Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 200 of 279
Found at i:65429881 original size:22 final size:21
Alignment explanation
Indices: 65429833--65429874 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
65429823 GCCTAGTCAA
*
65429833 ATTTTTATCACTTATTTATAG
1 ATTTTTATCACTTATTTATAC
65429854 ATTTTTATCACTTATTT-TAC
1 ATTTTTATCACTTATTTATAC
65429874 A
1 A
65429875 CCTTTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTTATCACTTATTTATAC
Found at i:65436933 original size:35 final size:35
Alignment explanation
Indices: 65436875--65437056 Score: 217
Period size: 35 Copynumber: 5.2 Consensus size: 35
65436865 AGTGCCACAA
* *
65436875 TTCACAACTCAGTATGGTTAATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
* * *
65436910 TTCACAACTCGGAATGGGA-AATACCATACCTACGT
1 TTCATAACTCAGTAT-GGATAATACCATACCTACGT
65436945 ATT-ATAGA-TCAGTATGGATAATACCATACCTACGT
1 -TTCATA-ACTCAGTATGGATAATACCATACCTACGT
* *
65436980 ATCATAACTCAGTATGGATAATACCATACTTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
* * *
65437015 GTCATAACTCAGTACGGATAATACCATACCTACAT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
*
65437050 GTCATAA
1 TTCATAA
65437057 TTTTTTCATG
Statistics
Matches: 129, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
34 5 0.04
35 119 0.92
36 5 0.04
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (35 bp):
TTCATAACTCAGTATGGATAATACCATACCTACGT
Found at i:65442938 original size:57 final size:57
Alignment explanation
Indices: 65442868--65442979 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
65442858 ACTGAATTAG
*
65442868 AATATAACGAAAATTCTTGTATTCAAGCTCCTTAAATGTGAAAACTAGTTTAATCAA
1 AATATAACGAAAATTCTTGTATTCAAGCTCCTTAAATGTGAAAACTAATTTAATCAA
*
65442925 AATATAACTAAAATTCTTGTATTCAAGCTCCTTAAATGTGAAAACTAATTTAATC
1 AATATAACGAAAATTCTTGTATTCAAGCTCCTTAAATGTGAAAACTAATTTAATC
65442980 TGCTACACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (57 bp):
AATATAACGAAAATTCTTGTATTCAAGCTCCTTAAATGTGAAAACTAATTTAATCAA
Found at i:65452838 original size:35 final size:35
Alignment explanation
Indices: 65452788--65452855 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
65452778 TTTTGTATCA
* *
65452788 AATCTTTGTCGGTTTATCCGACTAGCGTTGGGCGT
1 AATCTTCGTCAGTTTATCCGACTAGCGTTGGGCGT
* *
65452823 AATCTTCGTCAGTTTATCTGACTAGTGTTGGGC
1 AATCTTCGTCAGTTTATCCGACTAGCGTTGGGC
65452856 ACACCATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.38
Consensus pattern (35 bp):
AATCTTCGTCAGTTTATCCGACTAGCGTTGGGCGT
Found at i:65463215 original size:21 final size:21
Alignment explanation
Indices: 65463189--65463229 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
65463179 TTTAATAATT
65463189 ATAATTAATATATTTTTAAAA
1 ATAATTAATATATTTTTAAAA
** *
65463210 ATAATTTTTTTATTTTTAAA
1 ATAATTAATATATTTTTAAA
65463230 TTCTTTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATAATTAATATATTTTTAAAA
Found at i:65463496 original size:30 final size:30
Alignment explanation
Indices: 65463462--65463521 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65463452 ACAATGTTTA
* * *
65463462 TATTTTTTTTAATTTGATTTTTATTCTTTT
1 TATTTTGTTTAATTTGACTTTTAGTCTTTT
65463492 TATTTTGTTTAATTTGACTTTTAGTCTTTT
1 TATTTTGTTTAATTTGACTTTTAGTCTTTT
65463522 AAAAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.72
Consensus pattern (30 bp):
TATTTTGTTTAATTTGACTTTTAGTCTTTT
Found at i:65481668 original size:46 final size:47
Alignment explanation
Indices: 65481612--65481710 Score: 121
Period size: 50 Copynumber: 2.1 Consensus size: 47
65481602 CAAAATCTTG
65481612 TTTATTTAA-TTAT-TTTCAAATATGATGTTTTAAATAAATACAAATA
1 TTTATTTAATTTATATTT-AAATATGATGTTTTAAATAAATACAAATA
* * *
65481658 TTTATTTAATTTTTTATATTTAAATATGGTGTTTTACATAAATATAAATA
1 TTTATTTAA---TTTATATTTAAATATGATGTTTTAAATAAATACAAATA
65481708 TTT
1 TTT
65481711 GCTTATATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
46 9 0.20
50 33 0.73
51 3 0.07
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (47 bp):
TTTATTTAATTTATATTTAAATATGATGTTTTAAATAAATACAAATA
Found at i:65486157 original size:42 final size:42
Alignment explanation
Indices: 65486107--65486194 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
65486097 ATAATATTAA
*
65486107 TTAA-ATTCAATTTAATTTAAGTATGGTAAAACCTGAACTAT
1 TTAATATTCAATTTAATCTAAGTATGGTAAAACCTGAACTAT
*
65486148 TTAATATTCAATTTGATCTAAGTATGGTAAAACCTGAACTAT
1 TTAATATTCAATTTAATCTAAGTATGGTAAAACCTGAACTAT
65486190 TTAAT
1 TTAAT
65486195 GGATTATGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.09
42 40 0.91
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (42 bp):
TTAATATTCAATTTAATCTAAGTATGGTAAAACCTGAACTAT
Found at i:65488008 original size:23 final size:23
Alignment explanation
Indices: 65487937--65488008 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
65487927 ATCAAAATGT
*
65487937 TTGCCAAAGTTAATTTCTATAAG
1 TTGCAAAAGTTAATTTCTATAAG
*** * * * *
65487960 TAAAAAAAGACTAAATTGTAAAAG
1 TTGCAAAAG-TTAATTTCTATAAG
65487984 TTGCAAAAGTTAATTTCTATAAG
1 TTGCAAAAGTTAATTTCTATAAG
65488007 TT
1 TT
65488009 AAATTATATT
Statistics
Matches: 33, Mismatches: 15, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (23 bp):
TTGCAAAAGTTAATTTCTATAAG
Found at i:65500117 original size:35 final size:35
Alignment explanation
Indices: 65500079--65500188 Score: 106
Period size: 29 Copynumber: 3.1 Consensus size: 35
65500069 TGAACTTTGT
65500079 AACATCAACATGGTGAGAAGAACCCTTGCAACTT-
1 AACATCAACATGGTGAGAAGAACCCTTGCAACTTC
* *
65500113 ----T-AACATGGTGAGAGGAGGAACCATTTCAAACTTCGC
1 AACATCAACATGGTGAGA--A-GAACCCTTGC-AACTT--C
65500149 AACATCAACATGGTGAGAAGAACCCTTGCAACTTC
1 AACATCAACATGGTGAGAAGAACCCTTGCAACTTC
65500184 AACAT
1 AACAT
65500189 GGCAAAAGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 23
0.69 0.05 0.26
Matches are distributed among these distances:
29 12 0.20
30 1 0.02
31 1 0.02
32 8 0.13
33 5 0.08
35 6 0.10
37 5 0.08
38 8 0.13
39 1 0.02
40 1 0.02
41 12 0.20
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (35 bp):
AACATCAACATGGTGAGAAGAACCCTTGCAACTTC
Found at i:65500232 original size:70 final size:70
Alignment explanation
Indices: 65499945--65500233 Score: 296
Period size: 70 Copynumber: 4.1 Consensus size: 70
65499935 CTGCATCTTT
* * * * *
65499945 AACATGGTGGGAAAAACCCTTACAACTTCAAAATGGCGAGAGGAGGGCCCATTTCAAACCTTGCA
1 AACATGGTGAGAAGAACCCTTACAACTTCAACATGGCGAGAGGAAGGCCCATTTCAAACTTTGCA
* *
65500010 TCATT
66 ACATC
* * * * * * * *
65500015 AACATGGCG-GAAAGAACCTTTACAACTTTAACATGGTGGGACGAAGGCCTA-TTCTGAACTTTG
1 AACATGGTGAG-AAGAACCCTTACAACTTCAACATGGCGAGAGGAAGGCCCATTTC-AAACTTTG
*
65500078 TAACATC
64 CAACATC
* * * * *
65500085 AACATGGTGAGAAGAACCCTTGCAACTTTAACATGGTGAGAGG-AGGAACCATTTCAAACTTCGC
1 AACATGGTGAGAAGAACCCTTACAACTTCAACATGGCGAGAGGAAGG-CCCATTTCAAACTTTGC
65500149 AACATC
65 AACATC
* * * *
65500155 AACATGGTGAGAAGAACCCTTGCAACTTCAACATGGCAAAAGGAAGGCCCATTTCGAACTTTGCA
1 AACATGGTGAGAAGAACCCTTACAACTTCAACATGGCGAGAGGAAGGCCCATTTCAAACTTTGCA
65500220 ACATC
66 ACATC
*
65500225 AATATGGTG
1 AACATGGTG
65500234 GGAAAAAGTT
Statistics
Matches: 180, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
69 7 0.04
70 166 0.92
71 7 0.04
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (70 bp):
AACATGGTGAGAAGAACCCTTACAACTTCAACATGGCGAGAGGAAGGCCCATTTCAAACTTTGCA
ACATC
Found at i:65500248 original size:140 final size:140
Alignment explanation
Indices: 65499922--65500240 Score: 347
Period size: 140 Copynumber: 2.3 Consensus size: 140
65499912 GAATGGAGAA
* * * * * *
65499922 CCCATTTTGAACTCTGCATCTTTAACATGGTGGGAAAAACCCTTACAACTTCAAAATGGCGAGAG
1 CCCATTCTGAACTTTGCAACATCAACATGGTGGGAAAAACCCTTGCAACTTCAAAATGGCGAGAG
** * * * * *
65499987 GAGGGCCCATTTCAAACCTTGCATCATTAACATGGCGGAAAGAACCTTTACAACTTTAACATGGT
66 GAGGAACCATTTCAAACCTTGCAACATCAACATGGCGGAAAGAACCCTTACAACTTCAACATGGC
***
65500052 GGGACGAAGG
131 AAAACGAAGG
* * * * * * *
65500062 CCTATTCTGAACTTTGTAACATCAACATGGTGAGAAGAACCCTTGCAACTTTAACATGGTGAGAG
1 CCCATTCTGAACTTTGCAACATCAACATGGTGGGAAAAACCCTTGCAACTTCAAAATGGCGAGAG
* *
65500127 GAGGAACCATTTCAAA-CTTCGCAACATCAACATGG-TGAGAAGAACCCTTGCAACTTCAACATG
66 GAGGAACCATTTCAAACCTT-GCAACATCAACATGGCGGA-AAGAACCCTTACAACTTCAACATG
*
65500190 GCAAAAGGAAGG
129 GCAAAACGAAGG
*
65500202 CCCATT-TCGAACTTTGCAACATCAATATGGTGGGAAAAA
1 CCCATTCT-GAACTTTGCAACATCAACATGGTGGGAAAAA
65500241 GTTTTGCAGC
Statistics
Matches: 145, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
139 6 0.04
140 139 0.96
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (140 bp):
CCCATTCTGAACTTTGCAACATCAACATGGTGGGAAAAACCCTTGCAACTTCAAAATGGCGAGAG
GAGGAACCATTTCAAACCTTGCAACATCAACATGGCGGAAAGAACCCTTACAACTTCAACATGGC
AAAACGAAGG
Found at i:65500527 original size:23 final size:21
Alignment explanation
Indices: 65500501--65500552 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
65500491 AGACAAACAA
*
65500501 TAAAAATAGATAATATCATAAAC
1 TAAAAATAGA-AATA-AATAAAC
*
65500524 TAAAGAATTGAAATAAATAAAC
1 TAAA-AATAGAAATAAATAAAC
65500546 -AAAAATA
1 TAAAAATA
65500553 AAACACAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 6 0.24
23 8 0.32
24 5 0.20
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (21 bp):
TAAAAATAGAAATAAATAAAC
Found at i:65501860 original size:70 final size:68
Alignment explanation
Indices: 65501734--65501953 Score: 228
Period size: 70 Copynumber: 3.1 Consensus size: 68
65501724 ATGACCGGTT
* * * * * *
65501734 AACATGGTGAGACGAGGGCTCATTCCCAACTTTGTAACATTAACATGGC-ATAAAGAACGCTTGC
1 AACATGGTGAGAGGA-GGCCCCTTCCAAACTTTGTAACATCAACATGGCGA-AAAGAAC-CTTAC
*
65501798 AACTTT
63 AACTTC
* * * **
65501804 AACATGGTGAGAGGATGGCCCCTTCCGAACTTTGTAACATCAAAATGGTGGGAAGAAACCTTACA
1 AACATGGTGAGAGGA-GGCCCCTTCCAAACTTTGTAACATCAACATGGCGAAAAG-AACCTTACA
65501869 ACTTC
64 ACTTC
* *
65501874 AACATGGTGCGAGGA-GCTCCCATTCCAAACTTTGTGACATCAACATGGCGAAAAGAACCCTTAC
1 AACATGGTGAGAGGAGGC-CCC-TTCCAAACTTTGTAACATCAACATGGCGAAAAGAA-CCTTAC
65501938 AACTTC
63 AACTTC
65501944 AACATGGTGA
1 AACATGGTGA
65501954 AAAGAACCCC
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
68 2 0.02
69 5 0.04
70 115 0.92
71 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (68 bp):
AACATGGTGAGAGGAGGCCCCTTCCAAACTTTGTAACATCAACATGGCGAAAAGAACCTTACAAC
TTC
Found at i:65501955 original size:29 final size:29
Alignment explanation
Indices: 65501913--65501982 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
65501903 CTTTGTGACA
* *
65501913 TCAACATGGCGAAAAGAACCCTTACAACT
1 TCAACATGGTGAAAAGAACCCCTACAACT
*
65501942 TCAACATGGTGAAAAGAACCCCTACAATT
1 TCAACATGGTGAAAAGAACCCCTACAACT
65501971 TCAACATGGTGA
1 TCAACATGGTGA
65501983 GAAAAGGGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (29 bp):
TCAACATGGTGAAAAGAACCCCTACAACT
Found at i:65502457 original size:38 final size:38
Alignment explanation
Indices: 65502376--65502479 Score: 95
Period size: 38 Copynumber: 2.7 Consensus size: 38
65502366 AAAATGATGC
* **
65502376 GAAGATTCGC-TTAACACTTCAAAACTTCAAGATGGTGG
1 GAAGATTC-CTTTAACACTTCAAAGCTTCAAGATGAAGG
* *
65502414 CAAGATTCCTTTAACACTTCAAAGCGTT-AAGGTGAAGG
1 GAAGATTCCTTTAACACTTCAAAGC-TTCAAGATGAAGG
** * *
65502452 GAAGATTTGTTTAATATTTCAAAGCTTC
1 GAAGATTCCTTTAACACTTCAAAGCTTC
65502480 GAGGTGATTG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
37 3 0.06
38 48 0.91
39 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (38 bp):
GAAGATTCCTTTAACACTTCAAAGCTTCAAGATGAAGG
Found at i:65503568 original size:62 final size:62
Alignment explanation
Indices: 65503443--65503570 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 62
65503433 CGTAGTTCAA
** * * * *
65503443 TTTTTTTTGCTCTAACTTTTGCTTAAGCCGTCTAATGAAGGATTTTAAGCTTAACGAGTTTT
1 TTTTTTTTGCTCTAACTTTTGCTTAAGCAATCCAATGAAGGATTTTAAGCTAAAAGAGATTT
* * * *
65503505 TTTTTTTTGCTGTAACTTTTGTTTAAGTAATCCATTGAAGGATTTTCAA-CTAAAAGAGATTT
1 TTTTTTTTGCTCTAACTTTTGCTTAAGCAATCCAATGAAGGATTTT-AAGCTAAAAGAGATTT
65503567 TTTT
1 TTTT
65503571 CTCTAACTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 53 0.96
63 2 0.04
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (62 bp):
TTTTTTTTGCTCTAACTTTTGCTTAAGCAATCCAATGAAGGATTTTAAGCTAAAAGAGATTT
Found at i:65504042 original size:32 final size:32
Alignment explanation
Indices: 65504001--65504065 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
65503991 AAGAACTTAC
*
65504001 ATATCTCTACACTCTTTCCTCGTGGATGTATT
1 ATATCTCTACACTCTTTACTCGTGGATGTATT
*
65504033 ATATCTCTACACTCTTTACTTGTGGATGTATT
1 ATATCTCTACACTCTTTACTCGTGGATGTATT
65504065 A
1 A
65504066 GTTGTGACCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.45
Consensus pattern (32 bp):
ATATCTCTACACTCTTTACTCGTGGATGTATT
Found at i:65506424 original size:23 final size:20
Alignment explanation
Indices: 65506409--65506448 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
65506399 ATAGAAATTA
*
65506409 TTATTCTTAGAAAATAGAAT
1 TTATTCATAGAAAATAGAAT
65506429 TTATTCATAGAAAATA-AAT
1 TTATTCATAGAAAATAGAAT
65506448 T
1 T
65506449 CTCACTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
TTATTCATAGAAAATAGAAT
Found at i:65508229 original size:42 final size:42
Alignment explanation
Indices: 65508169--65508294 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
65508159 CGTTTTCTTG
** *
65508169 ATGCCATAGTTCAACTATGGTCTTACACATCTTCAGATAAT-A
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCAGAT-ATCA
* * *
65508211 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCG
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCAGATATCA
* * *
65508253 ATGCCATAGCCCAACTATGGTCTTACACGTAATCACATATCA
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCAGATATCA
65508295 CATATTGATG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 2 0.03
42 70 0.97
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATTCAGATATCA
Found at i:65508309 original size:49 final size:48
Alignment explanation
Indices: 65508236--65508341 Score: 158
Period size: 49 Copynumber: 2.2 Consensus size: 48
65508226 TATGGTCTTA
* *
65508236 CACATATTCATATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACGATGGTCTTACACG-AAT
* *
65508286 CACATATCACATATTGATGCCATAGCCCAGCGATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAACGATGGTCTTACACGAAT
65508334 CACATATC
1 CACATATC
65508342 TCACTGATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.67
50 6 0.12
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAACGATGGTCTTACACGAAT
Found at i:65508368 original size:46 final size:48
Alignment explanation
Indices: 65508252--65508372 Score: 149
Period size: 49 Copynumber: 2.5 Consensus size: 48
65508242 TTCATATATC
*
65508252 GATGCCATAGCCCA-ACTATGGTCTTACACGTAATCACATATCACATATT
1 GATGCCATAGCCCAGA-TATGGTCTTACACGTAATCACATATCACA-ACT
** *
65508301 GATGCCATAGCCCAGCGATGGTCTTACACG-AATCACATATCTC-ACT
1 GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAACT
* *
65508347 GATGTCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
65508373 TACGGAAATC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
46 24 0.38
48 12 0.19
49 27 0.43
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (48 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAACT
Found at i:65508429 original size:31 final size:31
Alignment explanation
Indices: 65508394--65508573 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
65508384 CTTGTCACTT
*
65508394 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
65508425 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
65508456 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
65508487 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
65508518 GTAGTAGAAGCTACCGCTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
65508549 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
65508574 TGTTATTTGT
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
30 1 0.01
31 133 0.99
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:65508655 original size:50 final size:50
Alignment explanation
Indices: 65508549--65508725 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
65508539 CACTGATCAG
* * * *
65508549 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
65508600 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGGTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
65508650 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
65508700 GTAGCCGAAGCTATCATTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
65508726 GTTGTCATGG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 90 0.79
51 24 0.21
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:65516098 original size:42 final size:42
Alignment explanation
Indices: 65516051--65516162 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 42
65516041 TGCCATAGTT
* * *
65516051 CAACTATGGTCTTACACATCTTCAGATAATGATGCCATAACC
1 CAACTATGGTCTTACACATATTCACATAACGATGCCATAACC
*
65516093 CAACTATGGTCTTACACATATTCACATAACGATGCCATAGCC
1 CAACTATGGTCTTACACATATTCACATAACGATGCCATAACC
* * *
65516135 CAGCTATGGTCTTACACGTAATCACATA
1 CAACTATGGTCTTACACATATTCACATA
65516163 TCACATATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (42 bp):
CAACTATGGTCTTACACATATTCACATAACGATGCCATAACC
Found at i:65516180 original size:49 final size:48
Alignment explanation
Indices: 65516107--65516243 Score: 179
Period size: 49 Copynumber: 2.9 Consensus size: 48
65516097 TATGGTCTTA
*
65516107 CACATATTCACATAACGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATAATGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
65516157 CACATATCACATATTGATGCCATAGCTCAGCTATGGTCTTACACGAAT
1 CACATATCACATAATGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * *
65516205 CACATATCTC--ACTGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATAATGATGCCATAGCCCAGCTATGGTCTTA
65516244 TACGGAAATC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 25 0.32
48 12 0.15
49 36 0.46
50 6 0.08
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (48 bp):
CACATATCACATAATGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:65516300 original size:31 final size:31
Alignment explanation
Indices: 65516265--65516413 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
65516255 CTTGTCACTT
*
65516265 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
65516296 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
65516327 GTAGCCGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
65516358 GTAGTAGAAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
65516389 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
65516414 TGTTATTTGT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.01
31 102 0.99
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:65516662 original size:18 final size:18
Alignment explanation
Indices: 65516639--65516673 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
65516629 GATCACTAAA
65516639 ATTTAGCCATATAAACTC
1 ATTTAGCCATATAAACTC
65516657 ATTTAGCCATATAAACT
1 ATTTAGCCATATAAACT
65516674 TAGAAGTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (18 bp):
ATTTAGCCATATAAACTC
Found at i:65517580 original size:16 final size:18
Alignment explanation
Indices: 65517549--65517583 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
65517539 CAATTAACCC
65517549 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
65517567 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
65517583 C
1 C
65517584 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:65523769 original size:23 final size:23
Alignment explanation
Indices: 65523737--65523889 Score: 67
Period size: 23 Copynumber: 6.5 Consensus size: 23
65523727 CACAGAAAAC
* *
65523737 TCACACAGAGCATTTCGGGAAGA
1 TCACAAAGAGCATATCGGGAAGA
* *
65523760 TCACAAAGAGCCTATCGGGAAGC
1 TCACAAAGAGCATATCGGGAAGA
* *** * **
65523783 TTA-TTCGGGCTATATAACGGGAACC
1 TCACAAAGAGC-ATAT--CGGGAAGA
* *
65523808 TCA-TAAGAGCCATAATCGGGAAGT
1 TCACAAAGAG-CAT-ATCGGGAAGA
* *
65523832 TCACAAAGAACCACATCGGGAAGA
1 TCACAAAG-AGCATATCGGGAAGA
* * * *
65523856 TCACGAAGAGCCTATCAGGAAGC
1 TCACAAAGAGCATATCGGGAAGA
65523879 TCACAAAGAGC
1 TCACAAAGAGC
65523890 CATGTAACGA
Statistics
Matches: 95, Mismatches: 28, Indels: 14
0.69 0.20 0.10
Matches are distributed among these distances:
22 3 0.03
23 44 0.46
24 25 0.26
25 19 0.20
26 4 0.04
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (23 bp):
TCACAAAGAGCATATCGGGAAGA
Found at i:65523890 original size:23 final size:24
Alignment explanation
Indices: 65523812--65523892 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
65523802 GGAACCTCAT
*
65523812 AAGAGCCATAATCGGGAAGTTCACA
1 AAGAGCCAT-ATCGGGAAGATCACA
* * *
65523837 AAGAACCACATCGGGAAGATCACG
1 AAGAGCCATATCGGGAAGATCACA
* *
65523861 AAGAGCC-TATCAGGAAGCTCACA
1 AAGAGCCATATCGGGAAGATCACA
65523884 AAGAGCCAT
1 AAGAGCCAT
65523893 GTAACGAGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 19 0.41
24 20 0.43
25 7 0.15
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.12
Consensus pattern (24 bp):
AAGAGCCATATCGGGAAGATCACA
Found at i:65528269 original size:13 final size:12
Alignment explanation
Indices: 65528238--65528272 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
65528228 TTATTAATTG
*
65528238 TATAATTTTTTT
1 TATAATTTTTAT
65528250 TATAATTTTTAT
1 TATAATTTTTAT
*
65528262 TATAAATTTTA
1 TATAATTTTTA
65528273 ATATTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATAATTTTTAT
Found at i:65530954 original size:3 final size:3
Alignment explanation
Indices: 65530946--65530993 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
65530936 TTATTCATCC
65530946 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65530994 CTCATGTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65534663 original size:20 final size:19
Alignment explanation
Indices: 65534617--65534654 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
65534607 CAACGCCGTA
*
65534617 TATGTAAA-ATATTTGTTT
1 TATGTAAAGAGATTTGTTT
65534635 TATGTAAAGAGATTTGTTT
1 TATGTAAAGAGATTTGTTT
65534654 T
1 T
65534655 CTAGTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (19 bp):
TATGTAAAGAGATTTGTTT
Found at i:65554489 original size:44 final size:44
Alignment explanation
Indices: 65554349--65554806 Score: 364
Period size: 44 Copynumber: 10.3 Consensus size: 44
65554339 ATTCCTATAC
* * * * *
65554349 CCCTGAAGATACAGTGGAGCAAGA-TGAAGCTACAAATCATAT-T
1 CCCTGAAGTTGCAGTAGAGC-AGATTAAAGCTACAAATCTTATCT
* * **
65554392 CCCTGAAGTTGTAGTAGAGCAGATTGAATATAGCAAATCTTATCT
1 CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-CAAATCTTATCT
** * *
65554437 TTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTAATCT
1 CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCT
* * * * * * *
65554481 CCCTGAAGTAGTAATTGAGCAGATTGAAGATAGTAAATCTTATCT
1 CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-CAAATCTTATCT
*** * *
65554526 TATTGAAGTTACAGTAGAGCAGATTAAAGCCACAAATCTTATCT
1 CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCT
* * * * **
65554570 CCCTGAAGTTACAGTGGAGTAGATTAAAGATAGTGAATCTTATCT
1 CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-CAAATCTTATCT
** * * * * *
65554615 CTTTGAAGTTGCAGTAGAGTAGATTAAAGCCATAAATCTCATCC
1 CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCT
* * *
65554659 CCCTGAAGTTGCATTGGAGCAGATTAAAGATAGCAAATCTTATCT
1 CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-CAAATCTTATCT
* * * * *
65554704 CTCTGAAGTTCCATTAGAGTA-AGTTGAAGCTACAAATCTTATCT
1 CCCTGAAGTTGCAGTAGAGCAGA-TTAAAGCTACAAATCTTATCT
* * * * * *
65554748 CCCTCAAGTAGCAATAGAACAGATTGAAGCTACAAGTCTTATCT
1 CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCT
*
65554792 CGCTGAAGTTGCAGT
1 CCCTGAAGTTGCAGT
65554807 GGACCAAATT
Statistics
Matches: 325, Mismatches: 82, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
42 3 0.01
43 22 0.07
44 171 0.53
45 129 0.40
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCT
Found at i:65554508 original size:89 final size:89
Alignment explanation
Indices: 65554375--65554806 Score: 421
Period size: 89 Copynumber: 4.9 Consensus size: 89
65554365 GAGCAAGATG
* * *
65554375 AAGCTACAAATC-ATAT-TCCCTGAAGTTGTAGTAGAGCAGATTGAATATAGCAAATCTTATCTT
1 AAGCTACAAATCTA-ATCTCCCTGAAGTAGTAATAGAGCAGATTGAAGATAGCAAATCTTATCTT
65554438 TCTGAAGTTGCAGTAGAGCAGATTA
65 TCTGAAGTTGCAGTAGAGCAGATTA
* * *
65554463 AAGCTATAAATCTAATCTCCCTGAAGTAGTAATTGAGCAGATTGAAGATAGTAAATCTTATCTTA
1 AAGCTACAAATCTAATCTCCCTGAAGTAGTAATAGAGCAGATTGAAGATAGCAAATCTTATCTT-
*
65554528 T-TGAAGTTACAGTAGAGCAGATTA
65 TCTGAAGTTGCAGTAGAGCAGATTA
* * * * * **
65554552 AAGCCACAAATCTTATCTCCCTGAAGT--TACAGTGGAGTAGATTAAAGATAGTGAATCTTATCT
1 AAGCTACAAATCTAATCTCCCTGAAGTAGTA-A-TAGAGCAGATTGAAGATAGCAAATCTTATCT
*
65554615 CTT-TGAAGTTGCAGTAGAGTAGATTA
64 -TTCTGAAGTTGCAGTAGAGCAGATTA
* * * * * * * * * *
65554641 AAGCCATAAATCTCATCCCCCTGAAGTTGCATTGGAGCAGATTAAAGATAGCAAATCTTATCTCT
1 AAGCTACAAATCTAATCTCCCTGAAGTAGTAATAGAGCAGATTGAAGATAGCAAATCTTATCTTT
* * * *
65554706 CTGAAGTTCCATTAGAGTA-AGTTG
66 CTGAAGTTGCAGTAGAGCAGA-TTA
* * * * * * **
65554730 AAGCTACAAATCTTATCTCCCTCAAGTAGCAATAGAACAGATTGAAGCTA-CAAGTCTTATCTCG
1 AAGCTACAAATCTAATCTCCCTGAAGTAGTAATAGAGCAGATTGAAGATAGCAAATCTTATCTTT
65554794 CTGAAGTTGCAGT
66 CTGAAGTTGCAGT
65554807 GGACCAAATT
Statistics
Matches: 291, Mismatches: 43, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
87 2 0.01
88 39 0.13
89 247 0.85
90 2 0.01
91 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (89 bp):
AAGCTACAAATCTAATCTCCCTGAAGTAGTAATAGAGCAGATTGAAGATAGCAAATCTTATCTTT
CTGAAGTTGCAGTAGAGCAGATTA
Found at i:65554691 original size:178 final size:178
Alignment explanation
Indices: 65554351--65554806 Score: 505
Period size: 178 Copynumber: 2.6 Consensus size: 178
65554341 TCCTATACCC
* * * **
65554351 CTGAAGATACAGTGGAGCAAGA-TGAAGCTACAAATCATAT-TCCCTGAAGTTGTAGTAGAGCAG
1 CTGAAGTTACAGTAGAGC-AGATTGAAGCTACAAATCTTATCTCCCTGAAGTTACAGTAGAGCAG
* * *
65554414 ATTGAATATAGCAAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTAAT
65 ATTAAAGATAGCAAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAATCTAAT
* * *
65554479 CTCCCTGAAGTAGTAATTGAGCAGATTGAAGATAGTAAATCTTATCT-T
130 CCCCCTGAAGTAGTAATTGAGCAGATTAAAGATAGCAAATCTTATCTCT
* * * * *
65554527 ATTGAAGTTACAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAG
1 -CTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTACAGTAGAGCAG
** * *
65554592 ATTAAAGATAGTGAATCTTATCTCTT-TGAAGTTGCAGTAGAGTAGATTAAAGCCATAAATCTCA
65 ATTAAAGATAGCAAATCTTATCT-TTCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAATCTAA
* *
65554656 TCCCCCTGAAGTTG-CATTGGAGCAGATTAAAGATAGCAAATCTTATCTCT
129 TCCCCCTGAAGTAGTAATT-GAGCAGATTAAAGATAGCAAATCTTATCTCT
* * * * * *
65554706 CTGAAGTTCCATTAGAGTA-AGTTGAAGCTACAAATCTTATCTCCCTCAAG-TAGCAATAGAACA
1 CTGAAGTTACAGTAGAGCAGA-TTGAAGCTACAAATCTTATCTCCCTGAAGTTA-CAGTAGAGCA
* * * **
65554769 GATTGAAGCTA-CAAGTCTTATCTCGCTGAAGTTGCAGT
64 GATTAAAGATAGCAAATCTTATCTTTCTGAAGTTGCAGT
65554807 GGACCAAATT
Statistics
Matches: 231, Mismatches: 40, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
176 3 0.01
177 57 0.25
178 168 0.73
179 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (178 bp):
CTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTACAGTAGAGCAGA
TTAAAGATAGCAAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAATCTAATC
CCCCTGAAGTAGTAATTGAGCAGATTAAAGATAGCAAATCTTATCTCT
Found at i:65558411 original size:41 final size:39
Alignment explanation
Indices: 65558382--65558459 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
65558372 GCGTTTGAAT
* *
65558382 GAAAAACGCCACTAAAGAACGAGTATTAGTGGCCCTTTTC
1 GAAAAACGCCACTAAAGAACGAGCATTAGTGG-CGTTTTC
* *
65558422 GAAAAACGCTACTAAAGAACGAGCATTAGCGGCGTTTT
1 GAAAAACGCCACTAAAGAACGAGCATTAGTGGCGTTTT
65558460 TCACGCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 5 0.15
40 29 0.85
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (39 bp):
GAAAAACGCCACTAAAGAACGAGCATTAGTGGCGTTTTC
Found at i:65558598 original size:34 final size:37
Alignment explanation
Indices: 65558514--65558614 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 37
65558504 TTTTAGTGGC
* *
65558514 TTTAGCCGCGCTTTTGTAAAAAAGCCGCTATAGGTCGAGT
1 TTTAGCGGCGCTTTTGTAAAAACGCCGCTATA-G--GAGT
65558554 TTTAGCGGCGCTTTTGTAAAAACGCCGCTATA-G-G-
1 TTTAGCGGCGCTTTTGTAAAAACGCCGCTATAGGAGT
* *
65558588 TTTAGTGGCGCTTTT-TGAAAACGCCGC
1 TTTAGCGGCGCTTTTGTAAAAACGCCGC
65558615 AAAAACATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
33 11 0.19
34 14 0.25
35 1 0.02
36 1 0.02
40 30 0.53
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (37 bp):
TTTAGCGGCGCTTTTGTAAAAACGCCGCTATAGGAGT
Found at i:65558964 original size:22 final size:22
Alignment explanation
Indices: 65558925--65558968 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
65558915 GGCTTAGGGG
*
65558925 TTAGGGTTTAAGTGTTATGTTT
1 TTAGGGTTTAAGTATTATGTTT
65558947 TTAGGGTTTAGAG-ATTATGTTT
1 TTAGGGTTTA-AGTATTATGTTT
65558969 ATGATTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (22 bp):
TTAGGGTTTAAGTATTATGTTT
Found at i:65559588 original size:25 final size:25
Alignment explanation
Indices: 65559541--65559588 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
65559531 ACAATTATTG
* *
65559541 ATATAAAAATATTTATATTTATTCA
1 ATATAAAAATATTTAGATGTATTCA
65559566 ATATAAAAATATATT-GATGTATT
1 ATATAAAAATAT-TTAGATGTATT
65559589 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATAAAAATATTTAGATGTATTCA
Found at i:65559930 original size:7 final size:7
Alignment explanation
Indices: 65559918--65559971 Score: 101
Period size: 7 Copynumber: 7.9 Consensus size: 7
65559908 AAATCTTCAA
65559918 AAAAAAT
1 AAAAAAT
65559925 AAAAAAT
1 AAAAAAT
65559932 AAAAAAT
1 AAAAAAT
65559939 AAAAAAT
1 AAAAAAT
65559946 AAAAAAT
1 AAAAAAT
65559953 -AAAAAT
1 AAAAAAT
65559959 AAAAAAT
1 AAAAAAT
65559966 AAAAAA
1 AAAAAA
65559972 CTTAATATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.13
7 40 0.87
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:65559942 original size:21 final size:20
Alignment explanation
Indices: 65559918--65559971 Score: 99
Period size: 20 Copynumber: 2.6 Consensus size: 20
65559908 AAATCTTCAA
65559918 AAAAAATAAAAAATAAAAAAT
1 AAAAAATAAAAAAT-AAAAAT
65559939 AAAAAATAAAAAATAAAAAT
1 AAAAAATAAAAAATAAAAAT
65559959 AAAAAATAAAAAA
1 AAAAAATAAAAAA
65559972 CTTAATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAAAATAAAAAATAAAAAT
Found at i:65565024 original size:23 final size:23
Alignment explanation
Indices: 65563431--65565047 Score: 1730
Period size: 23 Copynumber: 70.7 Consensus size: 23
65563421 AAAGTGCAGC
65563431 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65563454 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65563477 AAATTGAAGTG-TTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
65563499 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65563522 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65563545 AAATTGAAGTG-TTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
65563567 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65563590 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65563613 AAATTGAAGTG-TTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
65563635 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65563658 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65563681 AAATTGAAGTG-TTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
65563703 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
65563726 AAATTGAAGTGCTTAAAAGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
65563749 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
* **
65563772 AAGTTGAAGTGTTTAGTTGCTCG-
1 AAATTGAAGTGTTTAAATGCT-GT
*
65563795 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * *
65563818 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65563840 TAATTG-AGATG-TTAAAGTGCTGT
1 AAATTGAAG-TGTTTAAA-TGCTGT
* * * *
65563863 AAATTGGAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
* *
65563886 AAATTGAAGTGTTTAATTGCTGG
1 AAATTGAAGTGTTTAAATGCTGT
*
65563909 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * *
65563932 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
65563954 TAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65563977 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
* * *
65564000 AAATTGAAGTGTGTGAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564023 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * * *
65564046 AAATTGGAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
** *
65564069 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAAATGCTGT
* *
65564092 AAATTG-AGATGTTTTAACGCTGT
1 AAATTGAAG-TGTTTAAATGCTGT
* * * *
65564115 -AATTGAGGAGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
65564137 TAATTG-AGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
65564160 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564183 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65564206 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564229 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65564252 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564275 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65564298 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564321 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65564344 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564367 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
65564390 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564413 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
*
65564436 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
*
65564459 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
* * *
65564482 AAATTGAAGTGTGTGAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564505 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564528 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
* * *
65564551 AAATTGAAGTGTGTGAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564574 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564597 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
* * *
65564620 AAATTGAAGTGTGTGAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564643 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564666 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
* * *
65564689 AAATTGAAGTGTGTGAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564712 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564735 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
* * *
65564758 AAATTGAAGTGTGTGAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564781 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564804 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
* * *
65564827 AAATTGAAGTGTGTGAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
65564850 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
65564873 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
* *
65564896 AAATTGAAGTGTTTAATTGCTGG
1 AAATTGAAGTGTTTAAATGCTGT
*
65564919 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * *
65564942 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
65564964 TAATTG-AGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
*
65564987 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * * *
65565010 AAATTGAAGTTTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
*
65565033 AAATTGAATTGTTTA
1 AAATTGAAGTGTTTA
65565048 GTTGCTGAAA
Statistics
Matches: 1360, Mismatches: 170, Indels: 128
0.82 0.10 0.08
Matches are distributed among these distances:
22 224 0.16
23 1069 0.79
24 67 0.05
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGCTGT
Found at i:65565756 original size:83 final size:82
Alignment explanation
Indices: 65565608--65565814 Score: 186
Period size: 82 Copynumber: 2.5 Consensus size: 82
65565598 ATTTTTATGA
* * * **
65565608 TTTTTAGTGGCGTTTTTGGAATGCGTCGCTAAAAGTCAGATTCTTTAGCAGTGTTTTTTTAAAAG
1 TTTTTAGTGGCGTTTTGGGAAAGCGTCGCTAAAAGTC--ATTCTTTAACAGTGTTTTTAGAAAAG
65565673 TGCTGCTAAAAGTTAGATT
64 TGCTGCTAAAAGTTAGATT
* * *
65565692 TTTTTAGTGGCGTTTGTGGAGAAAGCGTCGCTAAAAGTC-TTTTTTAACGGTGTTTTTAGGAAAG
1 TTTTTAGTGGCGTTT-TGG-GAAAGCGTCGCTAAAAGTCATTCTTTAACAGTGTTTTTAGAAAAG
* * *
65565756 TTCTGTTAAAGGTT--ATGT
64 TGCTGCTAAAAGTTAGAT-T
* * * * *
65565774 TCTTTAGCGGCGTTTATGGGAAAAGCGCCGCTTAAATTCAT
1 TTTTTAGTGGCGTTT-TGGG-AAAGCGTCGCTAAAAGTCAT
65565815 GTTCTATATC
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
81 3 0.03
82 32 0.32
83 31 0.31
84 15 0.15
85 2 0.02
86 18 0.18
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (82 bp):
TTTTTAGTGGCGTTTTGGGAAAGCGTCGCTAAAAGTCATTCTTTAACAGTGTTTTTAGAAAAGTG
CTGCTAAAAGTTAGATT
Found at i:65569729 original size:20 final size:20
Alignment explanation
Indices: 65569704--65569782 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
65569694 CTTGTATGGG
65569704 TTTGCACTTCGGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTA
*
65569724 TTTGCACTTTGGTGCCTCT-
1 TTTGCACTTCGGTGCCTCTA
65569743 TTCTGCACTTCGGTGCCTCTA
1 TT-TGCACTTCGGTGCCTCTA
*
65569764 ATTGCACATTC-GTGCCTCT
1 TTTGCAC-TTCGGTGCCTCT
65569783 GCCTGCACTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.04
20 47 0.89
21 4 0.08
ACGTcount: A:0.10, C:0.30, G:0.19, T:0.41
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTA
Found at i:65569800 original size:20 final size:20
Alignment explanation
Indices: 65569706--65569792 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
65569696 TGTATGGGTT
**
65569706 TGCACTTCGGTGCCTCTATT
1 TGCACTTCGGTGCCTCTAAC
* **
65569726 TGCACTTTGGTGCCTCTTTC
1 TGCACTTCGGTGCCTCTAAC
*
65569746 TGCACTTCGGTGCCTCTAAT
1 TGCACTTCGGTGCCTCTAAC
**
65569766 TGCACATTC-GTGCCTCTGCC
1 TGCAC-TTCGGTGCCTCTAAC
65569786 TGCACTT
1 TGCACTT
65569793 TGATGCCTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
19 2 0.04
20 51 0.91
21 3 0.05
ACGTcount: A:0.10, C:0.32, G:0.20, T:0.38
Consensus pattern (20 bp):
TGCACTTCGGTGCCTCTAAC
Found at i:65569800 original size:40 final size:40
Alignment explanation
Indices: 65569706--65569792 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
65569696 TGTATGGGTT
* * * **
65569706 TGCACTTCGGTGCCTCTATTTGCACTTTGGTGCCTCTTTC
1 TGCACTTCGGTGCCTCTAATTGCACATTCGTGCCTCTGCC
65569746 TGCACTTCGGTGCCTCTAATTGCACATTCGTGCCTCTGCC
1 TGCACTTCGGTGCCTCTAATTGCACATTCGTGCCTCTGCC
65569786 TGCACTT
1 TGCACTT
65569793 TGATGCCTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.10, C:0.32, G:0.20, T:0.38
Consensus pattern (40 bp):
TGCACTTCGGTGCCTCTAATTGCACATTCGTGCCTCTGCC
Found at i:65574557 original size:23 final size:22
Alignment explanation
Indices: 65574521--65574565 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
65574511 ATTTGATATT
*
65574521 ATGTTTTGATATAACAAATTAAA
1 ATGTTTTGAAATAA-AAATTAAA
* *
65574544 ATGTTTTTAAATAAAAGTTAAA
1 ATGTTTTGAAATAAAAATTAAA
65574566 TTTGAACAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (22 bp):
ATGTTTTGAAATAAAAATTAAA
Found at i:65580922 original size:47 final size:47
Alignment explanation
Indices: 65580870--65580982 Score: 190
Period size: 47 Copynumber: 2.4 Consensus size: 47
65580860 AAGGTGGAAG
* * *
65580870 TTATTGGCAGTTTATCTGTGATTTTGGTGGCTTGTCCACGATTTTGA
1 TTATTGGTAGTTTATCTGCGATTTTGGTGGCTTGTCCACAATTTTGA
*
65580917 TTATTGGTATTTTATCTGCGATTTTGGTGGCTTGTCCACAATTTTGA
1 TTATTGGTAGTTTATCTGCGATTTTGGTGGCTTGTCCACAATTTTGA
65580964 TTATTGGTAGTTTATCTGC
1 TTATTGGTAGTTTATCTGC
65580983 ATTACTGTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.16, C:0.12, G:0.23, T:0.49
Consensus pattern (47 bp):
TTATTGGTAGTTTATCTGCGATTTTGGTGGCTTGTCCACAATTTTGA
Found at i:65581004 original size:47 final size:47
Alignment explanation
Indices: 65580870--65581007 Score: 145
Period size: 47 Copynumber: 2.9 Consensus size: 47
65580860 AAGGTGGAAG
* * * * * *
65580870 TTATTGGCAGTTTATCTGTGATTTTGGTGGCTTGTCCACGATTTTGA
1 TTATTGGTAGTTTATCTGCGATTCTGGTGACCTGTCCACAATTTTGA
* * * *
65580917 TTATTGGTATTTTATCTGCGATTTTGGTGGCTTGTCCACAATTTTGA
1 TTATTGGTAGTTTATCTGCGATTCTGGTGACCTGTCCACAATTTTGA
*
65580964 TTATTGGTAGTTTATCTGC-ATTACT-GTGACACTGTTCACAATTT
1 TTATTGGTAGTTTATCTGCGATT-CTGGTGAC-CTGTCCACAATTT
65581008 GGTTTGTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
46 7 0.09
47 73 0.91
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (47 bp):
TTATTGGTAGTTTATCTGCGATTCTGGTGACCTGTCCACAATTTTGA
Found at i:65597350 original size:87 final size:87
Alignment explanation
Indices: 65597171--65597349 Score: 342
Period size: 86 Copynumber: 2.1 Consensus size: 87
65597161 TTTCTTCGTG
65597171 AAAAAATTCAATAAAAAACAAATTCTCAAAAGTAATTTTTTTAGAAATTCAAGATAAGAAATAAT
1 AAAAAATTCAATAAAAAACAAATTCTCAAAAGTAATTTTTTTAGAAATTCAAGATAAGAAATAAT
65597236 AAAAAAATCAGAATAACAAAGT
66 AAAAAAATCAGAATAACAAAGT
65597258 AAAAAATTCAATAAAAAACAAATTCTCAAAAGTAA-TTTTTTAGAAATTCAAGATAAGAAATAAT
1 AAAAAATTCAATAAAAAACAAATTCTCAAAAGTAATTTTTTTAGAAATTCAAGATAAGAAATAAT
*
65597322 AATAAAATCAGAATAACAAAGT
66 AAAAAAATCAGAATAACAAAGT
65597344 AAAAAA
1 AAAAAA
65597350 AAAAAAACCT
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 56 0.62
87 35 0.38
ACGTcount: A:0.61, C:0.08, G:0.07, T:0.25
Consensus pattern (87 bp):
AAAAAATTCAATAAAAAACAAATTCTCAAAAGTAATTTTTTTAGAAATTCAAGATAAGAAATAAT
AAAAAAATCAGAATAACAAAGT
Found at i:65601481 original size:25 final size:24
Alignment explanation
Indices: 65601436--65601492 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
65601426 TTTAAAAAAA
65601436 TTATATTTTATATTTATAATAATT
1 TTATATTTTATATTTATAATAATT
*
65601460 TTATAATTTTAT-TTTTTAAATAATTT
1 TTAT-ATTTTATATTTAT-AATAA-TT
65601486 TTATATT
1 TTATATT
65601493 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.28
25 15 0.52
26 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATATTTTATATTTATAATAATT
Found at i:65602831 original size:43 final size:43
Alignment explanation
Indices: 65602784--65602940 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
65602774 CAATATTTGC
65602784 AGACAAGATGTCATGTAGATTGTGGATAAAGCACCAAATTCAT
1 AGACAAGATGTCATGTAGATTGTGGATAAAGCACCAAATTCAT
** **
65602827 AGACAA-ACTGTCATGTAGATTGTGGACGAAGCCACCAATATTCGC
1 AGACAAGA-TGTCATGTAGATTGTGGATAAAG-CACCAA-ATTCAT
* * * * * *
65602872 AGACAAGCTGTCGTGCAGGTTGTGGATAAACCA-CAAATT-TT
1 AGACAAGATGTCATGTAGATTGTGGATAAAGCACCAAATTCAT
* *
65602913 GCAGACAAGTTGTCATGTAGGTTGTGGA
1 --AGACAAGATGTCATGTAGATTGTGGA
65602941 CGAAGCCACA
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 4 0.04
43 53 0.58
44 8 0.09
45 27 0.29
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (43 bp):
AGACAAGATGTCATGTAGATTGTGGATAAAGCACCAAATTCAT
Found at i:65602919 original size:88 final size:88
Alignment explanation
Indices: 65602759--65602949 Score: 242
Period size: 88 Copynumber: 2.2 Consensus size: 88
65602749 CTCCAGTATA
* * * * *
65602759 TGTGGTCGAAGCTACCAATATTTGCAGACAAGATGTCATGTAGATTGTGGATAAAGCACCAAATT
1 TGTGGACGAAGCCACCAATATTCGCAGACAAGATGTCATGCAGATTGTGGATAAACCACCAAATT
65602824 CATAGACAAACTGTCATGTAGAT
66 CATAGACAAACTGTCATGTAGAT
* * *
65602847 TGTGGACGAAGCCACCAATATTCGCAGACAAGCTGTCGTGCAGGTTGTGGATAAACCA-CAAATT
1 TGTGGACGAAGCCACCAATATTCGCAGACAAGATGTCATGCAGATTGTGGATAAACCACCAAATT
* ** *
65602911 -TTGCAGACAAGTTGTCATGTAGGT
66 CAT--AGACAAACTGTCATGTAGAT
65602935 TGTGGACGAAGCCAC
1 TGTGGACGAAGCCAC
65602950 AAATTCTTCC
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
86 1 0.01
87 6 0.07
88 82 0.92
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (88 bp):
TGTGGACGAAGCCACCAATATTCGCAGACAAGATGTCATGCAGATTGTGGATAAACCACCAAATT
CATAGACAAACTGTCATGTAGAT
Found at i:65604883 original size:25 final size:25
Alignment explanation
Indices: 65604854--65604912 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
65604844 GCAATCTGTA
*
65604854 AACGGTAAGATCATACGAGCTGAGT
1 AACGGTAAGATCATACGAGCTGAAT
* *
65604879 AACGGTAAGCTCATACGAGTTGAAT
1 AACGGTAAGATCATACGAGCTGAAT
*
65604904 ATCGGTAAG
1 AACGGTAAG
65604913 TTCTTTTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (25 bp):
AACGGTAAGATCATACGAGCTGAAT
Found at i:65606775 original size:10 final size:10
Alignment explanation
Indices: 65606748--65606782 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
65606738 CAAAGAAAAA
* *
65606748 AATGAAGAGA
1 AATGAAGGGC
65606758 AATGAAGGGC
1 AATGAAGGGC
65606768 AATGAAGGGC
1 AATGAAGGGC
65606778 AATGA
1 AATGA
65606783 TAATAGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.34, T:0.11
Consensus pattern (10 bp):
AATGAAGGGC
Found at i:65608327 original size:19 final size:19
Alignment explanation
Indices: 65608303--65608346 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
65608293 TAAATTTTAG
65608303 TTTTTATATATATTTA-AAA
1 TTTTTATATAT-TTTATAAA
*
65608322 TTTTTATTTATTTTATAAA
1 TTTTTATATATTTTATAAA
65608341 TTTTTA
1 TTTTTA
65608347 AATTATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTATATATTTTATAAA
Found at i:65608357 original size:28 final size:26
Alignment explanation
Indices: 65608280--65608372 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
65608270 TTTTTAGTTC
* *
65608280 TTTTATATATTTATAAATTT-TA-GT
1 TTTTATATATTTTTAAATTTATATTT
* *
65608304 TTTTATATATATTTAAAATTTTTATTT
1 TTTTATATAT-TTTTAAATTTATATTT
*
65608331 ATTTTATAAATTTTTAAATTATATATTT
1 -TTTTATATATTTTTAAATT-TATATTT
*
65608359 TTTTGTATATTTTT
1 TTTTATATATTTTT
65608373 CAAAAATATT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
24 10 0.18
25 8 0.14
26 2 0.04
27 21 0.38
28 15 0.27
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTATATATTTTTAAATTTATATTT
Found at i:65608371 original size:26 final size:24
Alignment explanation
Indices: 65608271--65608371 Score: 85
Period size: 26 Copynumber: 3.9 Consensus size: 24
65608261 TAAACGTGTT
*
65608271 TTTTAGTTCTTTTATATATTTATAAA
1 TTTTA-TTTTTTTATATATTT-TAAA
* *
65608297 TTTTAGTTTTTATATATATTTAAAA
1 TTTTA-TTTTTTTATATATTTTAAA
*
65608322 TTTTTATTTATTTTATAAATTTTTAAA
1 -TTTTATTT-TTTTATATA-TTTTAAA
*
65608349 TTATATATTTTTTTGTATATTTT
1 TT-T-TATTTTTTTATATATTTT
65608372 TCAAAAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
25 6 0.10
26 37 0.60
27 14 0.23
28 5 0.08
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (24 bp):
TTTTATTTTTTTATATATTTTAAA
Found at i:65608408 original size:16 final size:15
Alignment explanation
Indices: 65608389--65608428 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
65608379 TATTATAGGC
65608389 TTTTTATATATCTTTA
1 TTTTTATATAT-TTTA
*
65608405 TTTTTAGATATTTTA
1 TTTTTATATATTTTA
65608420 TATTTTATA
1 T-TTTTATA
65608429 AATATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTTATATATTTTA
Found at i:65609199 original size:23 final size:23
Alignment explanation
Indices: 65609171--65609218 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
65609161 AATTTGACTA
65609171 AACTTATAGAAAAAAGGACTAGT
1 AACTTATAGAAAAAAGGACTAGT
65609194 AACTTATAGAAAAAAGGACTAGT
1 AACTTATAGAAAAAAGGACTAGT
65609217 AA
1 AA
65609219 AAATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (23 bp):
AACTTATAGAAAAAAGGACTAGT
Found at i:65614101 original size:44 final size:42
Alignment explanation
Indices: 65614030--65614147 Score: 123
Period size: 42 Copynumber: 2.7 Consensus size: 42
65614020 TGTGTTATTA
* * *
65614030 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TCTGTTTTACG
1 TGTAAGACCATGTCTGGGAC-ATGGCATCGA-TATCTGATTT-CG
*
65614074 TGTAAGACCATGTCTGTGACATCGGCATC-ATATCTGATTTCG
1 TGTAAGACCATGTCTGGGACAT-GGCATCGATATCTGATTTCG
* *
65614116 TGTAAGACCTTATCTGGGACAGTGGCATCGAT
1 TGTAAGACCATGTCTGGGACA-TGGCATCGAT
65614148 GTTTGGTTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
42 27 0.43
43 12 0.19
44 24 0.38
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATATCTGATTTCG
Found at i:65616077 original size:36 final size:36
Alignment explanation
Indices: 65616030--65616458 Score: 858
Period size: 36 Copynumber: 11.9 Consensus size: 36
65616020 TGCCATGGTA
65616030 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616066 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616102 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616138 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616174 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616210 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616246 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616282 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616318 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616354 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616390 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGT
65616426 TCTTTCAACCATGGTCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTACACATTTCATATCA
65616459 GAGAGCACAC
Statistics
Matches: 393, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 393 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (36 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:65633870 original size:56 final size:56
Alignment explanation
Indices: 65633784--65633897 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
65633774 ATTTTACCAA
65633784 CTTTCCCAATTTTCAATTTTTCTCTCATTCTAGGTTCAAATCTTGTTTTCCGGGAT
1 CTTTCCCAATTTTCAATTTTTCTCTCATTCTAGGTTCAAATCTTGTTTTCCGGGAT
*
65633840 CTTTCCCAATTTTCAATTTTTCTCTCATTCTAGGTTCAAATCTTGTTTTTCGGGAT
1 CTTTCCCAATTTTCAATTTTTCTCTCATTCTAGGTTCAAATCTTGTTTTCCGGGAT
65633896 CT
1 CT
65633898 AAAACATCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.49
Consensus pattern (56 bp):
CTTTCCCAATTTTCAATTTTTCTCTCATTCTAGGTTCAAATCTTGTTTTCCGGGAT
Found at i:65636838 original size:50 final size:50
Alignment explanation
Indices: 65636784--65636883 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
65636774 GCTAGATGGC
* * * *
65636784 AAGGGCATGAAATCAGCAGGCAAATTGATGATTTAAGGGCAAAATTGGAA
1 AAGGGCATGAAATCAGCAGGAAAATTGATAAATTAAGGGAAAAATTGGAA
* *
65636834 AAGGGTATGAAATCAGCAGGAAAATTGATAAATTAATGGAAAAATTGGAA
1 AAGGGCATGAAATCAGCAGGAAAATTGATAAATTAAGGGAAAAATTGGAA
65636884 TATTGCAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.46, C:0.07, G:0.26, T:0.21
Consensus pattern (50 bp):
AAGGGCATGAAATCAGCAGGAAAATTGATAAATTAAGGGAAAAATTGGAA
Found at i:65645105 original size:27 final size:27
Alignment explanation
Indices: 65645075--65645252 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
65645065 ATATTGAGCC
* *
65645075 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
65645102 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65645129 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
65645157 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65645184 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65645211 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
65645238 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65645253 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65645214 original size:82 final size:81
Alignment explanation
Indices: 65645096--65645251 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
65645086 TGCTATATAA
* * *
65645096 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
65645161 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65645178 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
65645242 CACTTAGTGC
65 CACTTAGTGC
65645252 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65659867 original size:10 final size:10
Alignment explanation
Indices: 65659852--65659881 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
65659842 AGTACTAACG
65659852 ATTTTAAATT
1 ATTTTAAATT
*
65659862 ATTTTAAATG
1 ATTTTAAATT
65659872 ATTTTAAATT
1 ATTTTAAATT
65659882 CAAGTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
ATTTTAAATT
Found at i:65667509 original size:73 final size:72
Alignment explanation
Indices: 65667318--65667608 Score: 327
Period size: 71 Copynumber: 3.9 Consensus size: 72
65667308 TATTTCTATA
*
65667318 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGGCATACTGAGGTATTT
1 TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC-G----CTGAGGTATTT
* *
65667383 TCAATCTCTGGTT
61 TCAATTTAT-GTT
* * * *
65667396 TTCAAAAAAATCAAC-CTACATTGTGA-AAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTT
1 TTC--AAAAATCAACTC-ATATTGCGAGAA-GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
65667459 CAATTTATGTT
62 CAATTTATGTT
*
65667470 TGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 T-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
65667535 TTTAT-TT
65 TTTATGTT
* * * * * **
65667542 TTTAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAAGACACATTGAGGTATTTTCAAT
1 TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
65667607 TT
66 TT
65667609 CTGCTCACAT
Statistics
Matches: 188, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
71 58 0.31
72 3 0.02
73 58 0.31
74 7 0.04
75 19 0.10
78 3 0.02
79 3 0.02
80 37 0.20
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (72 bp):
TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
TTATGTT
Found at i:65667596 original size:71 final size:72
Alignment explanation
Indices: 65667321--65667608 Score: 310
Period size: 73 Copynumber: 3.9 Consensus size: 72
65667311 TTCTATATTC
65667321 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGGCATACTGAGGTATTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA---C--ACTGAGGTATTTTCA
* *
65667386 ATCTCTGGTTTTCAA
61 AT-T-T-ATTTTCTA
* * * * * *
65667401 AAAAATCAAC-CTACATTGTGAAAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTC-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
* *
65667465 ATGTTTGTC
65 AT-TTTCTA
* * *
65667474 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTA
*
65667539 TTTT-TT
66 TTTTCTA
* * * *
65667545 AAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAAGACACATTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
65667609 CTGCTCACAT
Statistics
Matches: 182, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
71 58 0.32
72 4 0.02
73 63 0.35
74 2 0.01
75 15 0.08
77 1 0.01
79 1 0.01
80 38 0.21
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTA
TTTTCTA
Found at i:65667632 original size:58 final size:58
Alignment explanation
Indices: 65667554--65667669 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
65667544 TAAAAATCAA
* *
65667554 CTCATATTACGAGAGGTGAGTTAAGCCTCAAGACACATTGAGGT-ATTTTCAATTTCTG
1 CTCACATTACGAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTT-AATTTCTG
* * * *
65667612 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCTG
1 CTCACATTACGAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTAATTTCTG
65667670 TTTTTCAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 46 0.90
59 5 0.10
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (58 bp):
CTCACATTACGAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTAATTTCTG
Found at i:65667728 original size:133 final size:129
Alignment explanation
Indices: 65667483--65667744 Score: 400
Period size: 133 Copynumber: 2.0 Consensus size: 129
65667473 CAAAAATCAA
* *
65667483 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTATTTTTTAAA
1 CTCACATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTATTTTTTAAA
*
65667548 AATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAAGACACATTGAGGTATTTTCAATTTCTG
66 AATCAACTCATATTACGAGAGGTAAGTTAAGCCTCAAGACACATTGAGGTATTTTCAATTTCTG
* *
65667612 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTGTTTTTC
1 CTCACATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTAT-TTTTT-
* * *
65667676 AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
63 --AAAAATCAACTCATATTACGAGAGGTAAGTTAAGCCTCAAGACACATTGAGGTATTTTCAATT
65667741 TCTG
126 TCTG
65667745 TCTTTCAAAA
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
129 47 0.39
130 10 0.08
133 63 0.52
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (129 bp):
CTCACATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTATTTTTTAAA
AATCAACTCATATTACGAGAGGTAAGTTAAGCCTCAAGACACATTGAGGTATTTTCAATTTCTG
Found at i:65667741 original size:75 final size:76
Alignment explanation
Indices: 65667612--65668001 Score: 405
Period size: 75 Copynumber: 4.9 Consensus size: 76
65667602 TCAATTTCTG
*
65667612 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTGTTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTCTGTTTTTC
65667676 AA-AAAAATCAA
65 AATAAAAATCAA
* * * *
65667687 CTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
*
65667752 AAAAAAATCAA
66 ATAAAAATCAA
* * *
65667763 CTCATATTGCGAGAGGTGAGTTGAGCCTCA--AGACGCTGAGGTATTTTCAATTTCCGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTC-
65667826 ATTTATTTTTCAAAAATCCAA
65 A---A----T-AAAAAT-CAA
*
65667847 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCAATTTCTGTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAATTTCTG-TTT
65667911 TTCAATTTCTGTTCATCAAAATCAA
62 TTCAA-------T-A--AAAATCAA
* *
65667936 CTCATATTGCGAGAGGTGA-TTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGGTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
65668000 AT
66 AT
65668002 TTCTACTTTT
Statistics
Matches: 271, Mismatches: 20, Indels: 45
0.81 0.06 0.13
Matches are distributed among these distances:
74 32 0.12
75 56 0.21
76 38 0.14
78 2 0.01
83 6 0.02
84 32 0.12
85 8 0.03
86 24 0.09
88 39 0.14
89 29 0.11
90 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (76 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
ATAAAAATCAA
Found at i:65667914 original size:15 final size:15
Alignment explanation
Indices: 65667894--65667923 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65667884 TGCTGAGGTA
65667894 TTTTCAATTTCTGTT
1 TTTTCAATTTCTGTT
65667909 TTTTCAATTTCTGTT
1 TTTTCAATTTCTGTT
65667924 CATCAAAATC
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:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTCAATTTCTGTT
Found at i:65667963 original size:88 final size:85
Alignment explanation
Indices: 65667755--65668091 Score: 378
Period size: 88 Copynumber: 3.9 Consensus size: 85
65667745 TCTTTCAAAA
** *
65667755 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTCC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCT
* * *
65667818 GTTTGTCAATTTATTT-TTC
66 GTTTTTCAATTTCTTTCATC
*
65667837 AAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAAT
1 -AAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTATTTTCAAT
65667902 TTCTGTTTTTTCAATTTCTGTTCATC
62 TTCTG-TTTTTCAATTTCT-TTCATC
*
65667928 AAAATCAACTCATATTGCGAGAGGTGA-TTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCT
* *
65667992 GGTTTTCAATTTCTACTTTTCA-A
66 GTTTTTCAA-TT-T-C-TTTCATC
* * ** *
65668015 AAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGCGTTCTCAATT
1 AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTCAATT
*
65668080 TCTGCTTTTCAA
63 TCTGTTTTTCAA
65668092 AAATCAACTC
Statistics
Matches: 220, Mismatches: 18, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
83 5 0.02
84 32 0.15
85 7 0.03
86 26 0.12
87 3 0.01
88 64 0.29
89 45 0.20
90 7 0.03
91 31 0.14
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (85 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCT
GTTTTTCAATTTCTTTCATC
Found at i:65668011 original size:14 final size:14
Alignment explanation
Indices: 65667980--65668014 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
65667970 CGCTGAGGTA
**
65667980 TTTTCAATTTCTGG
1 TTTTCAATTTCTAC
65667994 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
65668008 TTTTCAA
1 TTTTCAA
65668015 AAGAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:65668041 original size:177 final size:172
Alignment explanation
Indices: 65667755--65668367 Score: 539
Period size: 177 Copynumber: 3.5 Consensus size: 172
65667745 TCTTTCAAAA
* * * *
65667755 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---AAGACGCTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTCAAATTC
* * *
65667817 CGTTTGTCAA-TT-TATTTTTC-AAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
66 TGTTT-TCAATTTCTACTTTTCAAAAAAT-CAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG-
65667879 TCACGTGCTGAGGTATTTTCAATTTCTGTTTTTTCAATTTCTGTTCAT
128 TCACGTGCTGAGGTATTTTCAATTTCTG--TTTTCAATTT-TGTTCAT
* *
65667927 CAAAATCAACTCATATTGCGAGAGGTGA-TTGAGCCTCGGG-ACACGCTGAGGTATTTTCAATTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTCAAATT
*
65667990 CTGGTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGG
65 CT-GTTTTCAATTTCTACTTTTCAAAA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-G
** ** *
65668055 GTCACACGCTGAGGCGTTCTCAATTTCTG----C----TT-TTCA-
127 GTCACGTGCTGAGGTATTTTCAATTTCTGTTTTCAATTTTGTTCAT
* *
65668091 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACGCCGAGGTCTTTTCAAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTATTTTCAAATT
65668156 CTGTCTTT-AATTTCTTTTTTTTAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCAAGAGGT
65 CTGT-TTTCAATTTC-------T-A---C--T-TTTC-AAAAAATCAACTCATATTGCAAGAGGT
* * **
65668220 GAGTTGAGCCTCAGGGCACGT--TGAGGTATTTTCAATTTATGCTTTTCAATTTTTGCTTTTT
114 GAGTTGAGCCTC-GGTCACGTGCTGAGGTATTTTCAATTTCTG-TTTTCAA-TTTTG-TTCAT
* * * *
65668281 AAGAATCAACTCATATTGCGAGAGGTGAATTGAGTCTCGGGCCACACGCCAAGGTCTTTTCAAAT
1 AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTATTTTCAAAT
* *
65668346 TCTGTTTTTAATTTCTATTTTT
64 TCTGTTTTCAATTTCTACTTTT
65668368 TTTTAATTTC
Statistics
Matches: 369, Mismatches: 28, Indels: 82
0.77 0.06 0.17
Matches are distributed among these distances:
163 27 0.07
164 11 0.03
165 12 0.03
166 26 0.07
167 1 0.00
171 1 0.00
172 10 0.03
173 28 0.08
174 27 0.07
175 6 0.02
176 8 0.02
177 75 0.20
178 7 0.02
179 43 0.12
180 4 0.01
182 1 0.00
183 1 0.00
184 1 0.00
187 2 0.01
189 2 0.01
190 5 0.01
191 71 0.19
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (172 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTCAAATTC
TGTTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGTCA
CGTGCTGAGGTATTTTCAATTTCTGTTTTCAATTTTGTTCAT
Found at i:65668158 original size:75 final size:77
Alignment explanation
Indices: 65667993--65668163 Score: 231
Period size: 75 Copynumber: 2.2 Consensus size: 77
65667983 TCAATTTCTG
* *
65667993 GTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTC
1 GTTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCC
*
65668058 ACACGCTGAGGC
66 ACACGCCGAGGC
* * * *
65668070 GTTCTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCC
1 GTTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCC
65668133 ACACGCCGAGGTC
66 ACACGCCGAGG-C
*
65668146 -TTTTCAAATTCTGTCTTT
1 GTTTTCAATTTCTG-CTTT
65668164 AATTTCTTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
75 57 0.69
76 8 0.10
77 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (77 bp):
GTTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCC
ACACGCCGAGGC
Found at i:65668267 original size:14 final size:14
Alignment explanation
Indices: 65668248--65668279 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
65668238 CGTTGAGGTA
65668248 TTTTCAATTTATGC
1 TTTTCAATTTATGC
*
65668262 TTTTCAATTTTTGC
1 TTTTCAATTTATGC
65668276 TTTT
1 TTTT
65668280 TAAGAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:65668367 original size:87 final size:87
Alignment explanation
Indices: 65668197--65668367 Score: 186
Period size: 87 Copynumber: 2.0 Consensus size: 87
65668187 GTTTCAAAAA
* *** *
65668197 AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCAATTTATGC
1 AATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGGCACGCCAAGGTATTTTCAAATTATGC
* *
65668262 TTTTCAATTTTTGCTTTTTAAG
66 TTTTCAATTTCTGATTTTTAAG
* * * *
65668284 AATCAACTCATATTGCGAGAGGTGAATTGAGTCTC-GGGCCACACGCCAAGGTCTTTTCAAATTC
1 AATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGG---CACGCCAAGGTATTTTCAAATTA
*
65668348 TG-TTTTTAATTTCT-ATTTTT
63 TGCTTTTCAATTTCTGATTTTT
65668368 TTTTAATTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
86 3 0.04
87 37 0.54
88 10 0.14
89 19 0.28
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (87 bp):
AATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGGCACGCCAAGGTATTTTCAAATTATGC
TTTTCAATTTCTGATTTTTAAG
Found at i:65669194 original size:30 final size:30
Alignment explanation
Indices: 65669160--65669280 Score: 224
Period size: 30 Copynumber: 4.0 Consensus size: 30
65669150 TAAATCTTAG
65669160 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
65669190 CCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
65669220 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
65669250 CCTTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
65669280 C
1 C
65669281 TTGCTCCATT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 88 1.00
ACGTcount: A:0.26, C:0.50, G:0.03, T:0.21
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:65669198 original size:18 final size:18
Alignment explanation
Indices: 65669177--65669259 Score: 55
Period size: 18 Copynumber: 5.3 Consensus size: 18
65669167 CACCACCAAC
65669177 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
65669195 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
*
65669207 TCCACTAGCCACTCCTTT
1 TCCACTAGCCACACCTTT
*
65669225 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
65669237 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
65669255 TCCAC
1 TCCAC
65669260 CACCAAATCC
Statistics
Matches: 47, Mismatches: 6, Indels: 24
0.61 0.08 0.31
Matches are distributed among these distances:
12 12 0.26
13 6 0.13
14 1 0.02
15 4 0.09
16 1 0.02
17 6 0.13
18 17 0.36
ACGTcount: A:0.24, C:0.49, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:65669301 original size:30 final size:29
Alignment explanation
Indices: 65669161--65669312 Score: 205
Period size: 30 Copynumber: 5.1 Consensus size: 29
65669151 AAATCTTAGC
65669161 CTTTTCCACCACCAACTCCACTAGCCACA
1 CTTTTCCACCACCAACTCCACTAGCCACA
*
65669190 CCTTTTCCACCACCAACTCCACTAGCCACTC
1 -CTTTTCCACCACCAACTCCACTAGCCAC-A
65669221 CTTTTCCACCACCAACTCCACTAGCCACA
1 CTTTTCCACCACCAACTCCACTAGCCACA
*
65669250 CCTTTTCCACCACCAAATCCACTAGCCACA
1 -CTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
65669280 CTTGCTCCATTACCTACTCCACTAACCACA
1 CTT-TTCCACCACCAACTCCACTAGCCACA
65669310 CTT
1 CTT
65669313 GCTCCATCAC
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
29 3 0.03
30 107 0.97
ACGTcount: A:0.26, C:0.47, G:0.03, T:0.23
Consensus pattern (29 bp):
CTTTTCCACCACCAACTCCACTAGCCACA
Found at i:65669847 original size:23 final size:23
Alignment explanation
Indices: 65669810--65669939 Score: 72
Period size: 23 Copynumber: 5.5 Consensus size: 23
65669800 CCTTTTTTGT
65669810 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
65669833 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
65669855 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
65669878 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
65669903 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
65669928 TATTATTTATAT
1 TATTATATATAT
65669940 ATATATTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 6 0.07
25 26 0.32
26 2 0.02
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:65669903 original size:25 final size:26
Alignment explanation
Indices: 65669875--65669946 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
65669865 ATTTTAAATT
*
65669875 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
65669900 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
65669925 TTATATTATTTATATATATATT
1 CTATATTATGTATATATATATT
65669947 TTTTTCATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.05
25 34 0.89
26 2 0.05
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:65669987 original size:22 final size:24
Alignment explanation
Indices: 65669961--65670019 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
65669951 TCATGTTATC
65669961 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
65669983 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
65670008 TTATGTACATAT
1 TTATGTATATAT
65670020 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:65670009 original size:25 final size:25
Alignment explanation
Indices: 65669977--65670025 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
65669967 ATATATCTTA
**
65669977 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
65670002 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
65670026 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:65670030 original size:20 final size:20
Alignment explanation
Indices: 65670005--65670063 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
65669995 TTTTAACACT
65670005 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
65670025 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
65670048 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
65670064 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:65670202 original size:16 final size:15
Alignment explanation
Indices: 65670178--65670212 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
65670168 TAATTATTAT
65670178 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
65670194 TATTTTAATATTTTA
1 TATTCTAATATTTTA
65670209 TATT
1 TATT
65670213 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:65680084 original size:23 final size:22
Alignment explanation
Indices: 65680058--65680133 Score: 53
Period size: 24 Copynumber: 3.2 Consensus size: 22
65680048 CAATTATCCG
65680058 GTACACGTAGTAACCTGCACTTA
1 GTACACGTAGTAACCT-CACTTA
* * *
65680081 GTACTACATAGTTACCTAACCATCTA
1 GTAC-ACGTAGTAACCTCA-C-T-TA
* *
65680107 ATACACGTAGTAGCCTACACTTA
1 GTACACGTAGTAACCT-CACTTA
65680130 GTAC
1 GTAC
65680134 TACACACGTG
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
23 10 0.26
24 12 0.31
25 11 0.28
26 6 0.15
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (22 bp):
GTACACGTAGTAACCTCACTTA
Found at i:65682154 original size:15 final size:15
Alignment explanation
Indices: 65682125--65682163 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
65682115 AACAGAGAAG
65682125 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
65682141 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
65682156 CCATGATA
1 CCAAGATA
65682164 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:65690585 original size:5 final size:5
Alignment explanation
Indices: 65690575--65690603 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
65690565 TTTCAGCTCT
65690575 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
65690604 GCGGTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:65692299 original size:26 final size:26
Alignment explanation
Indices: 65692270--65692323 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
65692260 GATAAAGTTA
*
65692270 ATGGTGTTTTTGCTCAATTTAATTTG
1 ATGGTGTTTTTACTCAATTTAATTTG
65692296 ATGGTGTTTTTACTCAATTTAATTTG
1 ATGGTGTTTTTACTCAATTTAATTTG
65692322 AT
1 AT
65692324 AGAATTGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.54
Consensus pattern (26 bp):
ATGGTGTTTTTACTCAATTTAATTTG
Found at i:65698056 original size:18 final size:18
Alignment explanation
Indices: 65698033--65698088 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
65698023 ATGTCAATTT
65698033 TTTTTTA-AATTTTATGAA
1 TTTTTTATAATTTT-TGAA
*
65698051 TTTTTTATATATTTTT-TA
1 TTTTTTATA-ATTTTTGAA
65698069 TTTTTTATAATTTTTGAA
1 TTTTTTATAATTTTTGAA
65698087 TT
1 TT
65698089 ATTTGCTGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 6 0.18
18 20 0.61
19 2 0.06
20 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTTTTATAATTTTTGAA
Found at i:65698478 original size:21 final size:21
Alignment explanation
Indices: 65698450--65698497 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
65698440 ATTTTATATT
65698450 AATAATAATATAAGTTAAAAATAA
1 AATAATAA-AT-A-TTAAAAATAA
*
65698474 AATAATAAATATTTAAAATAA
1 AATAATAAATATTAAAAATAA
65698495 AAT
1 AAT
65698498 TGAATTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.52
22 1 0.04
23 2 0.09
24 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAATAAATATTAAAAATAA
Found at i:65698702 original size:10 final size:10
Alignment explanation
Indices: 65698689--65698746 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
65698679 AAAATAATAC
65698689 TATATATAAA
1 TATATATAAA
*
65698699 TATATATACA
1 TATATATAAA
65698709 TATATATATAA
1 TATATATA-AA
65698720 TATA-ATAAA
1 TATATATAAA
* *
65698729 -AAATATACA
1 TATATATAAA
*
65698738 CATATATAA
1 TATATATAA
65698747 TAATACTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 2 0.05
9 6 0.15
10 26 0.67
11 5 0.13
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (10 bp):
TATATATAAA
Found at i:65698735 original size:39 final size:39
Alignment explanation
Indices: 65698692--65698769 Score: 90
Period size: 39 Copynumber: 2.0 Consensus size: 39
65698682 ATAATACTAT
*
65698692 ATATAAATATATATACAT-ATA-TATATA-ATATAATAAAAA
1 ATATAAACATATATA-ATAATACTA-ATACAT-TAATAAAAA
*
65698731 ATATACACATATATAATAATACTAATACATTAATAAAAA
1 ATATAAACATATATAATAATACTAATACATTAATAAAAA
65698770 TAATAAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
38 2 0.06
39 28 0.82
40 4 0.12
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (39 bp):
ATATAAACATATATAATAATACTAATACATTAATAAAAA
Found at i:65698741 original size:31 final size:32
Alignment explanation
Indices: 65698681--65698757 Score: 104
Period size: 31 Copynumber: 2.4 Consensus size: 32
65698671 AGTAATTAAA
* *
65698681 AATAATACTATATATAAATATATATACATATAT
1 AATAATACTA-ATATAAAAATATACACATATAT
65698714 ATATAATA-TAATA-AAAAATATACACATATAT
1 A-ATAATACTAATATAAAAATATACACATATAT
65698745 AATAATACTAATA
1 AATAATACTAATA
65698758 CATTAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 6 0.15
31 22 0.55
32 3 0.08
33 3 0.08
34 6 0.15
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (32 bp):
AATAATACTAATATAAAAATATACACATATAT
Found at i:65698751 original size:3 final size:3
Alignment explanation
Indices: 65698743--65698910 Score: 89
Period size: 3 Copynumber: 55.0 Consensus size: 3
65698733 ATACACATAT
* * * * *
65698743 ATA ATA ATA CTA ATA CATTA ATA AAA ATA ATA AGA AT- ATG TTA ATA
1 ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
65698789 ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATGA ATAA ATAA ATA CACA
1 ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A AT-A ATA -ATA
* * * *
65698835 AAA ATA A-A AT- ATA ATT ATA ATA GTA AT- ATA AAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
65698880 ATA ATA ATA ATA AGTTA A-A GTA ATA ATA ATA
1 ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA
65698911 TATGTTAATT
Statistics
Matches: 127, Mismatches: 23, Indels: 30
0.71 0.13 0.17
Matches are distributed among these distances:
2 12 0.09
3 91 0.72
4 18 0.14
5 6 0.05
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:65698780 original size:23 final size:23
Alignment explanation
Indices: 65698745--65698795 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
65698735 ACACATATAT
**
65698745 AATAATACTAATACATTAATAAA
1 AATAATAAGAATACATTAATAAA
** *
65698768 AATAATAAGAATATGTTAATAAT
1 AATAATAAGAATACATTAATAAA
65698791 AATAA
1 AATAA
65698796 ATTAATGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
AATAATAAGAATACATTAATAAA
Found at i:65698811 original size:16 final size:17
Alignment explanation
Indices: 65698790--65698830 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
65698780 ATGTTAATAA
*
65698790 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
65698806 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
65698822 AAATAAATA
1 TAATAAATA
65698831 CACAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:65698874 original size:26 final size:25
Alignment explanation
Indices: 65698840--65698912 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 25
65698830 ACACAAAAAT
* *
65698840 AAAATATAATTATAATAGTAATATA
1 AAAATATAATAATAATAATAATATA
65698865 AAAATAATAATAATAATAATAATA-A
1 AAAAT-ATAATAATAATAATAATATA
* * *
65698890 TAAGT-TAA-AGTAATAATAATATA
1 AAAATATAATAATAATAATAATATA
65698913 TGTTAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 12 0.29
23 4 0.10
25 9 0.22
26 16 0.39
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAATATAATAATAATAATAATATA
Found at i:65698877 original size:23 final size:24
Alignment explanation
Indices: 65698838--65698912 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 24
65698828 ATACACAAAA
* *
65698838 ATAAAATATAATTATAATAGTAAT
1 ATAAAATATAATAATAATAATAAT
65698862 ATAAAA-ATAATAATAATAATAAT
1 ATAAAATATAATAATAATAATAAT
*
65698885 AATAATAAGT-TAA-AGTAATAATAAT
1 -ATAA-AA-TATAATAATAATAATAAT
65698910 ATA
1 ATA
65698913 TGTTAATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
23 15 0.34
24 13 0.30
25 13 0.30
26 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAAAATATAATAATAATAATAAT
Found at i:65698933 original size:22 final size:21
Alignment explanation
Indices: 65698878--65698933 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
65698868 ATAATAATAA
65698878 TAATAATAATAATAAGTTAAAG
1 TAATAATAAT-ATAAGTTAAAG
* **
65698900 TAATAATAATATATGTTAATT
1 TAATAATAATATAAGTTAAAG
65698921 TAATATATAATAT
1 TAATA-ATAATAT
65698934 GGAAAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATAATAATATAAGTTAAAG
Found at i:65699491 original size:14 final size:14
Alignment explanation
Indices: 65699472--65699505 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
65699462 AAAAATGTAC
*
65699472 TTTTTTAGTGTGTT
1 TTTTTTAGTGTCTT
*
65699486 TTTTTTAGTTTCTT
1 TTTTTTAGTGTCTT
65699500 TTTTTT
1 TTTTTT
65699506 TTTGCTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.03, G:0.12, T:0.79
Consensus pattern (14 bp):
TTTTTTAGTGTCTT
Found at i:65699644 original size:21 final size:19
Alignment explanation
Indices: 65699618--65699663 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
65699608 ATCTTGATTT
*
65699618 TTTGGTACTTAGTTCCTCTGA
1 TTTGGTA-TT-GTGCCTCTGA
*
65699639 TTTGGTATTGTGCTTCTGA
1 TTTGGTATTGTGCCTCTGA
65699658 TTTGGT
1 TTTGGT
65699664 GTTACTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 14 0.61
20 2 0.09
21 7 0.30
ACGTcount: A:0.11, C:0.13, G:0.24, T:0.52
Consensus pattern (19 bp):
TTTGGTATTGTGCCTCTGA
Found at i:65700846 original size:76 final size:76
Alignment explanation
Indices: 65700686--65701047 Score: 444
Period size: 78 Copynumber: 4.8 Consensus size: 76
65700676 AGAAACTAAA
* * * * *
65700686 AGGCTTAACTCACTTCTCGCAATATGAGTCT-ATTTTTTTGAAAAAACATAAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGT-TGATTTTTTTG-AAAAATAGAAA-TAAAAATACCT
* *
65700750 CAACGTGTGTCCCG
63 CAGCGTGTGACCCG
* * *
65700764 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACAAAAATACATCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATAAAAATACCTCAG
65700829 CGTGTGACCCG
66 CGTGTGACCCG
* * * *
65700840 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATA-AATTGAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATAAAAATACCTCAG
* * * *
65700904 TGCGTGATCTG
66 CGTGTGACCCG
* * * *
65700915 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAATTAGGAACTAAAAATACCTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAATA-GAAATAAAAATACCTC
65700980 AGCGTGTGACCCG
64 AGCGTGTGACCCG
*
65700993 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-AAAAACAGAAATAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATAAAAA
65701048 CATCAGAATA
Statistics
Matches: 244, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
74 9 0.04
75 55 0.23
76 83 0.34
77 10 0.04
78 87 0.36
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATAAAAATACCTCAG
CGTGTGACCCG
Found at i:65701979 original size:46 final size:46
Alignment explanation
Indices: 65701912--65702006 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 46
65701902 TTAGGCATAA
* * * * * *
65701912 TATTTCTTTACAGCATCTGAGTTCATTGGGTTAGGTAACTCTTTCC
1 TATTTCTTCACAACATCTGAGTTCACTAGATTAGGTAACTCATTCC
* *
65701958 TATTTCTTCACAACATTTGAGTTCACTAGATTCGGTAACTCATTCC
1 TATTTCTTCACAACATCTGAGTTCACTAGATTAGGTAACTCATTCC
65702004 TAT
1 TAT
65702007 CCATCTCAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (46 bp):
TATTTCTTCACAACATCTGAGTTCACTAGATTAGGTAACTCATTCC
Found at i:65716161 original size:23 final size:22
Alignment explanation
Indices: 65716131--65716191 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
65716121 ATATTAAAAT
*
65716131 ATAATATTAGAATAAAAATAACA
1 ATAATATTAAAATAAAAA-AACA
* *
65716154 ATAATATTCACAATAAAAAAATA
1 ATAATATT-AAAATAAAAAAACA
*
65716177 ATAATAATAAAATAA
1 ATAATATTAAAATAA
65716192 TGTTCTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 6 0.18
23 18 0.55
24 9 0.27
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (22 bp):
ATAATATTAAAATAAAAAAACA
Found at i:65716203 original size:43 final size:42
Alignment explanation
Indices: 65716155--65716264 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
65716145 AAAATAACAA
65716155 TAATATTCACAATAAAAAAATAATAATAATAA-AATAATGTTC
1 TAATATTCACAATAAAAAAATAATAA-AATAATAATAATGTTC
*
65716197 TAAATATTCAGAATAAAGAAAATAAT-AAATAATAATAATGTTC
1 T-AATATTCACAATAAA-AAAATAATAAAATAATAATAATGTTC
* *
65716240 TAATA-ACATAATAAAAGAAATAATA
1 TAATATTCACAATAAAA-AAATAATA
65716265 TATTTGTAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
40 1 0.02
41 15 0.25
42 10 0.17
43 26 0.43
44 8 0.13
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (42 bp):
TAATATTCACAATAAAAAAATAATAAAATAATAATAATGTTC
Found at i:65716351 original size:6 final size:6
Alignment explanation
Indices: 65716329--65716553 Score: 80
Period size: 6 Copynumber: 37.0 Consensus size: 6
65716319 ATATATATGT
* * *
65716329 TAATAA TGATGA TAATAA TAATAA TAATAA TAGA-AA TAATAA TGA-AA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TA-ATAA TAATAA TAATAA
** * *
65716376 TACA-AA -AAGCA -AAT-A TAAT-A TAATAA TAATAT TAA-AA TAA-AG
1 TA-ATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* *
65716418 TAATTAA AAATAA TACT-A TATATAAA TATATAA -ATATATA TACATATA
1 TAA-TAA TAATAA TAATAA TA-AT-AA TA-ATAA TA-ATA-A TA-ATA-A
* **
65716466 TATATACA TATATAA TAAAAA T-ATACA CTAATTT TAATAA TAATAA TAATAA
1 TA-ATA-A TA-ATAA TAATAA TAATA-A -TAATAA TAATAA TAATAA TAATAA
* * *
65716518 TAGTAA TAATAT TAGA-AA TAATAA TAATAT TAATAA
1 TAATAA TAATAA TA-ATAA TAATAA TAATAA TAATAA
65716554 AGAAACGAAA
Statistics
Matches: 170, Mismatches: 31, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
4 2 0.01
5 30 0.18
6 100 0.59
7 12 0.07
8 26 0.15
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (6 bp):
TAATAA
Found at i:65722542 original size:13 final size:13
Alignment explanation
Indices: 65722524--65722548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65722514 TACACCGAAC
65722524 ATCATAGAACTAT
1 ATCATAGAACTAT
65722537 ATCATAGAACTA
1 ATCATAGAACTA
65722549 AGGACTTAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (13 bp):
ATCATAGAACTAT
Found at i:65725778 original size:43 final size:43
Alignment explanation
Indices: 65725723--65725976 Score: 427
Period size: 43 Copynumber: 5.9 Consensus size: 43
65725713 GTTTATTAAA
65725723 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
* * *
65725766 AAAAAGAGCCGCTAAAAGTCGTGGCCTTTAGCGGTGTTTGAAT
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
65725809 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
* * *
65725852 AAAAAGAGCCGCTAAAAGTCGTGGCCTTTAGCGGTGTTTGAAT
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
*
65725895 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGCTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
* *
65725938 AAAAAGCGCCGCTAAAAGTCATGACCTTTAGCGGCGTTT
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTT
65725977 TTCCCACAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 195 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
Found at i:65726084 original size:31 final size:30
Alignment explanation
Indices: 65726049--65726114 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
65726039 CTTCCTGCAT
65726049 TAAAATCCAACC-AAATACAACAAATATAGCA
1 TAAAATCCAACCAAAATAC--CAAATATAGCA
* * *
65726080 TAAAATGCAGCCAAAATACCAAATTTAGCA
1 TAAAATCCAACCAAAATACCAAATATAGCA
65726110 TAAAA
1 TAAAA
65726115 AAATACAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.56, C:0.20, G:0.06, T:0.18
Consensus pattern (30 bp):
TAAAATCCAACCAAAATACCAAATATAGCA
Found at i:65726376 original size:21 final size:21
Alignment explanation
Indices: 65726350--65726411 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
65726340 TTCCTATGCT
65726350 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
* *
65726371 CTGCCTCTCTCGTTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
65726392 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
65726412 TCCGCTCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.21, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:65726848 original size:13 final size:14
Alignment explanation
Indices: 65726823--65726851 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65726813 TGATGAATTG
65726823 AATTAAACAATTAT
1 AATTAAACAATTAT
65726837 AATTAAAC-ATTAT
1 AATTAAACAATTAT
65726850 AA
1 AA
65726852 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:65727055 original size:16 final size:17
Alignment explanation
Indices: 65727018--65727056 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
65727008 AAAATATTAT
*
65727018 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
65727035 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
65727051 TTAATA
1 TTAATA
65727057 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:65732076 original size:9 final size:9
Alignment explanation
Indices: 65732062--65732251 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
65732052 TATTTAAGTA
65732062 TTATGTAAG
1 TTATGTAAG
65732071 TTATGTAAG
1 TTATGTAAG
*
65732080 TTATGATATG
1 TTATG-TAAG
* * *
65732090 ATATAT-AT
1 TTATGTAAG
*
65732098 TTATGTAAA
1 TTATGTAAG
* *
65732107 TTATAT-AT
1 TTATGTAAG
*
65732115 TTATCTAAG
1 TTATGTAAG
*
65732124 TTATATAAG
1 TTATGTAAG
65732133 TTATGTAAG
1 TTATGTAAG
*
65732142 TTATGTAAA
1 TTATGTAAG
*
65732151 TTATGATATAAAA
1 TTATG---T-AAG
*
65732164 TATATTTAAG
1 T-TATGTAAG
65732174 TATTATGTAAG
1 --TTATGTAAG
65732185 TTATGTAAG
1 TTATGTAAG
* *
65732194 TTATAT-AT
1 TTATGTAAG
*
65732202 TTATCTAAG
1 TTATGTAAG
*
65732211 TTATATAAG
1 TTATGTAAG
*
65732220 TTATGTACG
1 TTATGTAAG
*
65732229 TTTTGTAAG
1 TTATGTAAG
* *
65732238 TTATATAAA
1 TTATGTAAG
65732247 TTATG
1 TTATG
65732252 ATATCAAATA
Statistics
Matches: 139, Mismatches: 31, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
8 16 0.12
9 98 0.71
10 8 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:65732144 original size:71 final size:69
Alignment explanation
Indices: 65732062--65732224 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
65732052 TATTTAAGTA
* * * *
65732062 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
65732126 ATATAAG
64 ATAT-AG
* * *
65732133 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
65732198 ATAT
66 ATAG
* *
65732202 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
65732225 TACGTTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Done.