Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 16 of 106
Found at i:2687304 original size:106 final size:106
Alignment explanation
Indices: 2687194--2687402 Score: 224
Period size: 106 Copynumber: 2.0 Consensus size: 106
2687184 CCAACTTATG
* * * * *
2687194 GTGTTATCCCAGTCGTTCTTTATTTATGACCTGCGGTGTTGTC-CTGGTCGTCCATTA-TTTTGA
1 GTGTTATCCCAATCATTCTTTATTTATGACCTGCAGTGTTATCTC-GATCGTCCATTATTTTTGA
* * *
2687257 CTTGTGATGTTATCTCGAACATCCTTTTTATTTGTGACTTACA
65 CTTGTCATATTATCTCGAACATCC-TTTTATTTATGACTTACA
* * * * * * * *
2687300 GTGTTGTCCTAATCATTTTTTATTTCTGACTTGCAGTGTTATCTCGATCTTTCGTTATTTTTGAC
1 GTGTTATCCCAATCATTCTTTATTTATGACCTGCAGTGTTATCTCGATCGTCCATTATTTTTGAC
* *
2687365 TTGTCATATTATCTCGATCGTCCTTTTATTTATGACTT
66 TTGTCATATTATCTCGAACATCCTTTTATTTATGACTT
2687403 GTAGTATTAT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
106 56 0.67
107 27 0.33
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (106 bp):
GTGTTATCCCAATCATTCTTTATTTATGACCTGCAGTGTTATCTCGATCGTCCATTATTTTTGAC
TTGTCATATTATCTCGAACATCCTTTTATTTATGACTTACA
Found at i:2687401 original size:36 final size:37
Alignment explanation
Indices: 2687317--2687413 Score: 112
Period size: 35 Copynumber: 2.7 Consensus size: 37
2687307 CCTAATCATT
* * * *
2687317 TTTTATTTCTGACTTG-CAGTGTTATCTCGATCTTTC
1 TTTTATTTATGACTTGTCAGTATTATCTCGATCGTCC
* *
2687353 -GTTATTTTTGACTTGTCA-TATTATCTCGATCGTCC
1 TTTTATTTATGACTTGTCAGTATTATCTCGATCGTCC
2687388 TTTTATTTATGACTTGT-AGTATTATC
1 TTTTATTTATGACTTGTCAGTATTATC
2687414 CAGTTGTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
35 28 0.55
36 23 0.45
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (37 bp):
TTTTATTTATGACTTGTCAGTATTATCTCGATCGTCC
Found at i:2689270 original size:3 final size:3
Alignment explanation
Indices: 2689207--2689258 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
2689197 TTAGGGACTA
* * *
2689207 AAT AAT AAT AAT ACAT AAT ACT AAT ACT AAT ACT AAT AAT AAT AAAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
2689254 AAT AA
1 AAT AA
2689259 ATATGAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2692510 original size:9 final size:9
Alignment explanation
Indices: 2692498--2692562 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
2692488 AATAATATTT
2692498 AACAAAACA
1 AACAAAACA
2692507 AACAAAA-A
1 AACAAAACA
*
2692515 AATAAAAACA
1 AA-CAAAACA
2692525 AACAAAAC-
1 AACAAAACA
2692533 -A-AAAA-A
1 AACAAAACA
*
2692539 TA-AAAACA
1 AACAAAACA
2692547 AACAAAACA
1 AACAAAACA
2692556 AACAAAA
1 AACAAAA
2692563 ACTAAACAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
6 4 0.09
7 6 0.13
8 5 0.11
9 29 0.62
10 3 0.06
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (9 bp):
AACAAAACA
Found at i:2692525 original size:14 final size:15
Alignment explanation
Indices: 2692498--2692570 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 15
2692488 AATAATATTT
2692498 AACAAAAC--AAACA
1 AACAAAACAAAAACA
*
2692511 AA-AAAATAAAAACA
1 AACAAAACAAAAACA
2692525 AACAAAACAAAAA-A
1 AACAAAACAAAAACA
* *
2692539 TA-AAAACAAACA-A
1 AACAAAACAAAAACA
2692552 AAC-AAACAAAAACTA
1 AACAAAACAAAAAC-A
2692567 AACA
1 AACA
2692571 GAAATAAGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
12 4 0.09
13 21 0.45
14 9 0.19
15 13 0.28
ACGTcount: A:0.79, C:0.16, G:0.00, T:0.04
Consensus pattern (15 bp):
AACAAAACAAAAACA
Found at i:2692529 original size:22 final size:22
Alignment explanation
Indices: 2692502--2692562 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
2692492 ATATTTAACA
2692502 AAACAAACAAAAAAATAAAAAC
1 AAACAAACAAAAAAATAAAAAC
2692524 AAACAAA-ACAAAAAATAAAAAC
1 AAACAAACA-AAAAAATAAAAAC
2692546 AAACAAAACAAACAAAA
1 AAAC-AAACAAA-AAAA
2692563 ACTAAACAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.03
22 24 0.69
23 5 0.14
24 5 0.14
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (22 bp):
AAACAAACAAAAAAATAAAAAC
Found at i:2692680 original size:22 final size:22
Alignment explanation
Indices: 2692653--2692695 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2692643 CAACTCTCCG
2692653 ACCAACCACCCTACAGCCACCA
1 ACCAACCACCCTACAGCCACCA
* *
2692675 ACCAACTACTCTACAGCCACC
1 ACCAACCACCCTACAGCCACC
2692696 TAGATCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.51, G:0.05, T:0.09
Consensus pattern (22 bp):
ACCAACCACCCTACAGCCACCA
Found at i:2692812 original size:24 final size:24
Alignment explanation
Indices: 2692785--2692834 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
2692775 AAAGGAAGCT
*
2692785 CTCTCGGAATCCCCTTCAATCTCC
1 CTCTAGGAATCCCCTTCAATCTCC
*
2692809 CTCTAGGAATTCCCTTCAATCTCC
1 CTCTAGGAATCCCCTTCAATCTCC
2692833 CT
1 CT
2692835 AAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.42, G:0.08, T:0.32
Consensus pattern (24 bp):
CTCTAGGAATCCCCTTCAATCTCC
Found at i:2694094 original size:15 final size:14
Alignment explanation
Indices: 2694058--2694100 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
2694048 TTTTCAGAAT
*
2694058 CCTAAAATCCAAAC
1 CCTAAAATCAAAAC
2694072 CCTAAAATCAAAATC
1 CCTAAAATCAAAA-C
* *
2694087 CCTTAAATCCAAAC
1 CCTAAAATCAAAAC
2694101 TCCCCAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.19
Consensus pattern (14 bp):
CCTAAAATCAAAAC
Found at i:2694099 original size:16 final size:16
Alignment explanation
Indices: 2694058--2694124 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
2694048 TTTTCAGAAT
2694058 CCTAAAATCC-AAA-C
1 CCTAAAATCCAAAATC
2694072 CCTAAAAT-CAAAATC
1 CCTAAAATCCAAAATC
* *
2694087 CCTTAAATCCAAACTC
1 CCTAAAATCCAAAATC
* *
2694103 CCCAAAATCCAAAGT-
1 CCTAAAATCCAAAATC
2694118 CCTAAAA
1 CCTAAAA
2694125 ATCCTAAGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
13 1 0.02
14 11 0.25
15 14 0.32
16 18 0.41
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (16 bp):
CCTAAAATCCAAAATC
Found at i:2699857 original size:1 final size:1
Alignment explanation
Indices: 2699853--2699923 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
2699843 GATGGGGCAT
* * * * * * * *
2699853 AAAAAAATAAAAAAAAACAATAAGAAAAAAAAAAAAATAAAAAAATAAAAAAAAGAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
2699918 ATAAAA
1 AAAAAA
2699924 GGGACATTCA
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.87, C:0.01, G:0.04, T:0.07
Consensus pattern (1 bp):
A
Found at i:2699880 original size:21 final size:20
Alignment explanation
Indices: 2699851--2699923 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
2699841 AGGATGGGGC
2699851 ATAAAAAAATAAAAAAAAACA
1 ATAAAAAAATAAAAAAAAA-A
*
2699872 AT--AAGAA-AAAAAAAAAA
1 ATAAAAAAATAAAAAAAAAA
2699889 ATAAAAAAATAAAAAAAAGAGA
1 ATAAAAAAATAAAAAAAA-A-A
2699911 A-AAAAAAATAAAA
1 ATAAAAAAATAAAA
2699924 GGGACATTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.07
18 9 0.20
19 8 0.18
20 8 0.18
21 15 0.33
22 2 0.04
ACGTcount: A:0.86, C:0.01, G:0.04, T:0.08
Consensus pattern (20 bp):
ATAAAAAAATAAAAAAAAAA
Found at i:2699886 original size:29 final size:30
Alignment explanation
Indices: 2699853--2699923 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
2699843 GATGGGGCAT
* *
2699853 AAAAAAATAAAAAAA-AACAATAAGAAAAAA
1 AAAAAAATAAAAAAATAAAAAAAAG-AAAAA
*
2699883 AAAAAAATAAAAAAATAAAAAAAAG-AGAA
1 AAAAAAATAAAAAAATAAAAAAAAGAAAAA
2699912 AAAAAAATAAAA
1 AAAAAAATAAAA
2699924 GGGACATTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.41
30 15 0.41
31 7 0.19
ACGTcount: A:0.87, C:0.01, G:0.04, T:0.07
Consensus pattern (30 bp):
AAAAAAATAAAAAAATAAAAAAAAGAAAAA
Found at i:2699889 original size:30 final size:31
Alignment explanation
Indices: 2699853--2699918 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
2699843 GATGGGGCAT
* *
2699853 AAAAAAATAAAAAAA-AACAATAAGAAAAAA
1 AAAAAAATAAAAAAATAAAAAAAAGAAAAAA
*
2699883 AAAAAAATAAAAAAATAAAAAAAAGAGAAAA
1 AAAAAAATAAAAAAATAAAAAAAAGAAAAAA
2699914 AAAAA
1 AAAAA
2699919 TAAAAGGGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.88, C:0.02, G:0.05, T:0.06
Consensus pattern (31 bp):
AAAAAAATAAAAAAATAAAAAAAAGAAAAAA
Found at i:2701826 original size:23 final size:22
Alignment explanation
Indices: 2701800--2702038 Score: 188
Period size: 23 Copynumber: 10.7 Consensus size: 22
2701790 GCCTCTAGGA
2701800 ATGATTCTGTAAGACCTTCGGGC
1 ATGATTCT-TAAGACCTTCGGGC
*
2701823 ATGATT-TTAAGACCTTCAGGC
1 ATGATTCTTAAGACCTTCGGGC
* *
2701844 A--ATTTTGTAAGACCTCCGGGC
1 ATGATTCT-TAAGACCTTCGGGC
*
2701865 ATGATTCTATAAGATCTTCGGGC
1 ATGATTCT-TAAGACCTTCGGGC
* *
2701888 ATGATGTC-TAAGACCTCCGGAC
1 ATGAT-TCTTAAGACCTTCGGGC
*
2701910 ATGATTCTGTAAGACCTACGGGC
1 ATGATTCT-TAAGACCTTCGGGC
*
2701933 ATGATGTC-TAAGACCTTCGGAC
1 ATGAT-TCTTAAGACCTTCGGGC
*
2701955 ATGATTCTATAAGACCTCCGGGC
1 ATGATTCT-TAAGACCTTCGGGC
* * * *
2701978 ATAATGTC-TAAGACCTCCAGAC
1 ATGAT-TCTTAAGACCTTCGGGC
* *
2702000 ATGATTTTGTAAGACCTAT-GAGC
1 ATGATTCT-TAAGACCT-TCGGGC
2702023 ATGATT-TCTAAGACCT
1 ATGATTCT-TAAGACCT
2702039 CCAGGCATAA
Statistics
Matches: 176, Mismatches: 26, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.02
20 1 0.01
21 32 0.18
22 59 0.34
23 75 0.43
24 6 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (22 bp):
ATGATTCTTAAGACCTTCGGGC
Found at i:2701906 original size:45 final size:45
Alignment explanation
Indices: 2701809--2702040 Score: 258
Period size: 45 Copynumber: 5.2 Consensus size: 45
2701799 AATGATTCTG
* * * * *
2701809 TAAGACCTTCGGGCATGATT-T-TAAGACCTTCAGGCA--ATTTTG
1 TAAGACCTCCGGACATGATTCTATAAGACCTTCGGGCATGA-TGTC
* *
2701851 TAAGACCTCCGGGCATGATTCTATAAGATCTTCGGGCATGATGTC
1 TAAGACCTCCGGACATGATTCTATAAGACCTTCGGGCATGATGTC
* *
2701896 TAAGACCTCCGGACATGATTCTGTAAGACCTACGGGCATGATGTC
1 TAAGACCTCCGGACATGATTCTATAAGACCTTCGGGCATGATGTC
* * *
2701941 TAAGACCTTCGGACATGATTCTATAAGACCTCCGGGCATAATGTC
1 TAAGACCTCCGGACATGATTCTATAAGACCTTCGGGCATGATGTC
* * * * *
2701986 TAAGACCTCCAGACATGATTTTGTAAGACCTAT-GAGCATGATTTC
1 TAAGACCTCCGGACATGATTCTATAAGACCT-TCGGGCATGATGTC
2702031 TAAGACCTCC
1 TAAGACCTCC
2702041 AGGCATAAAT
Statistics
Matches: 164, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
42 19 0.12
43 1 0.01
44 13 0.08
45 130 0.79
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (45 bp):
TAAGACCTCCGGACATGATTCTATAAGACCTTCGGGCATGATGTC
Found at i:2701960 original size:90 final size:90
Alignment explanation
Indices: 2701851--2702040 Score: 290
Period size: 90 Copynumber: 2.1 Consensus size: 90
2701841 GGCAATTTTG
* * * * *
2701851 TAAGACCTCCGGGCATGATTCTATAAGATCTTCGGGCATGATGTCTAAGACCTCCGGACATGATT
1 TAAGACCTCCGGACATGATTCTATAAGACCTCCGGGCATAATGTCTAAGACCTCCAGACATGATT
*
2701916 CTGTAAGACCTACGGGCATGATGTC
66 CTGTAAGACCTACGAGCATGATGTC
*
2701941 TAAGACCTTCGGACATGATTCTATAAGACCTCCGGGCATAATGTCTAAGACCTCCAGACATGATT
1 TAAGACCTCCGGACATGATTCTATAAGACCTCCGGGCATAATGTCTAAGACCTCCAGACATGATT
* * *
2702006 TTGTAAGACCTATGAGCATGATTTC
66 CTGTAAGACCTACGAGCATGATGTC
2702031 TAAGACCTCC
1 TAAGACCTCC
2702041 AGGCATAAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (90 bp):
TAAGACCTCCGGACATGATTCTATAAGACCTCCGGGCATAATGTCTAAGACCTCCAGACATGATT
CTGTAAGACCTACGAGCATGATGTC
Found at i:2702042 original size:45 final size:45
Alignment explanation
Indices: 2701851--2702040 Score: 263
Period size: 45 Copynumber: 4.2 Consensus size: 45
2701841 GGCAATTTTG
* * *
2701851 TAAGACCTCCGGGCATGATTCTATAAGATCTTCGGGCATGATGTC
1 TAAGACCTCCGGACATGATTCTATAAGACCTACGGGCATGATGTC
*
2701896 TAAGACCTCCGGACATGATTCTGTAAGACCTACGGGCATGATGTC
1 TAAGACCTCCGGACATGATTCTATAAGACCTACGGGCATGATGTC
* * *
2701941 TAAGACCTTCGGACATGATTCTATAAGACCTCCGGGCATAATGTC
1 TAAGACCTCCGGACATGATTCTATAAGACCTACGGGCATGATGTC
* * * * * *
2701986 TAAGACCTCCAGACATGATTTTGTAAGACCTATGAGCATGATTTC
1 TAAGACCTCCGGACATGATTCTATAAGACCTACGGGCATGATGTC
2702031 TAAGACCTCC
1 TAAGACCTCC
2702041 AGGCATAAAT
Statistics
Matches: 128, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 128 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (45 bp):
TAAGACCTCCGGACATGATTCTATAAGACCTACGGGCATGATGTC
Found at i:2703111 original size:95 final size:94
Alignment explanation
Indices: 2702989--2703165 Score: 265
Period size: 95 Copynumber: 1.9 Consensus size: 94
2702979 AATTTAAAAA
2702989 CAGATGAGAATTTTAAAGTTGTGGAGCCTTC-GTTGAGAGGAGCTTTTCCAAGATGAGAATTTTA
1 CAGATGAGAATTTTAAAGTTGTGGAGCCTTCTGTTGAGAGGAGCTTTTCC-AGATGAG-ATTTTA
*
2703053 AAGTTGTGGAGCCTCT-TTGAAAGGAGCTTTT
64 AAGTTGTTGAGCCTCTGTTG-AAGGAGCTTTT
*
2703084 CTAGATGAG-ATTTTAAAGTTGTTGAGCC-TCTGTTGAGAGGAGCTTTTCCAGATGAGATTTT-A
1 C-AGATGAGAATTTTAAAGTTGTGGAGCCTTCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTAA
2703146 AGTTGTTGAGCCTCTGTTGA
65 AGTTGTTGAGCCTCTGTTGA
2703166 GAGAAGAATT
Statistics
Matches: 77, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
92 16 0.21
93 8 0.10
94 9 0.12
95 37 0.48
96 7 0.09
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (94 bp):
CAGATGAGAATTTTAAAGTTGTGGAGCCTTCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTAAA
GTTGTTGAGCCTCTGTTGAAGGAGCTTTT
Found at i:2703125 original size:47 final size:48
Alignment explanation
Indices: 2702990--2703168 Score: 260
Period size: 46 Copynumber: 3.8 Consensus size: 48
2702980 ATTTAAAAAC
2702990 AGATGAGAATTTTAAAGTTGTGGAGCCT-TCGTTGAGAGGAGCTTTTCCA
1 AGATGAGAATTTTAAAGTTGTGGAGCCTCT-GTTGAGAGGAGCTTTT-CA
* *
2703039 AGATGAGAATTTTAAAGTTGTGGAGCCTCT-TTGAAAGGAGCTTTTCT
1 AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCA
* *
2703086 AGATGAG-ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCC
1 AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCA
*
2703133 AGATGAG-ATTTT-AAGTTGTTGAGCCTCTGTTGAGAG
1 AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAG
2703169 AAGAATTTTA
Statistics
Matches: 123, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
46 45 0.37
47 35 0.28
48 14 0.11
49 28 0.23
50 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (48 bp):
AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCA
Found at i:2703226 original size:80 final size:81
Alignment explanation
Indices: 2703093--2703244 Score: 261
Period size: 80 Copynumber: 1.9 Consensus size: 81
2703083 TCTAGATGAG
* * * *
2703093 ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAGATGAGATTTT-AAGTTGTTGAGC
1 ATTTTAAAGTTATGGAGCATCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTAAAATTGTTGAGC
2703157 CTCTGTTGAGAGAAGA
66 CTCTGTTGAGAGAAGA
2703173 ATTTTAAAGTTATGGAGCATCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTAAAATTGTTGAGC
1 ATTTTAAAGTTATGGAGCATCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTAAAATTGTTGAGC
2703238 CTCTGTT
66 CTCTGTT
2703245 AAGAAAGCTT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 49 0.73
81 18 0.27
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.38
Consensus pattern (81 bp):
ATTTTAAAGTTATGGAGCATCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTAAAATTGTTGAGC
CTCTGTTGAGAGAAGA
Found at i:2703297 original size:175 final size:176
Alignment explanation
Indices: 2702995--2703343 Score: 512
Period size: 175 Copynumber: 2.0 Consensus size: 176
2702985 AAAACAGATG
* * *
2702995 AGAATTTTAAAGTTGTGGAGCCTTCGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
1 AGAATTTTAAAGTTATGGAGCATTCGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAATTGT
* * * *
2703060 GGAGCCTCTTTGAAAGGAGCTTTTCTAGATGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGA
66 GGAGCCTCTTTGAAAGAAGCTTTTCAAGATGAGATTTTAAAGTTGTGGAGCCTCTATTGAGAGGA
*
2703125 GCTTTTCCAGATGAGATTTT-AAGTTGTTGAGCCTCTGTTGAGAGA
131 GCTTTTCCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGA
2703170 AGAATTTTAAAGTTATGGAGCA-TCTGTTGAGAGGAGCTTTTCC-AGATGAG-ATTTTAAAATTG
1 AGAATTTTAAAGTTATGGAGCATTC-GTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAATTG
* *
2703232 TTGAGCCTCTGTT--AAGAAAGCTTTTCCAAGATGAGAATTTTAAAGTTGTGGAGCTTCTATTGA
65 TGGAGCCTCT-TTGAAAG-AAGCTTTT-CAAGATGAG-ATTTTAAAGTTGTGGAGCCTCTATTGA
*
2703295 GAGGAGCTTTTTCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGA
126 GAGGAGCTTTTCCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGA
2703344 TGAGCTTTTC
Statistics
Matches: 157, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
172 3 0.02
173 27 0.17
174 19 0.12
175 86 0.55
176 22 0.14
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (176 bp):
AGAATTTTAAAGTTATGGAGCATTCGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAATTGT
GGAGCCTCTTTGAAAGAAGCTTTTCAAGATGAGATTTTAAAGTTGTGGAGCCTCTATTGAGAGGA
GCTTTTCCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGA
Found at i:2703312 original size:48 final size:48
Alignment explanation
Indices: 2703170--2703364 Score: 238
Period size: 47 Copynumber: 4.1 Consensus size: 48
2703160 TGTTGAGAGA
* *
2703170 AGAATTTTAAAGTTATGGAGCATCTGTTGAGAGGAGCTTTTCCAGATG
1 AGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATG
* * * *
2703218 AG-ATTTTAAAATTGTTGAGCCTCTGTTAAGA-AAGCTTTTCCAAGATG
1 AGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCC-AGATG
* * *
2703265 AGAATTTTAAAGTTGTGGAGCTTCTATTGAGAGGAGCTTTTTCAGATG
1 AGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATG
* * *
2703313 AG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTCCA-A-G
1 AGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATG
2703358 AGAATTT
1 AGAATTT
2703365 ATTTTCAGAC
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.02
46 14 0.11
47 66 0.53
48 33 0.27
49 8 0.06
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (48 bp):
AGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATG
Found at i:2703333 original size:95 final size:96
Alignment explanation
Indices: 2703170--2703358 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 96
2703160 TGTTGAGAGA
*
2703170 AGAATTTTAAAGTTATGGAGCATCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTAAAATTGTTG
1 AGAATTTTAAAGTTATGGAGCATCTATTGAGAGGAGCTTTTCCAGATGAGATTTTAAAATTGTTG
*
2703235 AGCCTCTGTTAAGA-AAGCTTTTCCAAGATG
66 AGCCTCTGCTAAGATAAGCTTTTCCAAGATG
* * * *
2703265 AGAATTTTAAAGTTGTGGAGCTTCTATTGAGAGGAGCTTTTTCAGATGAGATTTTAAAGTTGTTG
1 AGAATTTTAAAGTTATGGAGCATCTATTGAGAGGAGCTTTTCCAGATGAGATTTTAAAATTGTTG
* *
2703330 AGCCTCTGCTGAGATGAGCTTTTCCAAGA
66 AGCCTCTGCTAAGATAAGCTTTTCCAAGA
2703359 GAATTTATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 72 0.85
96 13 0.15
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (96 bp):
AGAATTTTAAAGTTATGGAGCATCTATTGAGAGGAGCTTTTCCAGATGAGATTTTAAAATTGTTG
AGCCTCTGCTAAGATAAGCTTTTCCAAGATG
Found at i:2703510 original size:9 final size:9
Alignment explanation
Indices: 2703498--2703533 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
2703488 TAATAATTTT
2703498 AACAAAACA
1 AACAAAACA
2703507 AACAAAA-A
1 AACAAAACA
2703515 AACAAAAACA
1 AAC-AAAACA
2703525 AACAAAACA
1 AACAAAACA
2703534 GAAATAAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.16
9 17 0.68
10 4 0.16
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAAAACA
Found at i:2703525 original size:14 final size:15
Alignment explanation
Indices: 2703498--2703533 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
2703488 TAATAATTTT
2703498 AACAAAAC--AAACA
1 AACAAAACAAAAACA
2703511 AA-AAAACAAAAACA
1 AACAAAACAAAAACA
2703525 AACAAAACA
1 AACAAAACA
2703534 GAAATAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.25
13 2 0.10
14 7 0.35
15 6 0.30
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (15 bp):
AACAAAACAAAAACA
Found at i:2704620 original size:17 final size:16
Alignment explanation
Indices: 2704575--2704625 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
2704565 GTAAAAATAA
2704575 ATTTTTTTTCTTTTTGA-
1 ATTTTTTTT-TTTTT-AT
2704592 ATTTTTTATTTTTTTAT
1 ATTTTTT-TTTTTTTAT
*
2704609 ATTATTTTTTTTGTTAT
1 ATT-TTTTTTTTTTTAT
2704626 TTTAAATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.03
17 23 0.77
18 6 0.20
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (16 bp):
ATTTTTTTTTTTTTAT
Found at i:2705101 original size:15 final size:16
Alignment explanation
Indices: 2705014--2705102 Score: 98
Period size: 16 Copynumber: 5.9 Consensus size: 16
2705004 TTTTAATTTT
2705014 CAAAAT-CCTAAAATC
1 CAAAATCCCTAAAATC
*
2705029 C-AAA-CCCCAAAAT-
1 CAAAATCCCTAAAATC
*
2705042 CAAAATCCCTTAAATC
1 CAAAATCCCTAAAATC
* *
2705058 CAAACTCCCCAAAATC
1 CAAAATCCCTAAAATC
2705074 CAAAATCCCTAAAATC
1 CAAAATCCCTAAAATC
*
2705090 CAAAGT-CCTAAAA
1 CAAAATCCCTAAAA
2705103 ATCCTAAGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.02
14 13 0.21
15 15 0.25
16 32 0.52
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (16 bp):
CAAAATCCCTAAAATC
Found at i:2705106 original size:32 final size:31
Alignment explanation
Indices: 2705014--2705093 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 31
2705004 TTTTAATTTT
2705014 CAAAAT-CCTAAAATCCAAA-CCCCAAAAT-
1 CAAAATCCCTAAAATCCAAATCCCCAAAATC
*
2705042 CAAAATCCCTTAAATCCAAACTCCCCAAAATC
1 CAAAATCCCTAAAATCCAAA-TCCCCAAAATC
2705074 CAAAATCCCTAAAATCCAAA
1 CAAAATCCCTAAAATCCAAA
2705094 GTCCTAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 6 0.13
29 12 0.26
31 9 0.20
32 19 0.41
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (31 bp):
CAAAATCCCTAAAATCCAAATCCCCAAAATC
Found at i:2705107 original size:9 final size:8
Alignment explanation
Indices: 2705015--2705109 Score: 51
Period size: 8 Copynumber: 12.2 Consensus size: 8
2705005 TTTAATTTTC
2705015 AAAATCCT
1 AAAATCCT
2705023 AAAATCC-
1 AAAATCCT
* *
2705030 -AAACCCC
1 AAAATCCT
2705037 AAAAT-C-
1 AAAATCCT
2705043 AAAATCCCT
1 AAAAT-CCT
*
2705052 TAAATCC-
1 AAAATCCT
* *
2705059 AAACTCCCC
1 AAAAT-CCT
2705068 AAAATCC-
1 AAAATCCT
2705075 AAAATCCCT
1 AAAAT-CCT
2705084 AAAATCC-
1 AAAATCCT
*
2705091 AAAGTCCT
1 AAAATCCT
2705099 AAAAATCCT
1 -AAAATCCT
2705108 AA
1 AA
2705110 GGACACGTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
6 10 0.15
7 15 0.22
8 23 0.34
9 20 0.29
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (8 bp):
AAAATCCT
Found at i:2706703 original size:26 final size:25
Alignment explanation
Indices: 2706674--2706722 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
2706664 GCACATGCAA
2706674 TCCCACAAATCCATCAATAGCAAACT
1 TCCCACAAATCC-TCAATAGCAAACT
* *
2706700 TCCCATAAATTCTCAATAGCAAA
1 TCCCACAAATCCTCAATAGCAAA
2706723 TTTCTCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.43, C:0.31, G:0.04, T:0.22
Consensus pattern (25 bp):
TCCCACAAATCCTCAATAGCAAACT
Found at i:2706720 original size:25 final size:25
Alignment explanation
Indices: 2706687--2706738 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
2706677 CACAAATCCA
*
2706687 TCAATAGCAAACTTCCCATAAATTC
1 TCAATAGCAAACTTCCCATAAAATC
* *
2706712 TCAATAGCAAATTTCTCATAAAATC
1 TCAATAGCAAACTTCCCATAAAATC
2706737 TC
1 TC
2706739 CCTTTTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (25 bp):
TCAATAGCAAACTTCCCATAAAATC
Found at i:2716557 original size:2 final size:2
Alignment explanation
Indices: 2716544--2716588 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
2716534 AAGGTTTTAG
* *
2716544 AT AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2716586 AT A
1 AT A
2716589 AACTTGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:2722221 original size:20 final size:21
Alignment explanation
Indices: 2722170--2722221 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2722160 TTTAGACTTT
*
2722170 AAAAAGGGATAGATCACCTAG
1 AAAAAGGGATCGATCACCTAG
* *
2722191 AATAGGGGATCGATCACCT-G
1 AAAAAGGGATCGATCACCTAG
2722211 AAAAAGGGATC
1 AAAAAGGGATC
2722222 AATTGGTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (21 bp):
AAAAAGGGATCGATCACCTAG
Found at i:2733219 original size:13 final size:13
Alignment explanation
Indices: 2733201--2733227 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2733191 ATTGTTAAAG
2733201 ATATATTATCACA
1 ATATATTATCACA
2733214 ATATATTATCACA
1 ATATATTATCACA
2733227 A
1 A
2733228 AGCATACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATATTATCACA
Found at i:2738091 original size:22 final size:22
Alignment explanation
Indices: 2738048--2738091 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2738038 ATTTTTTATC
* * *
2738048 CTTAATTTTAGGGATACCAATA
1 CTTAATTCTAGAGATACAAATA
*
2738070 CTTAATTCTAGAGATATAAATA
1 CTTAATTCTAGAGATACAAATA
2738092 TAAATATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:2740643 original size:21 final size:24
Alignment explanation
Indices: 2740604--2740647 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
2740594 AAATAATTAA
2740604 AATAATAATTGAAGATAAAATAAT
1 AATAATAATTGAAGATAAAATAAT
2740628 AATAATAA-T-AAG-TAAAATAA
1 AATAATAATTGAAGATAAAATAA
2740648 AAGAAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 1 0.05
24 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (24 bp):
AATAATAATTGAAGATAAAATAAT
Found at i:2740665 original size:33 final size:32
Alignment explanation
Indices: 2740620--2740710 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 32
2740610 AATTGAAGAT
*
2740620 AAAATAATAATAATAATAAGTAAAAT-AAAAGAA
1 AAAATAA-AATAA-AATAAGTAAAATGAAAACAA
** *
2740653 AATCTAAAAATAAAATAAATAAAAATGAAAACAA
1 AAAAT-AAAATAAAATAAGT-AAAATGAAAACAA
2740687 AAAATAAAATAAAATAAAGTAAAA
1 AAAATAAAATAAAAT-AAGTAAAA
2740711 CCTGCGAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
32 6 0.13
33 27 0.57
34 14 0.30
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (32 bp):
AAAATAAAATAAAATAAGTAAAATGAAAACAA
Found at i:2740667 original size:5 final size:5
Alignment explanation
Indices: 2740618--2740710 Score: 59
Period size: 5 Copynumber: 18.2 Consensus size: 5
2740608 ATAATTGAAG
* *
2740618 ATAAA ATAATA ATAATA AT-AA GTAAA ATAAA AGAAA ATCTAAAA ATAAA
1 ATAAA ATAA-A ATAA-A ATAAA ATAAA ATAAA ATAAA A--T-AAA ATAAA
* * *
2740667 AT-AA ATAAAA ATGAA A-ACA A-AAA ATAAA ATAAA ATAAA GTAAA A
1 ATAAA AT-AAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
2740711 CCTGCGAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
4 11 0.16
5 41 0.59
6 14 0.20
8 4 0.06
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:2740668 original size:23 final size:22
Alignment explanation
Indices: 2740640--2740701 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
2740630 TAATAATAAG
*
2740640 TAAAATAAAAGAAAATCTAAAA-A
1 TAAAATAAAA-AAAAT-GAAAACA
2740663 TAAAATAAATAAAAATGAAAACA
1 TAAAATAAA-AAAAATGAAAACA
*
2740686 AAAAATAAAATAAAAT
1 TAAAATAAAA-AAAAT
2740702 AAAGTAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 5 0.15
23 28 0.82
24 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (22 bp):
TAAAATAAAAAAAATGAAAACA
Found at i:2740689 original size:28 final size:29
Alignment explanation
Indices: 2740631--2740704 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
2740621 AAATAATAAT
*
2740631 AATAATAAGTAAAAT-AAAAGAAAATCTAAA
1 AATAA-AA-TAAAATAAAAAGAAAATCAAAA
2740661 AATAAAAT-AAATAAAAATGAAAA-CAAAA
1 AATAAAATAAAATAAAAA-GAAAATCAAAA
2740689 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
2740705 GTAAAACCTG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 4 0.10
28 17 0.43
29 14 0.35
30 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.18
Consensus pattern (29 bp):
AATAAAATAAAATAAAAAGAAAATCAAAA
Found at i:2741989 original size:42 final size:42
Alignment explanation
Indices: 2741942--2742469 Score: 294
Period size: 43 Copynumber: 12.4 Consensus size: 42
2741932 TAAAGAAAGA
* *
2741942 CTAAACAACTCTAAAACAAGAATGGG-TTCCTCTAAGCAGAGG
1 CTAAACAACTTTAAAACAAGAATGGGCTT-CTCTAATCAGAGG
* * * * * *
2741984 CTAAACAAATTTAAAATAAGAATGGGCTTTTTTATTCAAAGG
1 CTAAACAACTTTAAAACAAGAATGGGCTTCTCTAATCAGAGG
* * * *
2742026 CTAAACAACTTTATAACAAGAATAGG-TTCCTATAAACAGAGG
1 CTAAACAACTTTAAAACAAGAATGGGCTT-CTCTAATCAGAGG
* * ** * *
2742068 CCAAACAAATTTAAAATGAGAATGGGCTTTTCTATTCAGAGG
1 CTAAACAACTTTAAAACAAGAATGGGCTTCTCTAATCAGAGG
* * *
2742110 CTAAACAACTTTAAAATAGGAAATGAGC-TC-CATAATTCA-ATGG
1 CTAAACAACTTTAAAACAAG-AATGGGCTTCTC-TAA-TCAGA-GG
* * * * * * * *
2742153 CTAAACAACTTTAAAATAGGAAATTGGCTCCTTTATTTAAAGG
1 CTAAACAACTTTAAAACAAG-AATGGGCTTCTCTAATCAGAGG
* * * * * * *
2742196 CTAAAAAACTTTAAAATAAGAAATGTGATCCTCTATTAAGAGG
1 CTAAACAACTTTAAAACAAG-AATGGGCTTCTCTAATCAGAGG
* * * *
2742239 CTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCAGAGG
1 CTAAACAACTTTAAAACAAG-AATGGGCTTCTCTAATCAGAGG
* ** *** * * *
2742282 CTAAACAATTTTAAAATGAGAAATATTCTTCTCTATTTAAAGG
1 CTAAACAACTTTAAAACAAG-AATGGGCTTCTCTAATCAGAGG
* * * * *
2742325 CTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCGGAGG
1 CTAAACAACTTTAAAACAAG-AATGGGCTTCTCTAATCAGAGG
* ** *** * *
2742368 CTAAACAATTTTAAAATGAGAAATATTCTTCTCTATTTAGAGG
1 CTAAACAACTTTAAAACAAG-AATGGGCTTCTCTAATCAGAGG
* * **
2742411 CTAAACAACTTTAAAACAAGAAATGGGCTT-TTTTATTTGAAGG
1 CTAAACAACTTTAAAACAAG-AATGGGCTTCTCTAATCAG-AGG
2742454 CTAAACAACTTTAAAA
1 CTAAACAACTTTAAAA
2742470 TGGCTTTCTA
Statistics
Matches: 385, Mismatches: 90, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
41 3 0.01
42 115 0.30
43 263 0.68
44 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (42 bp):
CTAAACAACTTTAAAACAAGAATGGGCTTCTCTAATCAGAGG
Found at i:2742219 original size:86 final size:86
Alignment explanation
Indices: 2741981--2742470 Score: 469
Period size: 86 Copynumber: 5.7 Consensus size: 86
2741971 CTCTAAGCAG
* * * * * * *
2741981 AGGCTAAACAAATTTAAAATAAG-AATGGGCTTTTTTATTCAAAGGCTAAACAACTTTATAACAA
1 AGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCAAAGGCTAAACAACTTTAAAATAA
* **
2742045 G-AATA-GGTTC-CTATAAACA
66 GAAATATGCTTCTCTATTTA-A
* * * * *
2742064 GAGGCCAAACAAATTTAAAAT--GAGAATGGGCTTTTCTATTCAGAGGCTAAACAACTTTAAAAT
1 -AGGCTAAACAACTTTAAAATAGGA-AATTGGCTTCTCTATTCAAAGGCTAAACAACTTTAAAAT
* *
2742127 AGGAAATGA-GC-TC-CATAATTCAA
64 AAGAAAT-ATGCTTCTC-T-ATTTAA
* * * * *
2742150 TGGCTAAACAACTTTAAAATAGGAAATTGGCTCCTTTATTTAAAGGCTAAAAAACTTTAAAATAA
1 AGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCAAAGGCTAAACAACTTTAAAATAA
* * *
2742215 GAAATGTGATCCTCTA-TTAA
66 GAAATATGCTTCTCTATTTAA
* * *
2742235 GAGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCAGAGGCTAAACAATTTTAAAATG
1 -AGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCAAAGGCTAAACAACTTTAAAATA
*
2742300 AGAAATATTCTTCTCTATTTAA
65 AGAAATATGCTTCTCTATTTAA
** * *
2742322 AGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCGGAGGCTAAACAATTTTAAAATGA
1 AGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCAAAGGCTAAACAACTTTAAAATAA
* *
2742387 GAAATATTCTTCTCTATTTAG
66 GAAATATGCTTCTCTATTTAA
* * * * * **
2742408 AGGCTAAACAACTTTAAAACAAGAAATGGGCTTTTTTATTTGAAGGCTAAACAACTTTAAAAT
1 AGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCAAAGGCTAAACAACTTTAAAAT
2742471 GGCTTTCTAA
Statistics
Matches: 347, Mismatches: 46, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
82 1 0.00
84 56 0.16
85 26 0.07
86 252 0.73
87 11 0.03
88 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (86 bp):
AGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCAAAGGCTAAACAACTTTAAAATAA
GAAATATGCTTCTCTATTTAA
Found at i:2742248 original size:129 final size:129
Alignment explanation
Indices: 2741937--2742470 Score: 459
Period size: 129 Copynumber: 4.2 Consensus size: 129
2741927 TCCTTTAAAG
* * * * * ** *
2741937 AAAGACTAAACAACTCTAAAACAAG-AATGGGTTCCTCTAAGCAGAGGCTAAACAAATTTAAAAT
1 AAAGGCTAAACAACTTTAAAATAAGAAATTGGATCCTCTATTCAGAGGCTAAACAACTTTAAAAT
* * * * * * * * * * **
2742001 AAG-AATGGGCTTTTTTATTCAAAGGCTAAACAACTTTATAACAAG-AATAGG-TTC-CTATAA
66 AGGAAATGAGCTTCTCTATTCAGAGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTTTATTT
* * * * * **
2742061 ACAGAGGCCAAACAAATTTAAAATGAG-AATGGGCTTTTCTATTCAGAGGCTAAACAACTTTAAA
1 A-A-AGGCTAAACAACTTTAAAATAAGAAATTGGATCCTCTATTCAGAGGCTAAACAACTTTAAA
*
2742125 ATAGGAAATGAGC-TC-CATAATTCA-ATGGCTAAACAACTTTAAAATAGGAAATTGGCTCCTTT
64 ATAGGAAATGAGCTTCTC-T-ATTCAGA-GGCTAAACAACTTTAAAATAGGAAATTGGCTTCTTT
2742187 ATTT
126 ATTT
* *
2742191 AAAGGCTAAAAAACTTTAAAATAAGAAA-TGTGATCCTCTATTAAGAGGCTAAACAACTTTAAAA
1 AAAGGCTAAACAACTTTAAAATAAGAAATTG-GATCCTCTATTCAGAGGCTAAACAACTTTAAAA
* * *
2742255 TAGGAAATTG-GCTTCTCTATTCAGAGGCTAAACAATTTTAAAAT-GAGAAATAT-TCTTCTCTA
65 TAGGAAA-TGAGCTTCTCTATTCAGAGGCTAAACAACTTTAAAATAG-GAAAT-TGGCTTCTTTA
2742317 TTT
127 TTT
* * * * *
2742320 AAAGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTCTATTCGGAGGCTAAACAATTTTAAAAT
1 AAAGGCTAAACAACTTTAAAATAAGAAATTGGATCCTCTATTCAGAGGCTAAACAACTTTAAAAT
* * * * * *
2742385 -GAGAAAT-ATTCTTCTCTATTTAGAGGCTAAACAACTTTAAAACAAGAAATGGGCTTTTTTATT
66 AG-GAAATGA-GCTTCTCTATTCAGAGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTTTATT
2742448 T
129 T
*
2742449 GAAGGCTAAACAACTTTAAAAT
1 AAAGGCTAAACAACTTTAAAAT
2742471 GGCTTTCTAA
Statistics
Matches: 333, Mismatches: 54, Indels: 41
0.78 0.13 0.10
Matches are distributed among these distances:
124 1 0.00
125 1 0.00
126 55 0.17
127 30 0.09
128 28 0.08
129 204 0.61
130 13 0.04
131 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (129 bp):
AAAGGCTAAACAACTTTAAAATAAGAAATTGGATCCTCTATTCAGAGGCTAAACAACTTTAAAAT
AGGAAATGAGCTTCTCTATTCAGAGGCTAAACAACTTTAAAATAGGAAATTGGCTTCTTTATTT
Found at i:2754183 original size:22 final size:21
Alignment explanation
Indices: 2754141--2754203 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
2754131 AGTAATTTAA
* * *
2754141 AAAATAATAAATTACTCAATTT
1 AAAATAATAAAATAAT-AATTG
2754163 AAAATAAGTAAAATAATAATTG
1 AAAATAA-TAAAATAATAATTG
*
2754185 AAGATAA-AATAATAATAAT
1 AAAATAATAA-AATAATAAT
2754204 AATGAGTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.06
21 9 0.26
22 17 0.49
23 7 0.20
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAATAATAAAATAATAATTG
Found at i:2754213 original size:21 final size:24
Alignment explanation
Indices: 2754174--2754217 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
2754164 AAATAAGTAA
2754174 AATAATAATTGAAGATAAAATAAT
1 AATAATAATTGAAGATAAAATAAT
2754198 AATAATAA-TG-AG-TAAAATAA
1 AATAATAATTGAAGATAAAATAA
2754218 AAGAAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 2 0.10
23 2 0.10
24 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (24 bp):
AATAATAATTGAAGATAAAATAAT
Found at i:2755683 original size:32 final size:32
Alignment explanation
Indices: 2755647--2755715 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
2755637 AAAAAAAGGC
2755647 AAGTAAAGTAATTTATCTAAGGCAAGGATATA
1 AAGTAAAGTAATTTATCTAAGGCAAGGATATA
2755679 AAGTAAAGTAATTTATCTAAGGCAAGGATATA
1 AAGTAAAGTAATTTATCTAAGGCAAGGATATA
2755711 AAGTA
1 AAGTA
2755716 GCATTTGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.28
Consensus pattern (32 bp):
AAGTAAAGTAATTTATCTAAGGCAAGGATATA
Found at i:2758567 original size:81 final size:81
Alignment explanation
Indices: 2758432--2758587 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 81
2758422 TAAGGTAGGA
* * *
2758432 GCCAAAAGATAGGAAGCATAAGAATGAGGCTTGAGTTAATAATGTGGTTGCATAACAAAAAAAGG
1 GCCAAAAGATAGAAAGCATAAAAATAAGGCTTGAGTTAATAATGTGGTTGCATAACAAAAAAAGG
2758497 CACTATTATGCACAAG
66 CACTATTATGCACAAG
* * *
2758513 GCCAAAAGATAGAAAGTATAAAAATAAGGCTTGAGTTAATAATGTGGTTGCATAATAGAAAAAGG
1 GCCAAAAGATAGAAAGCATAAAAATAAGGCTTGAGTTAATAATGTGGTTGCATAACAAAAAAAGG
*
2758578 TACTATTATG
66 CACTATTATG
2758588 TTAAAAAAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (81 bp):
GCCAAAAGATAGAAAGCATAAAAATAAGGCTTGAGTTAATAATGTGGTTGCATAACAAAAAAAGG
CACTATTATGCACAAG
Found at i:2759537 original size:101 final size:101
Alignment explanation
Indices: 2759362--2759565 Score: 372
Period size: 101 Copynumber: 2.0 Consensus size: 101
2759352 AAGCTCTAAA
2759362 ATGGTCATATAGATGAACCATACACATCACCTAAGAACCTTTTTTCAATTAACCCTTGTATTATT
1 ATGGTCATATAGATGAACCATACACATCACCTAAGAACCTTTTTTCAATTAACCCTTGTATTATT
2759427 TGTATTTCTTTTAAATCTATAAACAACTTCCAAATT
66 TGTATTTCTTTTAAATCTATAAACAACTTCCAAATT
* * * *
2759463 ATGGTCATATAGATGAACTATACACGTCACCTAAGAACCTTTTTTCAATTGACCCTTTTATTATT
1 ATGGTCATATAGATGAACCATACACATCACCTAAGAACCTTTTTTCAATTAACCCTTGTATTATT
2759528 TGTATTTCTTTTAAATCTATAAACAACTTCCAAATT
66 TGTATTTCTTTTAAATCTATAAACAACTTCCAAATT
2759564 AT
1 AT
2759566 TCAAAAGAAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (101 bp):
ATGGTCATATAGATGAACCATACACATCACCTAAGAACCTTTTTTCAATTAACCCTTGTATTATT
TGTATTTCTTTTAAATCTATAAACAACTTCCAAATT
Found at i:2765055 original size:63 final size:63
Alignment explanation
Indices: 2764912--2765083 Score: 195
Period size: 63 Copynumber: 2.7 Consensus size: 63
2764902 AACAATATTG
* * * * *
2764912 AAGATTATTTAAGGCATTTTTGGACCAAAAATG-CTTAACTAATGCCCTTTAAAAATTGTGAA
1 AAGATTATTTAAGGCATTTTTGGTCCAAAAATGCCTTAAATAATCCCCTTTAAAAATTATCAA
** * * * * *
2764974 GTGATTTTTTGAGACATTTTTTGTCCAAAAATGCCTTAAAAAATCCCCTTT-AAAATGTATCAA
1 AAGATTATTTAAGGCATTTTTGGTCCAAAAATGCCTTAAATAATCCCCTTTAAAAAT-TATCAA
* *
2765037 AAGATTATTTAAGGCATTTTAGGTCTAAAAATGCCTTAAATAATCCC
1 AAGATTATTTAAGGCATTTTTGGTCCAAAAATGCCTTAAATAATCCC
2765084 TTTCATTACT
Statistics
Matches: 87, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
62 31 0.36
63 56 0.64
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (63 bp):
AAGATTATTTAAGGCATTTTTGGTCCAAAAATGCCTTAAATAATCCCCTTTAAAAATTATCAA
Found at i:2768075 original size:22 final size:20
Alignment explanation
Indices: 2768032--2768075 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
2768022 CCCTCGTCTT
* *
2768032 TTCTGTTTTCCTTTCTTTTC
1 TTCTGTTTTCCTTTCCTCTC
2768052 TTCTAGTTTTCTCTTTCCTCTC
1 TTCT-GTTTTC-CTTTCCTCTC
2768074 TT
1 TT
2768076 TGGCCCCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 6 0.30
22 10 0.50
ACGTcount: A:0.02, C:0.27, G:0.05, T:0.66
Consensus pattern (20 bp):
TTCTGTTTTCCTTTCCTCTC
Found at i:2769064 original size:28 final size:28
Alignment explanation
Indices: 2769032--2769085 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
2769022 AATTGATGAA
* * *
2769032 TGCTAGCTAATCTAGGGTTGAATTTGGG
1 TGCTAGCTAAACTAGGCTTAAATTTGGG
2769060 TGCTAGCTAAACTAGGCTTAAATTTG
1 TGCTAGCTAAACTAGGCTTAAATTTG
2769086 CATTTGGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (28 bp):
TGCTAGCTAAACTAGGCTTAAATTTGGG
Found at i:2769145 original size:33 final size:33
Alignment explanation
Indices: 2769058--2769354 Score: 174
Period size: 33 Copynumber: 9.1 Consensus size: 33
2769048 GTTGAATTTG
* * * *
2769058 GGTGCTAGCTAAACTAGGCTTAAATTTGCATTT
1 GGTGCCAGCTAAACTAAGCTTAAATTTTCATTA
* * * **
2769091 GGTGCCAACTACAGTGGGCTTAAATTTTCATTA
1 GGTGCCAGCTAAACTAAGCTTAAATTTTCATTA
* **
2769124 GGTGCCAGCTAGACTAAGCTTAAA-ACTCATT-
1 GGTGCCAGCTAAACTAAGCTTAAATTTTCATTA
* * * *
2769155 GGTACCAACTAAACTAAGCATAAAATTTCATTA
1 GGTGCCAGCTAAACTAAGCTTAAATTTTCATTA
* * * **
2769188 -CTTCCAACTAAA-TTGGACTTAAATTTTCATTA
1 GGTGCCAGCTAAACTAAG-CTTAAATTTTCATTA
* * * *
2769220 AGTACCAGCTAAATTGAGCTTAAATTTTCATTA
1 GGTGCCAGCTAAACTAAGCTTAAATTTTCATTA
* ** * ** ** *
2769253 GATGGAAGCTAGACTGGGCTTAAAACTTCATTG
1 GGTGCCAGCTAAACTAAGCTTAAATTTTCATTA
*
2769286 GGTGCCAGCTAAACT-AGACTTAAATTTTTATT-
1 GGTGCCAGCTAAACTAAG-CTTAAATTTTCATTA
* * * *
2769318 GAATGCTAACTAAACTAAGCTTAAAATTTCATTA
1 G-GTGCCAGCTAAACTAAGCTTAAATTTTCATTA
2769352 GGT
1 GGT
2769355 AGACTTAAAT
Statistics
Matches: 199, Mismatches: 56, Indels: 18
0.73 0.21 0.07
Matches are distributed among these distances:
31 22 0.11
32 35 0.18
33 137 0.69
34 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (33 bp):
GGTGCCAGCTAAACTAAGCTTAAATTTTCATTA
Found at i:2769173 original size:31 final size:32
Alignment explanation
Indices: 2769118--2769179 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
2769108 GCTTAAATTT
* * * *
2769118 TCATTAGGTGCCAGCTAGACTAAGCTTAAAAC
1 TCATTAGGTACCAACTAAACTAAGCATAAAAC
2769150 TCATT-GGTACCAACTAAACTAAGCATAAAA
1 TCATTAGGTACCAACTAAACTAAGCATAAAA
2769180 TTTCATTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (32 bp):
TCATTAGGTACCAACTAAACTAAGCATAAAAC
Found at i:2769686 original size:33 final size:33
Alignment explanation
Indices: 2769625--2769688 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
2769615 TAAGTAAAAC
*
2769625 TTCATTGGTGCCAACTAATATAGGCTTAAAATT
1 TTCATTGGTGCCAACTAATATAGACTTAAAATT
* * * *
2769658 TTCATTGGTGCTAGCTAGTCTAGACTTAAAA
1 TTCATTGGTGCCAACTAATATAGACTTAAAA
2769689 CCTATGTGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (33 bp):
TTCATTGGTGCCAACTAATATAGACTTAAAATT
Found at i:2770711 original size:23 final size:22
Alignment explanation
Indices: 2770685--2770752 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 22
2770675 ATTCATTTCA
2770685 TTTCATTTCATTTTTTTCTTTTT
1 TTTC-TTTCATTTTTTTCTTTTT
*
2770708 TTTCTTTCCTTTTTTTTCCTTTTT
1 TTTCTTT-CATTTTTTT-CTTTTT
*
2770732 TTGT-TTTGACTTTTTTTCTTT
1 TT-TCTTTCA-TTTTTTTCTTT
2770753 CTCATTCTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 3 0.08
23 16 0.42
24 18 0.47
25 1 0.03
ACGTcount: A:0.04, C:0.15, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTCTTTCATTTTTTTCTTTTT
Found at i:2771296 original size:23 final size:20
Alignment explanation
Indices: 2771266--2771310 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
2771256 TTTCCTTTCC
* *
2771266 TTTTTTATATTTCTCTTTTT
1 TTTTTTTTATTTTTCTTTTT
2771286 ATTTTTTTTATTTTTCTTTTT
1 -TTTTTTTTATTTTTCTTTTT
2771307 TTTT
1 TTTT
2771311 ACATGCCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTATTTTTCTTTTT
Found at i:2772011 original size:12 final size:12
Alignment explanation
Indices: 2771991--2772034 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
2771981 ATCACAAAAC
*
2771991 TTTCTCTTTTTT
1 TTTCACTTTTTT
2772003 TTTCACTTTTTT
1 TTTCACTTTTTT
2772015 TTT--CTTTTTT
1 TTTCACTTTTTT
2772025 TTTCA-TTTTT
1 TTTCACTTTTT
2772035 AAAGGCACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 10 0.34
11 5 0.17
12 14 0.48
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCACTTTTTT
Found at i:2772026 original size:10 final size:10
Alignment explanation
Indices: 2771995--2772034 Score: 53
Period size: 10 Copynumber: 3.7 Consensus size: 10
2771985 CAAAACTTTC
2771995 TCTTTTTTTT
1 TCTTTTTTTT
2772005 TCACTTTTTTTT
1 T--CTTTTTTTT
2772017 TCTTTTTTTT
1 TCTTTTTTTT
2772027 TCATTTTT
1 TC-TTTTT
2772035 AAAGGCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 12 0.44
11 5 0.19
12 10 0.37
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:2777215 original size:295 final size:298
Alignment explanation
Indices: 2776646--2777215 Score: 1004
Period size: 297 Copynumber: 1.9 Consensus size: 298
2776636 CTATAAACAT
* * *
2776646 CAATAATTAAAAACAAGCATATATATATAAGTAATAAATGCAAATATAGATGTAAATGCATGTCT
1 CAATAATTAAAAACAAGCA-ATATATATAAGTAATAAATGCAAATATAGATATAAATACATGTCC
2776711 TAAATGACGATGAGATACGAATTTAAGATTAGCTTCTTAAATATAAAAAAACCACTTGGACTCTC
65 TAAATGACGATGAGATACGAATTTAAGATTAGCTTCTTAAATATAAAAAAACCACTTGGACTCTC
*
2776776 CAACCTTTAGGCAAAGCTTGGGTATGAGTATGTATATTTAAGAACCTCTTTTTTATTTTTTATTG
130 CAACCTTTAGGCAAAGCTTGGGTATGAGTATGTATATTTAAGAACCTCATTTTTATTTTTTATTG
* * *
2776841 TTTATTTAATTTTATTATTTTAAAATACATAATTATATGAAAATTTTTAATGAAATGAAATTTCT
195 TTTATTTAATTTTATTATTTTAAAATACAAAATTATATGAAAATTTTTAATGAAAAGAAATTTCC
2776906 TAAATACCTCATCATATATATATATATAAGTAATATATA
260 TAAATACCTCATCATATATATATATATAAGTAATATATA
*
2776945 CAATAATTAAAAGCAAGC-ATATATATAAGTAATAAATGCAAATATAGATATAAATACATGTCCT
1 CAATAATTAAAAACAAGCAATATATATAAGTAATAAATGCAAATATAGATATAAATACATGTCCT
*
2777009 AAATGACGATGAGATACGAATTTAAGATTAGCTTCTTAAATATAAAAAACCCACTTGGACTCTCC
66 AAATGACGATGAGATACGAATTTAAGATTAGCTTCTTAAATATAAAAAAACCACTTGGACTCTCC
*
2777074 AA-CTTTCAGGCAAAGCTTGGGTATGAGTATTTATATTTAAGAACCT-ATTTTT-TTTTTTATTG
131 AACCTTT-AGGCAAAGCTTGGGTATGAGTATGTATATTTAAGAACCTCATTTTTATTTTTTATTG
2777136 TTTATTTAATTTTATTATTTTAAAATACAAAATTATATGAAAATTTTTAATGAAAAGAAATTTCC
195 TTTATTTAATTTTATTATTTTAAAATACAAAATTATATGAAAATTTTTAATGAAAAGAAATTTCC
2777201 TAAATACCTCATCAT
260 TAAATACCTCATCAT
2777216 TTAGGCGAAT
Statistics
Matches: 260, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
295 87 0.33
296 9 0.03
297 147 0.57
299 17 0.07
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (298 bp):
CAATAATTAAAAACAAGCAATATATATAAGTAATAAATGCAAATATAGATATAAATACATGTCCT
AAATGACGATGAGATACGAATTTAAGATTAGCTTCTTAAATATAAAAAAACCACTTGGACTCTCC
AACCTTTAGGCAAAGCTTGGGTATGAGTATGTATATTTAAGAACCTCATTTTTATTTTTTATTGT
TTATTTAATTTTATTATTTTAAAATACAAAATTATATGAAAATTTTTAATGAAAAGAAATTTCCT
AAATACCTCATCATATATATATATATAAGTAATATATA
Found at i:2777434 original size:20 final size:20
Alignment explanation
Indices: 2777382--2777434 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2777372 CTTTAAGGTC
* *
2777382 TCACTAAGAGTTTTAGGGTT
1 TCACTTAGAATTTTAGGGTT
*
2777402 TCACTTAGGATTTTAGGGTT
1 TCACTTAGAATTTTAGGGTT
* *
2777422 TCATTTATAATTT
1 TCACTTAGAATTT
2777435 CATTGAAGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (20 bp):
TCACTTAGAATTTTAGGGTT
Found at i:2777960 original size:11 final size:11
Alignment explanation
Indices: 2777946--2777982 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
2777936 TTTTTTTTGT
2777946 TTTTATATATA
1 TTTTATATATA
2777957 TTTTATATAT-
1 TTTTATATATA
2777967 TTGTTATATATA
1 TT-TTATATATA
2777979 TTTT
1 TTTT
2777983 TTTTGGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTTTATATATA
Found at i:2777960 original size:22 final size:21
Alignment explanation
Indices: 2777935--2777986 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
2777925 CTCCAAGCAT
*
2777935 TTTTTTTTTGTTTTTATATATA
1 TTTTTTTTT-TTGTTATATATA
* *
2777957 TTTTATATATTTGTTATATATA
1 TTTT-TTTTTTTGTTATATATA
2777979 TTTTTTTT
1 TTTTTTTT
2777987 GGCCAAGCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.08
22 19 0.79
23 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTTTTTTTTGTTATATATA
Found at i:2778047 original size:7 final size:7
Alignment explanation
Indices: 2778012--2778050 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
2778002 TATATATTTT
*
2778012 TTTATTT
1 TTTATTA
*
2778019 TTTATTT
1 TTTATTA
2778026 TATTATTA
1 T-TTATTA
2778034 TTTATTA
1 TTTATTA
2778041 TTTATTA
1 TTTATTA
2778048 TTT
1 TTT
2778051 GGTTTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTATTA
Found at i:2789462 original size:47 final size:45
Alignment explanation
Indices: 2789411--2789512 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 45
2789401 AAGAGCTTGT
* *
2789411 AAAAAAAAAGTGTC-AAAAAGAAAAGAAAAAGAAAGAAAGAAAATAAA
1 AAAAAAAAAGCGACGAAAAAGAAAAG--AAAGAAAGAAAGAAAA-AAA
* *
2789458 AAAAAATAAAGCGACGAAATAGCAAAGAAAGAAAGAAAGAAAAAAA
1 AAAAAA-AAAGCGACGAAAAAGAAAAGAAAGAAAGAAAGAAAAAAA
*
2789504 AGAAAAAAA
1 AAAAAAAAA
2789513 TGAGAAAATC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
45 3 0.06
46 8 0.17
47 22 0.46
48 6 0.12
49 9 0.19
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.05
Consensus pattern (45 bp):
AAAAAAAAAGCGACGAAAAAGAAAAGAAAGAAAGAAAGAAAAAAA
Found at i:2799527 original size:51 final size:51
Alignment explanation
Indices: 2799404--2799550 Score: 170
Period size: 51 Copynumber: 2.9 Consensus size: 51
2799394 AGTAATTGAG
* * ** *
2799404 AGATTTTTGGAATTTAATTCCAAAATCAATTGGCATTAAAAATGATGCGGAA
1 AGATTCTTGGAATTTAATTTCAAAATCAATTCACATT-AAAATGATGCGCAA
* *
2799456 AGATTGTTGGAATTTAATTTCAAAATAAATTCACATTAAAATGATAG-GCAA
1 AGATTCTTGGAATTTAATTTCAAAATCAATTCACATTAAAATGAT-GCGCAA
* * * *
2799507 AGATTCTTGGGATTTGATTTCATAATCAATTCTCATTAAAATGA
1 AGATTCTTGGAATTTAATTTCAAAATCAATTCACATTAAAATGA
2799551 AAATCAAATA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
51 49 0.60
52 33 0.40
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (51 bp):
AGATTCTTGGAATTTAATTTCAAAATCAATTCACATTAAAATGATGCGCAA
Found at i:2800035 original size:16 final size:18
Alignment explanation
Indices: 2800016--2800052 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
2800006 ATAGGTTTTC
2800016 TTTTTTAT-ATTTT-TAT
1 TTTTTTATCATTTTATAT
2800032 TTTTTTATCATTTTATAT
1 TTTTTTATCATTTTATAT
2800050 TTT
1 TTT
2800053 AAGTTTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTATCATTTTATAT
Found at i:2803356 original size:15 final size:15
Alignment explanation
Indices: 2803321--2803355 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2803311 ACTTTTCCCC
*
2803321 AAAAATATTTTTTAG
1 AAAAATATTTTTAAG
2803336 AAAAATATTTTTAAAG
1 AAAAATATTTTT-AAG
2803352 AAAA
1 AAAA
2803356 TTGATACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (15 bp):
AAAAATATTTTTAAG
Found at i:2803432 original size:58 final size:58
Alignment explanation
Indices: 2803234--2803506 Score: 385
Period size: 58 Copynumber: 4.8 Consensus size: 58
2803224 TGCTTTTGTA
* *
2803234 CAAAGAAAATTGATACTTTCAACTTTTTCC--CAAAATATTTTTTAG-AAACGTATTTT
1 CAAAGAAAATTGATACTTTCAAC-TTTTCCTTAAAAATATTTTTTAGAAAACTTATTTT
* ** *
2803290 -TAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAA-ATATTTT
1 CAAAG-AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAGAAAACTTATTTT
* ** *
2803347 TAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATACCTTTTAGAAAACTTGTTTT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAGAAAACTTATTTT
*
2803405 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTAGAAAACTTATTTT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAGAAAACTTATTTT
*
2803463 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
2803507 TTGAATTTTA
Statistics
Matches: 195, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
55 9 0.05
56 18 0.09
57 61 0.31
58 107 0.55
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.41
Consensus pattern (58 bp):
CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAGAAAACTTATTTT
Found at i:2803440 original size:115 final size:115
Alignment explanation
Indices: 2803234--2803500 Score: 371
Period size: 115 Copynumber: 2.3 Consensus size: 115
2803224 TGCTTTTGTA
* ** *
2803234 CAAAGAAAATTGATACTTTCAACTTTTTCC--CAAAATATTTTTTAGAAACGTATTTTTAAGAAA
1 CAAAGAAAATTGATACTTTCAAC-TTTTCCTTAAAAATACCTTTTAGAAACGTATTTTAAAGAAA
*
2803297 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAA-ATATTTT
65 AATTGATACTTTCAACTTTTCCCCAAAAATATATTTTAGAAAACATATTTT
* * *
2803347 TAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATACCTTTTAGAAAACTTGTTTTCAAAG-A
1 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATACCTTTTAG-AAACGTATTTT-AAAGAA
** *
2803411 AAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTAGAAAACTTATTTT
64 AAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTAGAAAACATATTTT
*
2803463 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATA
1 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATA
2803501 TTTTTTTTGA
Statistics
Matches: 136, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
112 6 0.04
113 22 0.16
114 12 0.09
115 51 0.38
116 45 0.33
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (115 bp):
CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATACCTTTTAGAAACGTATTTTAAAGAAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATATTTTAGAAAACATATTTT
Found at i:2803535 original size:6 final size:6
Alignment explanation
Indices: 2803519--2803603 Score: 115
Period size: 6 Copynumber: 14.8 Consensus size: 6
2803509 GAATTTTATT
*
2803519 TAAAAA GAAAAA T-AAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
* *
2803566 T-AAAA TAAAGA TAAAGA TAAAAA T-AAAA T-AAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
2803604 TAATACTAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
5 20 0.28
6 52 0.72
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:2803552 original size:23 final size:22
Alignment explanation
Indices: 2803521--2803606 Score: 120
Period size: 23 Copynumber: 3.8 Consensus size: 22
2803511 ATTTTATTTA
*
2803521 AAAAGAAAAATAAAATAAAAAT
1 AAAATAAAAATAAAATAAAAAT
2803543 AAAAATAAAAATAAAAATAAAAAT
1 -AAAATAAAAAT-AAAATAAAAAT
*
2803567 AAAATAAAGATAAAGATAAAAAT
1 AAAATAAAAATAAA-ATAAAAAT
2803590 AAAAT-AAAATAAAATAA
1 AAAATAAAAATAAAATAA
2803607 TACTAAATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.07
22 10 0.17
23 33 0.57
24 11 0.19
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.16
Consensus pattern (22 bp):
AAAATAAAAATAAAATAAAAAT
Found at i:2803558 original size:29 final size:29
Alignment explanation
Indices: 2803519--2803603 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
2803509 GAATTTTATT
*
2803519 TAAAAAGAAAAATAAAATAAAAATAAAAA
1 TAAAAATAAAAATAAAATAAAAATAAAAA
*
2803548 TAAAAATAAAAATAAAA-ATAAAATAAAGA
1 TAAAAATAAAAATAAAATA-AAAATAAAAA
*
2803577 TAAAGATAAAAATAAAAT-AAAATAAAA
1 TAAAAATAAAAATAAAATAAAAATAAAA
2803604 TAATACTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
28 9 0.18
29 41 0.82
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (29 bp):
TAAAAATAAAAATAAAATAAAAATAAAAA
Found at i:2804479 original size:20 final size:20
Alignment explanation
Indices: 2804451--2804695 Score: 114
Period size: 22 Copynumber: 11.8 Consensus size: 20
2804441 ATCAAATAAA
**
2804451 ATAAA-AAAAATGTTAATAG
1 ATAAATAAAAATAATAATAG
* *
2804470 ATAATTAAAAGAAAATAATTAG
1 ATAAATAAAA-ATAATAA-TAG
*
2804492 ATAAATAAAAATATTAATAG
1 ATAAATAAAAATAATAATAG
2804512 ATAAATAAAAATAATAATAG
1 ATAAATAAAAATAATAATAG
*
2804532 ATAAAAATATAAATAGATAAATA-
1 AT--AAATAAAAATA-AT-AATAG
*
2804555 AT-AATAAATACAT-ATATATTG
1 ATAAATAAA-A-ATAATA-ATAG
* * *
2804576 ACAAATAAATAATAA-AAAAT
1 ATAAATAAA-AATAATAATAG
* *
2804596 ATATATTAATAAATAGTAATA-
1 ATA-AATAA-AAATAATAATAG
*
2804617 ATAAATAAATAAATAATAAATAC
1 ATAAAT-AA-AAATAAT-AATAG
*
2804640 ATAAGAT-AAAATAAATAAATAA
1 ATAA-ATAAAAAT-AAT-AATAG
*
2804662 ATAAATAAAAATAAAAAT-G
1 ATAAATAAAAATAATAATAG
*
2804681 A-AAATACAAA-AATAA
1 ATAAATAAAAATAATAA
2804696 AAAAAATAAA
Statistics
Matches: 178, Mismatches: 26, Indels: 46
0.71 0.10 0.18
Matches are distributed among these distances:
17 4 0.02
18 8 0.04
19 6 0.03
20 45 0.25
21 42 0.24
22 59 0.33
23 8 0.04
24 6 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
ATAAATAAAAATAATAATAG
Found at i:2804509 original size:42 final size:39
Alignment explanation
Indices: 2804434--2804564 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 39
2804424 AATAAAAAGA
* *
2804434 AAATAAAATCAAATAA-A-ATAAAAAAAATGTTAATAGAT
1 AAATAAAA-AAAATAATAGATAAAAAAAATATTAATAGAT
*
2804472 AATTAAAAGAAAATAATTAGATAAATAAAAATATTAATAGAT
1 AAATAAAA-AAAATAA-TAGATAAA-AAAAATATTAATAGAT
* *
2804514 AAATAAAAATAATAATAGAT---AAAAATATAAATAGAT
1 AAATAAAAAAAATAATAGATAAAAAAAATATTAATAGAT
*
2804550 AAATAATAATAAATA
1 AAATAA-AAAAAATA
2804565 CATATATATT
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
36 21 0.27
37 6 0.08
38 13 0.16
40 6 0.08
41 11 0.14
42 22 0.28
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (39 bp):
AAATAAAAAAAATAATAGATAAAAAAAATATTAATAGAT
Found at i:2804519 original size:4 final size:4
Alignment explanation
Indices: 2804482--2804670 Score: 99
Period size: 4 Copynumber: 46.8 Consensus size: 4
2804472 AATTAAAAGA
* * * * *
2804482 AAAT AATT AGAT AAAT AAA- AATAT TAAT AGAT AAAT AAAA ATAAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT A-AAT AAAT
* * * ** *
2804530 AGAT AAA- AATAT AAAT AGAT AAAT -AAT -AAT AAAT ACATAT ATAT TGAC
1 AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT
*
2804578 AAAT AAAT -AAT AAA- AAAT ATATAT TAAT AAAT AGTAAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT A--AAT AAAT AAAT
*
2804623 AAAT AAAT -AAT AAAT ACAT AAGAT AAAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT AAAT AAAT AAA
2804671 AATAAAAATG
Statistics
Matches: 141, Mismatches: 25, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
3 25 0.18
4 94 0.67
5 12 0.09
6 10 0.07
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:2804539 original size:36 final size:38
Alignment explanation
Indices: 2804481--2804675 Score: 138
Period size: 36 Copynumber: 5.2 Consensus size: 38
2804471 TAATTAAAAG
*
2804481 AAAATAATTAGATAAATAAAAATATTAATAGATAAATA
1 AAAATAATTAGATAAATAAAAATATAAATAGATAAATA
*
2804519 AAAATAA-TA-ATAGATAAAAATATAAATAGATAAATA
1 AAAATAATTAGATAAATAAAAATATAAATAGATAAATA
* * * * *
2804555 ATAATAAATACATATATATTGACAA-ATAAATA-ATAAA-A
1 AAAATAATTAGATA-A-A-TAAAAATATAAATAGATAAATA
* ** *
2804593 AATATATATTA-ATAAATAGTAATAATAAATAAATAAATA
1 AAAATA-ATTAGATAAATAAAAAT-ATAAATAGATAAATA
* * *
2804632 ATAAATACATAAGAT-AA-AATAA-ATAAATAAATAAATA
1 A-AAATA-ATTAGATAAATAAAAATATAAATAGATAAATA
2804669 AAAATAA
1 AAAATAA
2804676 AAATGAAAAT
Statistics
Matches: 129, Mismatches: 16, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
35 4 0.03
36 37 0.29
37 28 0.22
38 23 0.18
39 14 0.11
40 17 0.13
41 6 0.05
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (38 bp):
AAAATAATTAGATAAATAAAAATATAAATAGATAAATA
Found at i:2804649 original size:41 final size:41
Alignment explanation
Indices: 2804578--2804676 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 41
2804568 ATATATTGAC
* *
2804578 AAATAAAT-AATAAAAAATATATATTAAT-AAATAGTAAT-AAT
1 AAATAAATAAATAATAAATACATA-TAATAAAATA--AATAAAT
2804619 AAATAAATAAATAATAAATACATA-AGATAAAATAAATAAAT
1 AAATAAATAAATAATAAATACATATA-ATAAAATAAATAAAT
2804660 AAATAAATAAA-AATAAA
1 AAATAAATAAATAATAAA
2804677 AATGAAAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
40 10 0.19
41 24 0.46
42 18 0.35
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (41 bp):
AAATAAATAAATAATAAATACATATAATAAAATAAATAAAT
Found at i:2804656 original size:22 final size:22
Alignment explanation
Indices: 2804423--2804705 Score: 101
Period size: 24 Copynumber: 12.6 Consensus size: 22
2804413 AATCTCAGTC
*
2804423 AAATAAAAAGAAAATAAAATCAAAT
1 AAATAAAAA-TAAAT-AAAT-AAAT
* *
2804448 AAAATAAAAA-AAATGTTAATAGAT
1 -AAATAAAAATAAA--TAAATAAAT
* * *
2804472 AATTAAAAGA-AAATAATTAGAT
1 AAATAAAA-ATAAATAAATAAAT
* *
2804494 AAATAAAAAT--ATTAATAGAT
1 AAATAAAAATAAATAAATAAAT
*
2804514 AAATAAAAAT-AAT-AATAGAT
1 AAATAAAAATAAATAAATAAAT
* *
2804534 -AA-AAATATAAATAGATAAAT
1 AAATAAAAATAAATAAATAAAT
* ** *
2804554 -AATAATAAATACATATATATTGAC
1 AAATAA-AAATA-A-ATAAATAAAT
*
2804578 AAATAAATAATAAA-AAATATAT
1 AAATAAA-AATAAATAAATAAAT
*
2804600 -ATTAATAAATAGTAAT-AATAAAT
1 AAATAA-AAATA--AATAAATAAAT
*
2804623 AAATAAATAATAAATACATAAGAT
1 AAATAAA-AATAAATAAATAA-AT
*
2804647 AAA-ATAAATAAATAAATAAAT
1 AAATAAAAATAAATAAATAAAT
2804668 AAAAATAAAAATGAAAATACAA-AAAT
1 --AAATAAAAAT--AAATA-AATAAAT
2804694 AAA-AAAAATAAA
1 AAATAAAAATAAA
2804706 ATGGGCCTAC
Statistics
Matches: 203, Mismatches: 27, Indels: 59
0.70 0.09 0.20
Matches are distributed among these distances:
18 5 0.02
19 5 0.02
20 32 0.16
21 18 0.09
22 38 0.19
23 33 0.16
24 39 0.19
25 12 0.06
26 19 0.09
27 2 0.01
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (22 bp):
AAATAAAAATAAATAAATAAAT
Found at i:2804674 original size:92 final size:91
Alignment explanation
Indices: 2804494--2804684 Score: 203
Period size: 92 Copynumber: 2.1 Consensus size: 91
2804484 ATAATTAGAT
* *
2804494 AAAT-AAAAATATTAATAGATAAATAAAAATAATAATAGATAAAAATATAAATAGATAAATAATA
1 AAATAAAAAATATTAATAGATAAATAAAAATAATAATAAATAAAAATATAAATACATAAATAATA
* * * *
2804558 ATAAATACATATATATTGACAAATAA
66 ATAAATAAATAAATAATGAAAAATAA
* ** *
2804584 ATAATAAAAAATATATATTA-ATAAATAGTAATAATAAATAAATAAATA-ATAAATACATAAGAT
1 A-AATAAAAAATAT-TAATAGATAAATAAAAATAAT-AATAAATAAAAATATAAATACATAA-AT
2804647 AA-AATAAATAAATAAATAAAT-AAAAATAA
62 AATAATAAATAAATAAAT-AATGAAAAATAA
*
2804676 AAATGAAAA
1 AAATAAAAA
2804685 TACAAAAATA
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
90 1 0.01
91 10 0.12
92 53 0.63
93 20 0.24
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (91 bp):
AAATAAAAAATATTAATAGATAAATAAAAATAATAATAAATAAAAATATAAATACATAAATAATA
ATAAATAAATAAATAATGAAAAATAA
Found at i:2804694 original size:8 final size:7
Alignment explanation
Indices: 2804613--2804699 Score: 54
Period size: 7 Copynumber: 12.3 Consensus size: 7
2804603 AATAAATAGT
*
2804613 AATAATA
1 AATAAAA
2804620 AATAAATA
1 AATAAA-A
*
2804628 AATAATA
1 AATAAAA
* *
2804635 AATACAT
1 AATAAAA
* *
2804642 AAGATAA
1 AATAAAA
2804649 AATAAATA
1 AATAAA-A
2804657 AATAAATA
1 AATAAA-A
2804665 AAT-AAA
1 AATAAAA
2804671 AAT-AAA
1 AATAAAA
*
2804677 AAT-GAA
1 AATAAAA
2804683 AATACAAA
1 AATA-AAA
2804691 AATAAAA
1 AATAAAA
2804698 AA
1 AA
2804700 AATAAAATGG
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
6 15 0.23
7 25 0.39
8 24 0.38
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (7 bp):
AATAAAA
Found at i:2804700 original size:8 final size:8
Alignment explanation
Indices: 2804619--2804706 Score: 52
Period size: 8 Copynumber: 10.0 Consensus size: 8
2804609 TAGTAATAAT
*
2804619 AAATAAAT
1 AAATAAAA
2804627 AAATAATAA
1 AAATAA-AA
2804636 ATACATAAGATA
1 A-A-ATAA-A-A
*
2804648 AAATAAAT
1 AAATAAAA
*
2804656 AAATAAAT
1 AAATAAAA
2804664 AAATAAAA
1 AAATAAAA
2804672 ATAA-AAATGA
1 A-AATAAA--A
*
2804682 AAATACAA
1 AAATAAAA
2804690 AAATAAAAA
1 AAAT-AAAA
2804699 AAATAAAA
1 AAATAAAA
2804707 TGGGCCTACC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
8 34 0.52
9 14 0.22
10 9 0.14
11 6 0.09
12 2 0.03
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (8 bp):
AAATAAAA
Found at i:2805053 original size:43 final size:42
Alignment explanation
Indices: 2804909--2805163 Score: 329
Period size: 42 Copynumber: 6.1 Consensus size: 42
2804899 GAGGCTCAAC
* * **
2804909 ATAAACAAAGCTCCTCTAATCTGAGGCTCAATGACTTTGAAA
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAA
* * *
2804951 ATAAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTCGAAA
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAA
*
2804993 ATAAATAAAGCTCCTCTAATCAAAGGCTCAACAACTTTGGAAA
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTT-GAAA
* * *
2805036 ATAAATAAAGCTTCTCTAATTAAAGGCTCAACAACTTTGAAA
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAA
* * **
2805078 ATAAAT--GGTTCCTCTAATCAGAGGCTCAATGACTTTGAAA
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAA
*
2805118 ATAAAT--AGCTCCTCTAATCAGAGGCTCAACAATTTTGAAA
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAA
2805158 ATAAAT
1 ATAAAT
2805164 GGCTCATTAA
Statistics
Matches: 189, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
40 68 0.36
42 81 0.43
43 40 0.21
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.26
Consensus pattern (42 bp):
ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAA
Found at i:2806207 original size:11 final size:11
Alignment explanation
Indices: 2806173--2806209 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 11
2806163 TTTCATTCAC
2806173 TTTTTCTTTTCT
1 TTTTTCTTTT-T
2806185 TTTTTCTTTTT
1 TTTTTCTTTTT
2806196 TTTTTCATTTTT
1 TTTTTC-TTTTT
2806208 TT
1 TT
2806210 CATTTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:2806215 original size:16 final size:16
Alignment explanation
Indices: 2806196--2806226 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2806186 TTTTCTTTTT
2806196 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
2806212 TTTTTCATTTTTTTC
1 TTTTTCATTTTTTTC
2806227 TCTTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:2806224 original size:9 final size:9
Alignment explanation
Indices: 2806194--2806226 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2806184 TTTTTTCTTT
2806194 TTTTTTTCA
1 TTTTTTTCA
2806203 TTTTTTTCA
1 TTTTTTTCA
2806212 --TTTTTCA
1 TTTTTTTCA
2806219 TTTTTTTC
1 TTTTTTTC
2806227 TCTTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:2806235 original size:27 final size:27
Alignment explanation
Indices: 2806179--2806236 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
2806169 TCACTTTTTC
* * *
2806179 TTTTCTTTTTTCTTTTTTTTTTCATTT
1 TTTTCATTTTTCATTTTTTTCTCATTT
2806206 TTTTCATTTTTCATTTTTTTCTC-TTCT
1 TTTTCATTTTTCATTTTTTTCTCATT-T
2806233 TTTT
1 TTTT
2806237 GTTTCAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTCATTTTTCATTTTTTTCTCATTT
Found at i:2816831 original size:58 final size:58
Alignment explanation
Indices: 2816699--2816914 Score: 337
Period size: 58 Copynumber: 3.8 Consensus size: 58
2816689 TGCTTTTGTA
*
2816699 CAAGAAAAATTGATACTTTCAACTTTTCCCC-AAAATATTTTTTAG-AAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTATTTT
*
2816755 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTATTTT
* * * *
2816813 CAAAGAAAATTGAAACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTGTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTATTTT
***
2816871 CAAGGAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
2816915 TTGAATTTTA
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
56 29 0.20
57 14 0.10
58 104 0.71
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:2816943 original size:6 final size:6
Alignment explanation
Indices: 2816927--2817000 Score: 93
Period size: 6 Copynumber: 13.0 Consensus size: 6
2816917 GAATTTTATT
* *
2816927 TAAAAA GAAAAA T-AAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAGA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
2816974 TAAAAA T-AGAA T-AAAA T-AAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
2817001 ATACTAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
5 18 0.30
6 42 0.70
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:2817904 original size:32 final size:31
Alignment explanation
Indices: 2817854--2818047 Score: 143
Period size: 31 Copynumber: 6.2 Consensus size: 31
2817844 AAATGTTAAT
* *
2817854 AAATAATTAAAAGA-AAATAATTAGATAAATAA
1 AAAT-ATTAATAGATAAATAA-TAAATAAATAA
2817886 AAATATTAATAGATAAATAA-AAAT-AATAA
1 AAATATTAATAGATAAATAATAAATAAATAA
* *
2817915 TAATATATAAATAGATAAATAATAAATACAT--
1 -AA-ATATTAATAGATAAATAATAAATAAATAA
* * *
2817946 ATATATTAACAAATAAATAATAAA-AAAT--
1 AAATATTAATAGATAAATAATAAATAAATAA
* *
2817974 ATATATTAATAAATAGTAATAATAAATAAATAA
1 AAATATTAATAGATA--AATAATAAATAAATAA
*
2818007 ATAATAAATACATAAGATAAATAAATAAATAAATAA
1 A-AAT-ATTA-AT-AGATAAAT-AATAAATAAATAA
2818043 AAATA
1 AAATA
2818048 CAAAATACAA
Statistics
Matches: 134, Mismatches: 13, Indels: 28
0.77 0.07 0.16
Matches are distributed among these distances:
28 17 0.13
29 24 0.18
30 15 0.11
31 29 0.22
32 14 0.10
33 3 0.02
34 3 0.02
35 9 0.07
36 16 0.12
37 4 0.03
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (31 bp):
AAATATTAATAGATAAATAATAAATAAATAA
Found at i:2817905 original size:4 final size:4
Alignment explanation
Indices: 2817851--2818043 Score: 109
Period size: 4 Copynumber: 48.5 Consensus size: 4
2817841 AAAAAATGTT
* * * * *
2817851 AATA AATA ATTA AA-A GA-A AATA ATTA GATA AATA AA-A ATATT AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA
* * * *
2817897 GATA AATA AAAA TAAT- AAT- AATA TATA AATA GATA AAT- AATA AATA
1 AATA AATA AATA -AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * *
2817943 CATATA TATT AACA AATA AAT- AATA AA-A AATA TATATT AATA AATA
1 -A-ATA AATA AATA AATA AATA AATA AATA AATA -A-ATA AATA AATA
*
2817989 GTAAT- AATA AATA AATA AAT- AATA AATA CATA AGATA AATA AATA AATA
1 --AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA AATA AATA
2818038 AATA AA
1 AATA AA
2818044 AATACAAAAT
Statistics
Matches: 144, Mismatches: 28, Indels: 34
0.70 0.14 0.17
Matches are distributed among these distances:
3 27 0.19
4 99 0.69
5 10 0.07
6 8 0.06
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:2817940 original size:38 final size:37
Alignment explanation
Indices: 2817850--2818016 Score: 119
Period size: 38 Copynumber: 4.4 Consensus size: 37
2817840 CAAAAAATGT
*
2817850 TAATAAATAATTAAA-AGAAAATAATTAGATAA-ATAAAAA
1 TAATAAATAA-TAAATA-AAAATAA-TA-ATAATATATAAA
*
2817889 T-ATTAATAGATAAATAAAAATAATAATAATATATAAA
1 TAATAAATA-ATAAATAAAAATAATAATAATATATAAA
* * * * *
2817926 TAGATAAATAATAAATACATAT-ATATTAACAAATAAA
1 TA-ATAAATAATAAATAAAAATAATAATAATATATAAA
* * ** *
2817963 TAATAAAAAATATATATTAATAAATAGTAATA-ATAAA
1 TAATAAATAATAAATAAAAAT-AATAATAATATATAAA
2818000 TAAATAAATAATAAATA
1 T-AATAAATAATAAATA
2818017 CATAAGATAA
Statistics
Matches: 103, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
36 18 0.17
37 29 0.28
38 47 0.46
39 9 0.09
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (37 bp):
TAATAAATAATAAATAAAAATAATAATAATATATAAA
Found at i:2818053 original size:21 final size:20
Alignment explanation
Indices: 2818029--2818097 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 20
2818019 TAAGATAAAT
2818029 AAATAAATAAATAAAAATACA
1 AAATAAA-AAATAAAAATACA
*
2818050 AAATACAAAATACAAAATACA
1 AAATAAAAAATA-AAAATACA
2818071 AAATACAAAAATAAAAA-A-A
1 AAATA-AAAAATAAAAATACA
2818090 AAATAAAA
1 AAATAAAA
2818098 TGGGCCTACC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
18 3 0.07
19 6 0.14
20 6 0.14
21 23 0.52
22 6 0.14
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.14
Consensus pattern (20 bp):
AAATAAAAAATAAAAATACA
Found at i:2818054 original size:7 final size:7
Alignment explanation
Indices: 2818037--2818080 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
2818027 ATAAATAAAT
2818037 AAATA-A
1 AAATACA
2818043 AAATACA
1 AAATACA
2818050 AAATACA
1 AAATACA
2818057 AAATACA
1 AAATACA
2818064 AAATACA
1 AAATACA
2818071 AAATACA
1 AAATACA
2818078 AAA
1 AAA
2818081 ATAAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATACA
Found at i:2818061 original size:32 final size:32
Alignment explanation
Indices: 2817994--2818061 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
2817984 AAATAGTAAT
* *
2817994 AATAAATAAATAAATAATAAATACATAAGATA
1 AATAAATAAATAAATAATAAATACAAAAGAAA
*
2818026 AATAAATAAATAAATAA-AAATACAAAATACAA
1 AATAAATAAATAAATAATAAATACAAAAGA-AA
2818058 AATA
1 AATA
2818062 CAAAATACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 10 0.31
32 22 0.69
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.22
Consensus pattern (32 bp):
AATAAATAAATAAATAATAAATACAAAAGAAA
Found at i:2818097 original size:7 final size:7
Alignment explanation
Indices: 2817991--2818092 Score: 73
Period size: 7 Copynumber: 14.0 Consensus size: 7
2817981 AATAAATAGT
*
2817991 AATAATA
1 AATAAAA
2817998 AATAAATA
1 AATAAA-A
*
2818006 AATAATA
1 AATAAAA
2818013 AATACATAA
1 AATA-A-AA
*
2818022 GATAAATA
1 AATAAA-A
2818030 AATAAATA
1 AATAAA-A
2818038 AAT-AAA
1 AATAAAA
*
2818044 AATACAA
1 AATAAAA
*
2818051 AATACAA
1 AATAAAA
*
2818058 AATACAA
1 AATAAAA
*
2818065 AATACAA
1 AATAAAA
2818072 AATACAAA
1 AATA-AAA
2818080 AATAAAA
1 AATAAAA
2818087 AA-AAAA
1 AATAAAA
2818093 TAAAATGGGC
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
6 8 0.10
7 45 0.55
8 25 0.30
9 4 0.05
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.19
Consensus pattern (7 bp):
AATAAAA
Found at i:2819597 original size:18 final size:18
Alignment explanation
Indices: 2819556--2819598 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
2819546 GAAATTTCTC
2819556 AAAAAT-AAAACTACAAA
1 AAAAATAAAAACTACAAA
*
2819573 AATAATAAAAACTA-AAA
1 AAAAATAAAAACTACAAA
2819590 ATAAAATAA
1 A-AAAATAA
2819599 GCTAAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAATAAAAACTACAAA
Found at i:2820573 original size:5 final size:5
Alignment explanation
Indices: 2820563--2820616 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
2820553 TTATAACTAT
* * *
2820563 TATAA TATAA TATAA TATAG TATAA TAATAA -ATAA TATAA TATAG GATAA
1 TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA TATAA
2820613 TATA
1 TATA
2820617 GTACCATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 4 0.10
5 33 0.80
6 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (5 bp):
TATAA
Found at i:2820602 original size:35 final size:34
Alignment explanation
Indices: 2820563--2820638 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 34
2820553 TTATAACTAT
* *
2820563 TATAATATAATATAATATAGTATAATAATAAATAA
1 TATAATATAAGATAATATAGTACAATAAT-AATAA
* *
2820598 TATAATATAGGATAATATAGTACCATAATAATAA
1 TATAATATAAGATAATATAGTACAATAATAATAA
2820632 TATAATA
1 TATAATA
2820639 ATAGTGATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 12 0.32
35 25 0.68
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.36
Consensus pattern (34 bp):
TATAATATAAGATAATATAGTACAATAATAATAA
Found at i:2821150 original size:114 final size:113
Alignment explanation
Indices: 2820996--2821345 Score: 264
Period size: 114 Copynumber: 3.1 Consensus size: 113
2820986 GATCGAAAAT
* *
2820996 GAATGACTAGGATGATGTCACAAATCTAAAAGTGACCAAGACCAAGTCGAAGT-TGAAGATGAAT
1 GAATGACTAAGATGATATCACAAATCTAAAAGTGACCAAGACCAAGTCGAAGTAT-AA-ATGAAT
* * * * *
2821060 GACTAAGACAATGTTGTGAGTCTGAGAATGATTTGACCTGAGCCGAGGTC
64 GACTAAGACAATGTCGTGAGTCTAAGAATGATCTGACCTAAGCCGAGATC
* * * * * *
2821110 GAATGACTAAGATGATATCGCAAGTCTGAAAA-TGATCAAGATCGAGTCGAGGTCATAAATGAAT
1 GAATGACTAAGATGATATCACAAATCT-AAAAGTGACCAAGACCAAGTCGAAGT-ATAAATGAAT
* ** * *
2821174 GATTTGGACAATGTCGTGAGTCTAAGAATGATCTGACCTAAGTCGAGATT
64 GACTAAGACAATGTCGTGAGTCTAAGAATGATCTGACCTAAGCCGAGATC
* *** * * ** *
2821224 GAATGACTAA-A-CA-ATGCTGTGAGTCTAAAAGTAACCAAGACGGAGTCTAAGTCATAAATGAA
1 GAATGACTAAGATGATAT-C-ACAAATCTAAAAGTGACCAAGACCAAGTCGAAGT-ATAAATGAA
* * * * * **
2821286 TGACT-GGA-ATGATGCCATGAGTCTGAGAATGATCTAACCTAAGCTAAGATC
63 TGACTAAGACA--ATGTCGTGAGTCTAAGAATGATCTGACCTAAGCCGAGATC
2821337 GAATGACTA
1 GAATGACTA
2821346 GGATTATACC
Statistics
Matches: 192, Mismatches: 36, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
111 3 0.02
112 9 0.05
113 77 0.40
114 96 0.50
115 6 0.03
116 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (113 bp):
GAATGACTAAGATGATATCACAAATCTAAAAGTGACCAAGACCAAGTCGAAGTATAAATGAATGA
CTAAGACAATGTCGTGAGTCTAAGAATGATCTGACCTAAGCCGAGATC
Found at i:2821572 original size:17 final size:17
Alignment explanation
Indices: 2821550--2821589 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
2821540 ATTTTTAGAA
*
2821550 TCGTAAGAATGAAAGAT
1 TCGTAAGAATCAAAGAT
* *
2821567 TCGTAAGATTCCAAGAT
1 TCGTAAGAATCAAAGAT
2821584 TCGTAA
1 TCGTAA
2821590 AAGTTTCAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (17 bp):
TCGTAAGAATCAAAGAT
Found at i:2821741 original size:17 final size:18
Alignment explanation
Indices: 2821703--2821738 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
2821693 AGATGCAAGG
2821703 TTCACAAGGATTTTCAAA
1 TTCACAAGGATTTTCAAA
2821721 TTCACAA-GA-TTTCAAA
1 TTCACAAGGATTTTCAAA
2821737 TT
1 TT
2821739 TCATAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (18 bp):
TTCACAAGGATTTTCAAA
Found at i:2821821 original size:82 final size:84
Alignment explanation
Indices: 2821720--2821939 Score: 282
Period size: 82 Copynumber: 2.6 Consensus size: 84
2821710 GGATTTTCAA
* * *
2821720 ATTCACAAGATTTCAAATTTCATAAAGGTGCAAGATTCACAAATATTCAAGGTTTGCAAGGACTT
1 ATTCACAAGATTTCAAATTTCATAAAGGTGTAAGATTCACAAAGATGCAAGGTTTGCAAGGACTT
* *
2821785 TCAGATTCA-TAG-GAAAG
66 TCAAATTCACAAGAGAAAG
* * ** *
2821802 ATTCAAAAGATTCCAAATTTCATAAAGGTGTAAGATTTGCAAAGATGCAAGGTTTGTAAGGACTT
1 ATTCACAAGATTTCAAATTTCATAAAGGTGTAAGATTCACAAAGATGCAAGGTTTGCAAGGACTT
2821867 TCAAATTCACAAGAAAGAAAG
66 TCAAATTCACAAG--AGAAAG
** * *
2821888 ATTTGCAAGATTTCAAATTTCAAAAAGGTGTAAAATTCACAAAGATGCAAGG
1 ATTCACAAGATTTCAAATTTCATAAAGGTGTAAGATTCACAAAGATGCAAGG
2821940 ACATTCAAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
82 65 0.56
83 2 0.02
86 49 0.42
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.28
Consensus pattern (84 bp):
ATTCACAAGATTTCAAATTTCATAAAGGTGTAAGATTCACAAAGATGCAAGGTTTGCAAGGACTT
TCAAATTCACAAGAGAAAG
Found at i:2822888 original size:18 final size:18
Alignment explanation
Indices: 2822867--2822920 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
2822857 TTAGTTTAAG
*
2822867 TTTTCCTTTTT-CTTCTT
1 TTTTTCTTTTTGCTTCTT
*
2822884 TTTTTTTTTTTGCTTCTT
1 TTTTTCTTTTTGCTTCTT
2822902 TTTTT-TTTTTGCTT-TT
1 TTTTTCTTTTTGCTTCTT
2822918 TTT
1 TTT
2822921 GCCCCATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 5 0.15
17 18 0.53
18 11 0.32
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTGCTTCTT
Found at i:2822893 original size:17 final size:17
Alignment explanation
Indices: 2822873--2822920 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
2822863 TAAGTTTTCC
2822873 TTTTTCTTCTTTTTTTT
1 TTTTTCTTCTTTTTTTT
2822890 TTTTTGCTTCTTTTTTTT
1 TTTTT-CTTCTTTTTTTT
*
2822908 TTTTGCTT-TTTTT
1 TTTTTCTTCTTTTT
2822921 GCCCCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 16 0.55
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.85
Consensus pattern (17 bp):
TTTTTCTTCTTTTTTTT
Found at i:2826972 original size:20 final size:20
Alignment explanation
Indices: 2826947--2827004 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
2826937 TGTAAGGATT
2826947 TTTATTTGAAAATTTTTTTA
1 TTTATTTGAAAATTTTTTTA
2826967 TTTA-TTGAAAGGA-TTTTTTA
1 TTTATTTGAAA--ATTTTTTTA
*
2826987 TTT-TTTAAAAATTTTTTT
1 TTTATTTGAAAATTTTTTT
2827005 GTTTCTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 1 0.03
19 12 0.36
20 19 0.58
21 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTATTTGAAAATTTTTTTA
Found at i:2827059 original size:22 final size:22
Alignment explanation
Indices: 2827032--2827073 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2827022 AAAACTTATT
2827032 TGAAAAAGATTTTTTTATTTAC
1 TGAAAAAGATTTTTTTATTTAC
* *
2827054 TGAAAAGGTTTTTTTTATTT
1 TGAAAAAGATTTTTTTATTT
2827074 TTATACAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (22 bp):
TGAAAAAGATTTTTTTATTTAC
Found at i:2827162 original size:18 final size:18
Alignment explanation
Indices: 2827135--2827188 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
2827125 TATCAAAAAT
*
2827135 AAAACCAAAAAAATAATA
1 AAAACTAAAAAAATAATA
2827153 AAAACT--AAAAATAA-A
1 AAAACTAAAAAAATAATA
*
2827168 ATAAGCTAAAAAAAT-ATA
1 A-AAACTAAAAAAATAATA
2827186 AAA
1 AAA
2827189 TCAAATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
15 2 0.07
16 12 0.40
17 3 0.10
18 13 0.43
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAACTAAAAAAATAATA
Found at i:2827218 original size:19 final size:19
Alignment explanation
Indices: 2827191--2827230 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2827181 ATATAAAATC
* *
2827191 AAATCAAATAAAAAAATAA
1 AAATAAAATAAAAAAAGAA
*
2827210 AAATAAAATGAAAAAAGAA
1 AAATAAAATAAAAAAAGAA
2827229 AA
1 AA
2827231 CCTTGTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (19 bp):
AAATAAAATAAAAAAAGAA
Found at i:2827223 original size:11 final size:11
Alignment explanation
Indices: 2827130--2827224 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 11
2827120 AAATTTATCA
**
2827130 AAAATAAAACC
1 AAAATAAAAAT
2827141 AAAA-AAATAAT
1 AAAATAAA-AAT
2827152 AAAAACTAAAAAT
1 -AAAA-TAAAAAT
2827165 AAAATAAGCTAAA-
1 AAAATAA---AAAT
2827178 AAAATATAAAAT
1 AAAATA-AAAAT
* *
2827190 CAAATCAAATAAA
1 AAAAT-AAA-AAT
2827203 AAAATAAAAAT
1 AAAATAAAAAT
2827214 AAAATGAAAAA
1 AAAAT-AAAAA
2827225 AGAAAACCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
10 3 0.05
11 18 0.27
12 22 0.33
13 16 0.24
14 7 0.11
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:2827230 original size:25 final size:23
Alignment explanation
Indices: 2827129--2827218 Score: 92
Period size: 25 Copynumber: 3.7 Consensus size: 23
2827119 AAAATTTATC
**
2827129 AAAAATAAAACCAAAA-AAATAA
1 AAAAATAAAAATAAAATAAATAA
*
2827151 TAAAAACTAAAAATAAAATAAGCTAA
1 -AAAAA-TAAAAATAAAATAA-ATAA
*
2827177 AAAAATATAAAATCAAATCAAATAA
1 AAAAATA-AAAATAAAAT-AAATAA
2827202 AAAAATAAAAATAAAAT
1 AAAAATAAAAATAAAAT
2827219 GAAAAAAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.09
24 20 0.36
25 26 0.46
26 5 0.09
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.17
Consensus pattern (23 bp):
AAAAATAAAAATAAAATAAATAA
Found at i:2827689 original size:20 final size:20
Alignment explanation
Indices: 2827664--2827710 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2827654 CAAAAATGCT
2827664 CTAGAATCC-AAATCCAAACC
1 CTAGAATCCTAAAT-CAAACC
* *
2827684 CTAGAAACCTAAATCTAACC
1 CTAGAATCCTAAATCAAACC
2827704 C-AGAATC
1 CTAGAATC
2827711 TTTCGAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 5 0.22
20 14 0.61
21 4 0.17
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.17
Consensus pattern (20 bp):
CTAGAATCCTAAATCAAACC
Found at i:2828115 original size:3 final size:3
Alignment explanation
Indices: 2828107--2828282 Score: 95
Period size: 3 Copynumber: 62.0 Consensus size: 3
2828097 TAATGATATT
* *
2828107 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATT ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
2828154 ATT ATT ATA ATA ATT ATT ATT ATA ATA ATA ATA ATT ATT ATT ATT ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
2828202 ATT ATA ATA ACT- ATA ATA AT- GTA AT- GTA ATA A-C ATA ATA AT-
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
2828243 ATA AT- ATA GT- ATA AT- ATA GT- ATC ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2828283 CTAGTGATAT
Statistics
Matches: 143, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
2 16 0.11
3 126 0.88
4 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (3 bp):
ATA
Found at i:2828303 original size:24 final size:23
Alignment explanation
Indices: 2828241--2828318 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 23
2828231 TAACATAATA
*
2828241 ATATAATATAGTATAATA-TAGT
1 ATATAATATAATATAATACTAGT
2828263 ATCATAATAATAATATAATACTAGT
1 AT-ATAAT-ATAATATAATACTAGT
* *
2828288 GATATACTATACTATAATACTAGT
1 -ATATAATATAATATAATACTAGT
2828312 A-ATAATA
1 ATATAATA
2828319 ATAGAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
22 7 0.15
23 6 0.12
24 25 0.52
25 8 0.17
26 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (23 bp):
ATATAATATAATATAATACTAGT
Found at i:2830455 original size:17 final size:17
Alignment explanation
Indices: 2830433--2830469 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2830423 TGTGAATACG
2830433 AAAATCCTTGCAAACCT
1 AAAATCCTTGCAAACCT
* *
2830450 AAAATCTTTGCAAATCT
1 AAAATCCTTGCAAACCT
2830467 AAA
1 AAA
2830470 GCATCTGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (17 bp):
AAAATCCTTGCAAACCT
Found at i:2830541 original size:86 final size:86
Alignment explanation
Indices: 2830393--2830595 Score: 241
Period size: 86 Copynumber: 2.4 Consensus size: 86
2830383 AACCTTTGCT
* * *
2830393 AAACTTGGAATCTTATGAATCTTTCATTCTTGTGAATACGAAAATCCTTGCAAACCTAAAATCTT
1 AAACTTGAAATCTTGTGAATCTTTCATTCTTATGAATACGAAAATCCTTGCAAACCTAAAATCTT
* *
2830458 TGCAAATCTA-AAGCATCTGCG
66 TACAAATCTAGAA-CATCTGCA
* ** * *
2830479 AAACTTGAAATCTTGTGAATCTTTCATTCTTATGAAT-CTAAAAGTCCTTGTGAACTTGAAATCT
1 AAACTTGAAATCTTGTGAATCTTTCATTCTTATGAATACGAAAA-TCCTTGCAAACCTAAAATCT
* *
2830543 TTACGAATCTAGAACCTCTGCA
65 TTACAAATCTAGAACATCTGCA
*
2830565 AAACTTGAAATCTTGAGAAT-TTTCCATTCTT
1 AAACTTGAAATCTTGTGAATCTTT-CATTCTT
2830596 GCAAATCTAA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
85 8 0.08
86 91 0.90
87 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (86 bp):
AAACTTGAAATCTTGTGAATCTTTCATTCTTATGAATACGAAAATCCTTGCAAACCTAAAATCTT
TACAAATCTAGAACATCTGCA
Found at i:2830630 original size:86 final size:86
Alignment explanation
Indices: 2830451--2830612 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 86
2830441 TGCAAACCTA
* * * * * **
2830451 AAATCTTTGCAAATCTA-AAGCATCTGCGAAACTTGAAATCTTGTGAATCTTTCATTCTTATGAA
1 AAATCTTTACGAATCTAGAA-CCTCTGCAAAACTTGAAATCTTGAGAATCTTTCATTCTTACAAA
* *
2830515 TCTAAAAGTCCTTGTGAACTTG
65 TCTAAAAGACATTGTGAACTTG
*
2830537 AAATCTTTACGAATCTAGAACCTCTGCAAAACTTGAAATCTTGAGAAT-TTTCCATTCTTGCAAA
1 AAATCTTTACGAATCTAGAACCTCTGCAAAACTTGAAATCTTGAGAATCTTT-CATTCTTACAAA
2830601 TCTAAAA-ACATT
65 TCTAAAAGACATT
2830613 TGCAAATCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 6 0.09
86 56 0.88
87 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (86 bp):
AAATCTTTACGAATCTAGAACCTCTGCAAAACTTGAAATCTTGAGAATCTTTCATTCTTACAAAT
CTAAAAGACATTGTGAACTTG
Found at i:2831134 original size:52 final size:52
Alignment explanation
Indices: 2831078--2831221 Score: 141
Period size: 51 Copynumber: 2.8 Consensus size: 52
2831068 TGTAATTGAG
**
2831078 AGATTTTTGGAATTTAATTTCAGAATCAATTGGCATTAAAAATGAT-GTAGAA
1 AGATTTTTGGAATTTAATTTCAGAATCAATTCACATTAAAAATGATAG-AGAA
* ** * *
2831130 AGA-TTGTCAAGATTTAATTTCAGAATCAATTCACATT-AAACTGATAGAGAG
1 AGATTTTTGGA-ATTTAATTTCAGAATCAATTCACATTAAAAATGATAGAGAA
* * * * *
2831181 AGATTTTGGGGATTTCATTTTAGAATCAATTCTCATTAAAA
1 AGATTTTTGGAATTTAATTTCAGAATCAATTCACATTAAAA
2831222 CAGAAATCAA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
51 40 0.55
52 33 0.45
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (52 bp):
AGATTTTTGGAATTTAATTTCAGAATCAATTCACATTAAAAATGATAGAGAA
Found at i:2831757 original size:28 final size:26
Alignment explanation
Indices: 2831715--2831777 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
2831705 TTTTTTATTT
2831715 TTTCATTTTATATTTTAA-GCTTTTTA
1 TTTCATTTTATA-TTTAATGCTTTTTA
*
2831741 TTTCATTTTTACTATTTAATTCTTTTTA
1 TTTCA-TTTTA-TATTTAATGCTTTTTA
2831769 -TT-ATTTTAT
1 TTTCATTTTAT
2831778 TTTTGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 1 0.03
25 5 0.15
26 6 0.18
27 12 0.36
28 9 0.27
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTCATTTTATATTTAATGCTTTTTA
Found at i:2831758 original size:27 final size:27
Alignment explanation
Indices: 2831715--2831781 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
2831705 TTTTTTATTT
2831715 TTTCATTTTATATTTTAA-GCTTTTTA
1 TTTCATTTTATATTTTAATGCTTTTTA
*
2831741 TTTCATTTT-TACTATTTAATTCTTTTTA
1 TTTCATTTTATA-T-TTTAATGCTTTTTA
2831769 -TT-ATTTTAT-TTTT
1 TTTCATTTTATATTTT
2831782 GAAAAATAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
24 3 0.08
25 3 0.08
26 15 0.42
27 8 0.22
28 7 0.19
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTCATTTTATATTTTAATGCTTTTTA
Done.