTTGGTTTA
* **
38822911 TAAAATCACCAAAATACCCCTGGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* *
38822938 TAAAATTACTAAAATA-CCCT-T-GGTT
1 TAAAATTACCAAAATACCCCTGTAGG-G
**
38822963 TACAAAATTACCAAAATA-CCCTGGT-TTG
1 T--AAAATTACCAAAATACCCCT-GTAGGG
* * ***
38822991 TAAAATTACTAAAATACCCTTTGT-TTA
1 TAAAATTACCAAAATACCC-CTGTAGGG
* **
38823018 TAAAATTACCAAAATACCCATGGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* *
38823045 CAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
*
38823072 TAAAATTACCGAAATA-CCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
*
38823098 TAGAATTACCA
1 TAAAATTACCA
38823109 TTTTGCCCCT
Statistics
Matches: 137, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 40 0.29
27 92 0.67
28 2 0.01
29 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGTAGGG
Found at i:38826812 original size:27 final size:27
Alignment explanation
Indices: 38826789--38826962 Score: 212
Period size: 27 Copynumber: 6.6 Consensus size: 27
38826779 CAATTTACAG
38826789 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
38826816 AATCACCAAAATACCCCT-GTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
38826842 AATTACTAAAATACCCTTGG-TT-TAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38826867 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38826894 AATTACTAAAATA-CCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* **
38826920 AATTACCAAAATACCCATGGTTTGCAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
38826947 AATTACTAAAATACCC
1 AATTACCAAAATACCC
38826963 CTGTAGGGTA
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
25 21 0.17
26 48 0.38
27 56 0.45
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:38826921 original size:78 final size:79
Alignment explanation
Indices: 38826789--38826989 Score: 253
Period size: 78 Copynumber: 2.5 Consensus size: 79
38826779 CAATTTACAG
* * * * * *
38826789 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGTTTGTAAAATTACTAAAAT
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGTTTATAAAATTACCAAAAT
*
38826854 ACCCTTGGTTT-AA
66 ACCCATGGTTTCAA
**
38826867 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGTTTATAAAATTACCAAAAT
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGTTTATAAAATTACCAAAAT
38826932 ACCCATGGTTTGCAA
66 ACCCATGGTTT-CAA
* ** *
38826947 AATTACTAAAATACCCCT-GTAGGGTAAAATTACTGAAATACCC
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCC
38826990 TGTAGGGTAA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
78 67 0.63
79 2 0.02
80 37 0.35
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (79 bp):
AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGTTTATAAAATTACCAAAAT
ACCCATGGTTTCAA
Found at i:38826941 original size:53 final size:53
Alignment explanation
Indices: 38826789--38826961 Score: 260
Period size: 53 Copynumber: 3.3 Consensus size: 53
38826779 CAATTTACAG
* * *
38826789 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCT-GTTTGTAA
1 AATTACTAAAATA-CCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
38826842 AATTACTAAAATACCCTTGGTT-TAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
38826894 AATTACTAAAATACCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
38826947 AATTACTAAAATACC
1 AATTACTAAAATACC
38826962 CCTGTAGGGT
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
51 20 0.18
52 34 0.31
53 55 0.50
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
AATTACTAAAATACCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:38826975 original size:27 final size:26
Alignment explanation
Indices: 38826789--38826989 Score: 206
Period size: 27 Copynumber: 7.6 Consensus size: 26
38826779 CAATTTACAG
* * *
38826789 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACTAAAATACCCCT-GTTTGTAA
* *
38826816 AATCACCAAAATACCCCTGTTTGTAA
1 AATTACTAAAATACCCCTGTTTGTAA
* *
38826842 AATTACTAAAATACCCTTGGTT-TAA
1 AATTACTAAAATACCCCTGTTTGTAA
*
38826867 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTTTGTAA
** *
38826894 AATTACTAAAATACCTTTGTTTATAA
1 AATTACTAAAATACCCCTGTTTGTAA
* * *
38826920 AATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCCCT-GTTTGTAA
**
38826947 AATTACTAAAATACCCCTGTAGGGTAA
1 AATTACTAAAATACCCCTGT-TTGTAA
*
38826974 AATTACTGAAATACCC
1 AATTACTAAAATACCC
38826990 TGTAGGGTAA
Statistics
Matches: 145, Mismatches: 25, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
25 19 0.13
26 52 0.36
27 74 0.51
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
AATTACTAAAATACCCCTGTTTGTAA
Found at i:38838832 original size:29 final size:28
Alignment explanation
Indices: 38838798--38838929 Score: 124
Period size: 29 Copynumber: 4.6 Consensus size: 28
38838788 TAATCGATCA
*
38838798 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
38838827 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
38838856 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
38838885 TGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
* *
38838914 TGCATACTTAGTGCCA
1 CGCACACTTAGTGCCA
38838930 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.03
29 85 0.96
30 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:38841321 original size:24 final size:24
Alignment explanation
Indices: 38841288--38841388 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
38841278 AAGGTTGTCA
* *
38841288 GGAGAAGATTTGGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
38841312 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
38841336 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
38841360 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
38841384 GGAGA
1 GGAGA
38841389 ACGGTGTTGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.33, C:0.04, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:38841387 original size:12 final size:12
Alignment explanation
Indices: 38841294--38841387 Score: 50
Period size: 12 Copynumber: 7.8 Consensus size: 12
38841284 GTCAGGAGAA
*
38841294 GATTTGGGAGCT
1 GATTAGGGAGCT
* **
38841306 GATAAGGGAGAG
1 GATTAGGGAGCT
38841318 GATTTA-GGAGCT
1 GA-TTAGGGAGCT
* **
38841330 GATAAGGGAGAG
1 GATTAGGGAGCT
38841342 GATTTA-GGAGCT
1 GA-TTAGGGAGCT
* **
38841354 GATAAGGGAGAG
1 GATTAGGGAGCT
38841366 GATTTA-GGAGCT
1 GA-TTAGGGAGCT
38841378 GATTAGGGAG
1 GATTAGGGAG
38841388 AACGGTGTTG
Statistics
Matches: 57, Mismatches: 19, Indels: 12
0.65 0.22 0.14
Matches are distributed among these distances:
11 7 0.12
12 44 0.77
13 6 0.11
ACGTcount: A:0.31, C:0.04, G:0.43, T:0.22
Consensus pattern (12 bp):
GATTAGGGAGCT
Found at i:38842857 original size:27 final size:27
Alignment explanation
Indices: 38842817--38842931 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
38842807 AGGAAGTGTC
* * *
38842817 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTAGCTCTGCCACATTTATCTGTT
*
38842844 CTGGTAGCTCTGCCACATATATCTGTT
1 CTGGTAGCTCTGCCACATTTATCTGTT
* *
38842871 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTAGCTCTGCCACATTTATCTGTT
* * *
38842898 TTGGT-GACCCTGTCACA-TTATCTGTT
1 CTGGTAG-CTCTGCCACATTTATCTGTT
38842924 CTGGTAGC
1 CTGGTAGC
38842932 CATGCTGGAT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
26 15 0.20
27 60 0.80
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTAGCTCTGCCACATTTATCTGTT
Found at i:38842915 original size:54 final size:53
Alignment explanation
Indices: 38842817--38842928 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
38842807 AGGAAGTGTC
* *
38842817 CTGGTGGCTATGCCACATTTATCTGATCTGGTAGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTAGCCCTGCCACAT-TATCTGTT
* * * *
38842871 CTGGTGGCTCTGCCACAATTATCTGTTTTGGT-GACCCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTAG-CCCTGCCACATTATCTGTT
38842924 CTGGT
1 CTGGT
38842929 AGCCATGCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 14 0.27
54 37 0.73
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTAGCCCTGCCACATTATCTGTT
Found at i:38845427 original size:49 final size:49
Alignment explanation
Indices: 38845350--38845481 Score: 180
Period size: 49 Copynumber: 2.7 Consensus size: 49
38845340 CTTATTGTGT
38845350 GTCAGTGTAAGAC-TGTTTGGGACATGGCATCGACAC-CAATAGATGAAA
1 GTCAGTGTAAGACTTGTTTGGGACATGGCATCGAC-CTCAATAGATGAAA
* * * *
38845398 -TCCAGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
1 GT-CAGTGTAAGACTTGTTTGGGACATGGCATCGACCTCAATAGATGAAA
*
38845447 GTTAGTGTAAGACTTGTTTGGGACATGGCATCGAC
1 GTCAGTGTAAGACTTGTTTGGGACATGGCATCGAC
38845482 TTTGGTGTGT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
47 1 0.01
48 12 0.16
49 59 0.81
50 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (49 bp):
GTCAGTGTAAGACTTGTTTGGGACATGGCATCGACCTCAATAGATGAAA
Found at i:38848192 original size:26 final size:26
Alignment explanation
Indices: 38848163--38848212 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
38848153 CAAAATTAGT
38848163 TAAAGTGTATGTCACCAATTTTGAGG
1 TAAAGTGTATGTCACCAATTTTGAGG
38848189 TAAAGTGTATGTCACCAATTTTGA
1 TAAAGTGTATGTCACCAATTTTGA
38848213 CAAGTTGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (26 bp):
TAAAGTGTATGTCACCAATTTTGAGG
Found at i:38856504 original size:46 final size:43
Alignment explanation
Indices: 38856451--38856658 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 43
38856441 ATTGTAGGCT
*
38856451 AGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCAT-TGA-GAGAGCC
* ***
38856497 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAATAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCATTGAGA-G-AGCC
* * *
38856544 AGTGTAAGATATGTCTGGGACATGCATCGTCC-TCGGGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCATTGAGA-G--AGCC
* * * * *
38856590 AGTGTAAGACATGTCTGGGACATGCATCAGCTA-CGAAATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCATTGAGA-GAGCC
38856634 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
38856659 GCGTCGGCAT
Statistics
Matches: 134, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.08
45 29 0.22
46 60 0.45
47 28 0.21
48 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATTGAGAGAGCC
Found at i:38858839 original size:39 final size:41
Alignment explanation
Indices: 38858764--38858846 Score: 143
Period size: 39 Copynumber: 2.0 Consensus size: 41
38858754 TATGCGTCCG
38858764 TTGTTTGAAAGGTACAAGTGTTGTTCCATTTTGCATCTATCA
1 TTGTTTGAAAGGTACAAG-GTTGTTCCATTTTGCATCTATCA
38858806 TTGTTTGAAAGGTACAA-G-TGTTCCATTTTGCATCTATCA
1 TTGTTTGAAAGGTACAAGGTTGTTCCATTTTGCATCTATCA
38858845 TT
1 TT
38858847 AATGTACTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
39 23 0.56
40 1 0.02
42 17 0.41
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (41 bp):
TTGTTTGAAAGGTACAAGGTTGTTCCATTTTGCATCTATCA
Found at i:38865867 original size:29 final size:30
Alignment explanation
Indices: 38865812--38865869 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
38865802 GCCTTTTGAA
* *
38865812 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
38865842 AATATTTAC-AAAAGA-GCAACCAAATTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTT
38865870 AAAAATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 14 0.56
30 9 0.36
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:38867194 original size:14 final size:15
Alignment explanation
Indices: 38867172--38867200 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38867162 CAAAATAATC
38867172 TGGCTTGCAGTACCT
1 TGGCTTGCAGTACCT
38867187 TGGC-TGCAGTACCT
1 TGGCTTGCAGTACCT
38867201 GTACCTCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.31
Consensus pattern (15 bp):
TGGCTTGCAGTACCT
Found at i:38868192 original size:20 final size:21
Alignment explanation
Indices: 38868147--38868192 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38868137 GTAGTATTTA
**
38868147 AAAAAAAGTTATGGTTTTATT
1 AAAAAAAGTTATGGTTTTAGG
*
38868168 TAAAAAAGTTATGG-TTTAGG
1 AAAAAAAGTTATGGTTTTAGG
38868188 AAAAA
1 AAAAA
38868193 CCATGTTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (21 bp):
AAAAAAAGTTATGGTTTTAGG
Done.