Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 51 of 64
Found at i:8167004 original size:111 final size:110
Alignment explanation
Indices: 8166795--8167004 Score: 253
Period size: 111 Copynumber: 1.9 Consensus size: 110
8166785 TACATTATTA
* * * *
8166795 TCTCGATCGATTCTTTATTTTTCAACTTACAATGTTGTCCCGGTCGATTCTATAAGACCTCATGA
1 TCTCGATCGATTCTTTATTTTTCAACTTACAATATTATCCCAGTCGATTCTATAAGACCTCAGGA
*
8166860 CATAATTTTTTAAGACCTCCAGACATAATTTTAATTCGTGGTGTTG
66 CATAA-TTTCTAAGACCTCCAGACATAATTTTAATTCGTGGTGTTG
* * ** * * * *
8166906 TCTCGATCGATTCTTTATTTTTTAACTTGCGGTATTATCCCAGTTGGTTCTATAATACCTCAGGG
1 TCTCGATCGATTCTTTATTTTTCAACTTACAATATTATCCCAGTCGATTCTATAAGACCTCAGGA
8166971 CATTAA-TTCTAAGACCTCC-GAGCATAATCTTTAA
66 CA-TAATTTCTAAGACCTCCAGA-CATAAT-TTTAA
8167005 GACCTCTGGG
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
109 2 0.02
110 18 0.22
111 60 0.72
112 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (110 bp):
TCTCGATCGATTCTTTATTTTTCAACTTACAATATTATCCCAGTCGATTCTATAAGACCTCAGGA
CATAATTTCTAAGACCTCCAGACATAATTTTAATTCGTGGTGTTG
Found at i:8167120 original size:22 final size:22
Alignment explanation
Indices: 8167094--8167198 Score: 97
Period size: 22 Copynumber: 4.8 Consensus size: 22
8167084 ATTTTGTAAA
*
8167094 ACCTCAGGACATGATTTCTAAG
1 ACCTCAGGACATAATTTCTAAG
* *
8167116 ACCTCCGGACATAATCTT-TAAA
1 ACCTCAGGACATAAT-TTCTAAG
* * *
8167138 ACCTTAGGGCATGATTTCTAAG
1 ACCTCAGGACATAATTTCTAAG
* * *
8167160 ACCTCTGGGCATAATTTTTAAG
1 ACCTCAGGACATAATTTCTAAG
8167182 ACCTCTAGG-CATAATTT
1 ACCTC-AGGACATAATTT
8167199 TGATTCGCTG
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
21 2 0.03
22 61 0.91
23 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (22 bp):
ACCTCAGGACATAATTTCTAAG
Found at i:8167153 original size:44 final size:44
Alignment explanation
Indices: 8167090--8167198 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
8167080 ATCGATTTTG
* *
8167090 TAAAACCTCAGGACATGATTTCTAAGACCTCCGGACATAATCTT
1 TAAAACCTTAGGGCATGATTTCTAAGACCTCCGGACATAATCTT
* * *
8167134 TAAAACCTTAGGGCATGATTTCTAAGACCTCTGGGCATAATTTT
1 TAAAACCTTAGGGCATGATTTCTAAGACCTCCGGACATAATCTT
* *
8167178 TAAGACCTCTA-GGCATAATTT
1 TAAAACCT-TAGGGCATGATTT
8167199 TGATTCGCTG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 55 0.96
45 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (44 bp):
TAAAACCTTAGGGCATGATTTCTAAGACCTCCGGACATAATCTT
Found at i:8167289 original size:22 final size:22
Alignment explanation
Indices: 8167261--8167305 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8167251 TCTGATCAAT
*
8167261 TCTTTAAGACCTTCAAGCATAA
1 TCTTTAAGACCTCCAAGCATAA
*
8167283 TCTTTAAGACCTCCAGGCATAA
1 TCTTTAAGACCTCCAAGCATAA
8167305 T
1 T
8167306 TTCGACTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (22 bp):
TCTTTAAGACCTCCAAGCATAA
Found at i:8168734 original size:18 final size:18
Alignment explanation
Indices: 8168711--8168775 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
8168701 TTTAGGTATT
8168711 TTTTTATTTTTTGAATTG
1 TTTTTATTTTTTGAATTG
** **
8168729 TTTTTATTTTTTTTA-CA
1 TTTTTATTTTTTGAATTG
*
8168746 TTATTATTTTTTGAATTG
1 TTTTTATTTTTTGAATTG
8168764 TTTTTATTTTTT
1 TTTTTATTTTTT
8168776 TTACATTATT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTTATTTTTTGAATTG
Found at i:8168741 original size:9 final size:9
Alignment explanation
Indices: 8168709--8168778 Score: 52
Period size: 9 Copynumber: 7.9 Consensus size: 9
8168699 GGTTTAGGTA
8168709 TTTTTTTAT
1 TTTTTTTAT
**
8168718 TTTTTGAAT
1 TTTTTTTAT
*
8168727 TGTTTTTAT
1 TTTTTTTAT
8168736 TTTTTTTA-
1 TTTTTTTAT
** *
8168744 CATTATTAT
1 TTTTTTTAT
**
8168753 TTTTTGAAT
1 TTTTTTTAT
*
8168762 TGTTTTTAT
1 TTTTTTTAT
8168771 TTTTTTTA
1 TTTTTTTA
8168779 CATTATTATT
Statistics
Matches: 42, Mismatches: 18, Indels: 2
0.68 0.29 0.03
Matches are distributed among these distances:
8 5 0.12
9 37 0.88
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:8168757 original size:35 final size:35
Alignment explanation
Indices: 8168714--8168791 Score: 156
Period size: 35 Copynumber: 2.2 Consensus size: 35
8168704 AGGTATTTTT
8168714 TTATTTTTTGAATTGTTTTTATTTTTTTTACATTA
1 TTATTTTTTGAATTGTTTTTATTTTTTTTACATTA
8168749 TTATTTTTTGAATTGTTTTTATTTTTTTTACATTA
1 TTATTTTTTGAATTGTTTTTATTTTTTTTACATTA
8168784 TTATTTTT
1 TTATTTTT
8168792 GTTATTTTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (35 bp):
TTATTTTTTGAATTGTTTTTATTTTTTTTACATTA
Found at i:8168787 original size:17 final size:17
Alignment explanation
Indices: 8168732--8168791 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
8168722 TGAATTGTTT
8168732 TTATTTTTTTTACATTA
1 TTATTTTTTTTACATTA
** ** *
8168749 TTATTTTTTGAATTGTTT
1 TTATTTTTTTTA-CATTA
8168767 TTATTTTTTTTACATTA
1 TTATTTTTTTTACATTA
8168784 TTATTTTT
1 TTATTTTT
8168792 GTTATTTTGG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
17 20 0.62
18 12 0.38
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (17 bp):
TTATTTTTTTTACATTA
Found at i:8169072 original size:3 final size:3
Alignment explanation
Indices: 8169064--8169104 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8169054 TATAAAAGAA
8169064 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8169105 ATTTTAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8169297 original size:38 final size:38
Alignment explanation
Indices: 8169226--8169299 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 38
8169216 CATTTTCCTT
*
8169226 AAACCTTAAAATCCAAACCCTAAATTTCAAAACCCTCC
1 AAACCTTAAAATCCAAACCCTAAACTTCAAAACCCTCC
8169264 AAACCTT-AAAT-CAAATCCCTAAAACCTTC-AAACCCT
1 AAACCTTAAAATCCAAA-CCCT-AAA-CTTCAAAACCCT
8169300 AAAAGTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 4 0.12
37 8 0.25
38 17 0.53
39 3 0.09
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.22
Consensus pattern (38 bp):
AAACCTTAAAATCCAAACCCTAAACTTCAAAACCCTCC
Found at i:8169327 original size:58 final size:57
Alignment explanation
Indices: 8169259--8169486 Score: 243
Period size: 58 Copynumber: 4.0 Consensus size: 57
8169249 ATTTCAAAAC
* * *
8169259 CCTCCAAACCTT-AAATCAAATCCCTAAAACCTTCAAACCCTAAAAGTAAACCATAAAT
1 CCTCCAAACCTTAAAATCAAATCCC--AAACCTCCAAACCCTAAAATTAAACCCTAAAT
* * * *
8169317 CCTCCAAACCTTAAAATGAAAATCCCAAACCTTCAAACCCTAAAATTAATCCCTAAAC
1 CCTCCAAACCTTAAAAT-CAAATCCCAAACCTCCAAACCCTAAAATTAAACCCTAAAT
* *
8169375 CCTTCAAACCTTAAAATCAAAACCCCAAACCTCCAAACCCTAAAATTAAACCCT-AAT
1 CCTCCAAACCTTAAAATC-AAATCCCAAACCTCCAAACCCTAAAATTAAACCCTAAAT
* * *
8169432 -CTCCAAAACC-TAAAATTAAA-CCCTAATCC-CCAAACCCTAAAATCAAAACCCTAAA
1 CCTCC-AAACCTTAAAATCAAATCCC-AAACCTCCAAACCCTAAAAT-TAAACCCTAAA
8169487 ATCCAAAACT
Statistics
Matches: 148, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
54 17 0.11
55 14 0.09
56 11 0.07
57 7 0.05
58 88 0.59
59 4 0.03
60 7 0.05
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (57 bp):
CCTCCAAACCTTAAAATCAAATCCCAAACCTCCAAACCCTAAAATTAAACCCTAAAT
Found at i:8169379 original size:87 final size:84
Alignment explanation
Indices: 8169259--8169481 Score: 229
Period size: 87 Copynumber: 2.6 Consensus size: 84
8169249 ATTTCAAAAC
* * * *
8169259 CCTCC-AAACCTTAAATCAAATCCCTAAAACCTTCAAACCCTAAAAGT-AAACCATAAATCCTCC
1 CCTCCAAAACCTAAAAT-TAATCCCTAAACCCTTCAAACCCTAAAA-TAAAACCACAAA-CCTCC
*
8169322 AAACCTTAAAATGAAAATCCCAAA
63 AAACCCTAAAAT-AAAA-CCCAAA
* * * *
8169346 CCTTCAAACCCTAAAATTAATCCCTAAACCCTTCAAACCTTAAAATCAAAACCCCAAACCTCCAA
1 CCTCCAAAACCTAAAATTAATCCCTAAACCCTTCAAACCCTAAAAT-AAAACCACAAACCTCCAA
* *
8169411 ACCCTAAAATTAAACCCTAA
65 ACCCTAAAATAAAACCCAAA
* * *
8169431 TCTCCAAAACCTAAAATTAAACCCTAATCCC--CAAACCCTAAAATCAAAACC
1 CCTCCAAAACCTAAAATTAATCCCTAAACCCTTCAAACCCTAAAAT-AAAACC
8169482 CTAAAATCCA
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
83 19 0.16
85 31 0.27
86 4 0.03
87 45 0.39
88 17 0.15
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (84 bp):
CCTCCAAAACCTAAAATTAATCCCTAAACCCTTCAAACCCTAAAATAAAACCACAAACCTCCAAA
CCCTAAAATAAAACCCAAA
Found at i:8169419 original size:29 final size:28
Alignment explanation
Indices: 8169259--8169482 Score: 159
Period size: 29 Copynumber: 7.9 Consensus size: 28
8169249 ATTTCAAAAC
* * *
8169259 CCTCCAAA-CCTTAAATCAAATCCCTAAAA
1 CCTCCAAACCCTAAAAT-AAAACCC-CAAA
* **
8169288 CCTTCAAACCCTAAAAGT-AAACCATAAA
1 CCTCCAAACCCTAAAA-TAAAACCCCAAA
* *
8169316 TCCTCCAAACCTTAAAATGAAAATCCCAAA
1 -CCTCCAAACCCTAAAAT-AAAACCCCAAA
* * * *
8169346 CCTTCAAACCCTAAAATTAATCCCTAAA
1 CCTCCAAACCCTAAAATAAAACCCCAAA
* *
8169374 CCCTTCAAACCTTAAAATCAAAACCCCAAA
1 -CCTCCAAACCCTAAAAT-AAAACCCCAAA
* *
8169404 CCTCCAAACCCTAAAATTAAA-CCCTAA
1 CCTCCAAACCCTAAAATAAAACCCCAAA
* * * * *
8169431 TCTCCAAAACCTAAAATTAAACCCTAAT
1 CCTCCAAACCCTAAAATAAAACCCCAAA
8169459 CC-CCAAACCCTAAAATCAAAACCC
1 CCTCCAAACCCTAAAAT-AAAACCC
8169483 TAAAATCCAA
Statistics
Matches: 154, Mismatches: 32, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
27 37 0.24
28 24 0.16
29 71 0.46
30 21 0.14
31 1 0.01
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (28 bp):
CCTCCAAACCCTAAAATAAAACCCCAAA
Found at i:8169427 original size:13 final size:13
Alignment explanation
Indices: 8169409--8169457 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
8169399 CCAAACCTCC
8169409 AAACCCTAAAATT
1 AAACCCTAAAATT
** *
8169422 AAACCCTAATCTCC
1 AAACCCTAAAAT-T
*
8169436 AAAACCTAAAATT
1 AAACCCTAAAATT
8169449 AAACCCTAA
1 AAACCCTAA
8169458 TCCCCAAACC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (13 bp):
AAACCCTAAAATT
Found at i:8169443 original size:27 final size:27
Alignment explanation
Indices: 8169405--8169495 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
8169395 AACCCCAAAC
*
8169405 CTCCAAACCCTAAAATTAAACCCTAAT
1 CTCCAAAACCTAAAATTAAACCCTAAT
8169432 CTCCAAAACCTAAAATTAAACCCTAAT
1 CTCCAAAACCTAAAATTAAACCCTAAT
* * * *
8169459 CCCCAAACCCTAAAATCAAAACCCTAAA
1 CTCCAAAACCTAAAAT-TAAACCCTAAT
*
8169487 ATCCAAAAC
1 CTCCAAAAC
8169496 TTCAAAATCT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 40 0.73
28 15 0.27
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (27 bp):
CTCCAAAACCTAAAATTAAACCCTAAT
Found at i:8169480 original size:14 final size:14
Alignment explanation
Indices: 8169380--8169495 Score: 76
Period size: 14 Copynumber: 8.3 Consensus size: 14
8169370 TAAACCCTTC
*
8169380 AAACCTTAAAATCA
1 AAACCCTAAAATCA
* * *
8169394 AAACCCCAAACCTCC
1 AAACCCTAAA-ATCA
*
8169409 AAACCCTAAAAT-T
1 AAACCCTAAAATCA
**
8169422 AAACCCTAATCTCCA
1 AAACCCTAAAAT-CA
*
8169437 AAA-CCTAAAAT-T
1 AAACCCTAAAATCA
*** *
8169449 AAACCCTAATCCCC
1 AAACCCTAAAATCA
8169463 AAACCCTAAAATCA
1 AAACCCTAAAATCA
8169477 AAACCCTAAAATCCA
1 AAACCCTAAAAT-CA
8169492 AAAC
1 AAAC
8169496 TTCAAAATCT
Statistics
Matches: 75, Mismatches: 21, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
12 3 0.04
13 15 0.20
14 37 0.49
15 20 0.27
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:8174952 original size:8 final size:8
Alignment explanation
Indices: 8174941--8175024 Score: 70
Period size: 8 Copynumber: 10.9 Consensus size: 8
8174931 CTTATTTTGG
8174941 GGTTTTAA
1 GGTTTTAA
8174949 GGTTTT-A
1 GGTTTTAA
8174956 GGATTTT-A
1 GG-TTTTAA
8174964 GGTTTT-A
1 GGTTTTAA
*
8174971 GAGTTTTGA
1 G-GTTTTAA
*
8174980 GGTTTCAA
1 GGTTTTAA
8174988 GG-TTTAA
1 GGTTTTAA
*
8174995 GGTTTTAC
1 GGTTTTAA
* *
8175003 GATTTTGA
1 GGTTTTAA
8175011 -GTTTTAA
1 GGTTTTAA
8175018 GGTTTTA
1 GGTTTTA
8175025 GAATTTCGGG
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
7 20 0.32
8 40 0.65
9 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.50
Consensus pattern (8 bp):
GGTTTTAA
Found at i:8174968 original size:15 final size:15
Alignment explanation
Indices: 8174943--8175025 Score: 57
Period size: 15 Copynumber: 5.4 Consensus size: 15
8174933 TATTTTGGGG
8174943 TTTTAAGGTTTTAGGA
1 TTTT-AGGTTTTAGGA
8174959 TTTTAGGTTTTA-GA
1 TTTTAGGTTTTAGGA
*
8174973 GTTTTGAGGTTTCAAGG-
1 -TTTT-AGGTTT-TAGGA
* *
8174990 TTTAAGGTTTTACGA
1 TTTTAGGTTTTAGGA
8175005 TTTT-GAGTTTTAAGG-
1 TTTTAG-GTTTT-AGGA
8175020 TTTTAG
1 TTTTAG
8175026 AATTTCGGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
14 5 0.09
15 30 0.57
16 16 0.30
17 1 0.02
18 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.25, T:0.51
Consensus pattern (15 bp):
TTTTAGGTTTTAGGA
Found at i:8174968 original size:23 final size:24
Alignment explanation
Indices: 8174941--8175046 Score: 98
Period size: 23 Copynumber: 4.5 Consensus size: 24
8174931 CTTATTTTGG
8174941 GGTTTTAAGGTTTTAGGATTT-TA
1 GGTTTTAAGGTTTTAGGATTTCTA
*
8174964 GGTTTT-AGAGTTTTGAGG-TTTCAA
1 GGTTTTAAG-GTTTT-AGGATTTCTA
*
8174988 GG-TTTAAGGTTTTACGATTT-T-
1 GGTTTTAAGGTTTTAGGATTTCTA
* **
8175009 GAGTTTTAAGGTTTTAGAATTTCGG
1 G-GTTTTAAGGTTTTAGGATTTCTA
8175034 GGTTTTAAGGTTT
1 GGTTTTAAGGTTT
8175047 AGAGTTTTAG
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
21 1 0.01
22 5 0.07
23 41 0.60
24 20 0.29
25 1 0.01
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.49
Consensus pattern (24 bp):
GGTTTTAAGGTTTTAGGATTTCTA
Found at i:8174977 original size:31 final size:31
Alignment explanation
Indices: 8174942--8175111 Score: 84
Period size: 31 Copynumber: 5.5 Consensus size: 31
8174932 TTATTTTGGG
8174942 GTTTTAAGGTTTTAGGATTTTAGGTTTTAGA
1 GTTTTAAGGTTTTAGGATTTTAGGTTTTAGA
* * *
8174973 GTTTTGAGGTTTCAAGG-TTTAAGGTTTTACGA
1 GTTTTAAGGTTT-TAGGATTTTAGGTTTTA-GA
* * ** *
8175005 -TTTTGA-GTTTTAAGG-TTTTAGAATTTCGGG
1 GTTTTAAGGTTTT-AGGATTTTAG-GTTTTAGA
* *
8175035 GTTTTAAGG-TTTA-GAGTTTTAGAATTTTAAA
1 GTTTTAAGGTTTTAGGA-TTTTAG-GTTTTAGA
* ** *
8175066 GTTTTGATTTTTTAGGATTTCAAGGTTTTA-A
1 GTTTTAAGGTTTTAGGATTT-TAGGTTTTAGA
* *
8175097 GGTTTAGGGTTTTAG
1 GTTTTAAGGTTTTAG
8175112 AGCTTCGAGG
Statistics
Matches: 104, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
29 1 0.01
30 14 0.13
31 67 0.64
32 18 0.17
33 4 0.04
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.49
Consensus pattern (31 bp):
GTTTTAAGGTTTTAGGATTTTAGGTTTTAGA
Found at i:8175055 original size:8 final size:8
Alignment explanation
Indices: 8174950--8175070 Score: 53
Period size: 8 Copynumber: 15.6 Consensus size: 8
8174940 GGGTTTTAAG
8174950 GTTTTAG-
1 GTTTTAGA
8174957 GATTTTAG-
1 G-TTTTAGA
8174965 GTTTTAGA
1 GTTTTAGA
8174973 GTTTT-GA
1 GTTTTAGA
*
8174980 GGTTTCA-A
1 -GTTTTAGA
*
8174988 GGTTTA-A
1 GTTTTAGA
8174995 GGTTTTACGA
1 -GTTTTA-GA
8175005 -TTTT-GA
1 GTTTTAGA
8175011 GTTTTA-A
1 GTTTTAGA
8175018 GGTTTTAGA
1 -GTTTTAGA
* ** *
8175027 ATTTCGGG
1 GTTTTAGA
8175035 GTTTTA-A
1 GTTTTAGA
*
8175042 GGTTTAGA
1 GTTTTAGA
8175050 GTTTTAGA
1 GTTTTAGA
* *
8175058 ATTTTAAA
1 GTTTTAGA
8175066 GTTTT
1 GTTTT
8175071 GATTTTTTAG
Statistics
Matches: 85, Mismatches: 17, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
6 2 0.02
7 24 0.28
8 57 0.67
9 1 0.01
10 1 0.01
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (8 bp):
GTTTTAGA
Found at i:8175094 original size:16 final size:16
Alignment explanation
Indices: 8175075--8175132 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
8175065 AGTTTTGATT
8175075 TTTTAGGATTTCAAGG
1 TTTTAGGATTTCAAGG
*
8175091 TTTTAAGG-TTT-AGGG
1 TTTT-AGGATTTCAAGG
* *
8175106 TTTTA-GAGCTTCGAGG
1 TTTTAGGA-TTTCAAGG
8175122 TTTTAGGATTT
1 TTTTAGGATTT
8175133 TGGGGCTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
13 1 0.03
14 1 0.03
15 9 0.28
16 16 0.50
17 5 0.16
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.47
Consensus pattern (16 bp):
TTTTAGGATTTCAAGG
Found at i:8175455 original size:3 final size:3
Alignment explanation
Indices: 8175447--8175487 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
8175437 CAATTTTGTT
*
8175447 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8175488 TGTTTGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8175546 original size:20 final size:21
Alignment explanation
Indices: 8175513--8175551 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8175503 TATATTTATT
*
8175513 TTATTATTTTAATTTTTAAAA
1 TTATTATTTAAATTTTTAAAA
8175534 TTATT-TTTAAATTTTTAA
1 TTATTATTTAAATTTTTAA
8175552 TTTCTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATTATTTAAATTTTTAAAA
Found at i:8187126 original size:31 final size:32
Alignment explanation
Indices: 8187067--8187126 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
8187057 ATATTTGTAT
**
8187067 TATATTTTATATAAAAATTATATTTTATAATA
1 TATATTTTATATAAAAATTATACATTATAATA
* *
8187099 TATATTTT-TATTAAAATTTTACATTATA
1 TATATTTTATATAAAAATTATACATTATA
8187127 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 16 0.67
32 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (32 bp):
TATATTTTATATAAAAATTATACATTATAATA
Found at i:8190081 original size:2 final size:2
Alignment explanation
Indices: 8190074--8190098 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8190064 GCATTGTCAC
8190074 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8190099 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8190842 original size:2 final size:2
Alignment explanation
Indices: 8190835--8190860 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8190825 TTTCTATGCA
8190835 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
8190861 GCTTCCAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8196321 original size:12 final size:12
Alignment explanation
Indices: 8196304--8196328 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8196294 ATCAATCTGA
8196304 AAAAATAATTTT
1 AAAAATAATTTT
8196316 AAAAATAATTTT
1 AAAAATAATTTT
8196328 A
1 A
8196329 GTTTGTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAATAATTTT
Found at i:8198955 original size:19 final size:19
Alignment explanation
Indices: 8198915--8198968 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
8198905 GTATTTTAAT
*
8198915 ATTTT-TATTTAAT-AAAA
1 ATTTTATATATAATAAAAA
8198932 A-TTTATATATAATAAAAA
1 ATTTTATATATAATAAAAA
* *
8198950 ATTTTAAATAAAATAAAAA
1 ATTTTATATATAATAAAAA
8198969 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 3 0.10
17 8 0.26
18 5 0.16
19 15 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTTATATATAATAAAAA
Found at i:8198969 original size:18 final size:18
Alignment explanation
Indices: 8198925--8198970 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
8198915 ATTTTTATTT
* *
8198925 AATAAAAA-TTTATATAT
1 AATAAAAATTTTAAATAA
8198942 AATAAAAAATTTTAAATAA
1 AAT-AAAAATTTTAAATAA
8198961 AATAAAAATT
1 AATAAAAATT
8198971 AAACTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 12 0.48
19 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAAAATTTTAAATAA
Found at i:8200749 original size:18 final size:18
Alignment explanation
Indices: 8200713--8200751 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8200703 GGAGTATGTT
*
8200713 GTTTAGGTAAGGTCTCTA
1 GTTTAGGTAAGCTCTCTA
8200731 GTTTAGGTAAAGCTC-CTA
1 GTTTAGGT-AAGCTCTCTA
8200749 GTT
1 GTT
8200752 CTCATGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (18 bp):
GTTTAGGTAAGCTCTCTA
Found at i:8205232 original size:152 final size:152
Alignment explanation
Indices: 8205066--8205371 Score: 576
Period size: 152 Copynumber: 2.0 Consensus size: 152
8205056 TATAAATTGT
*
8205066 TTTGGTAAATTTGTTCTCATTACTTTTATCATATATATAGCAAATTTTTATCCAAAATTGTATAA
1 TTTGGTAAATTTGTTCTCATTACTTTTATCATATATATAACAAATTTTTATCCAAAATTGTATAA
* *
8205131 TTAAAAATAGAAACATAAGACAAAGTTTATTACTTCTATTAGTGATAGAATACTTTAAAATTTTT
66 TTAAAAATAGAAACATAAGACAAAATTTATTACTTCTATTAGTGATAAAATACTTTAAAATTTTT
8205196 AATCTTTTAAATGCAATTGTAC
131 AATCTTTTAAATGCAATTGTAC
8205218 TTTGGTAAATTTGTTCTCATTACTTTTATCATATATATAACAAATTTTTATCCAAAATTGTATAA
1 TTTGGTAAATTTGTTCTCATTACTTTTATCATATATATAACAAATTTTTATCCAAAATTGTATAA
*
8205283 TTAAAAATAGAAACATAAGACAAAATTTATTACTTCTATTAGTGATAAAATGCTTTAAAATTTTT
66 TTAAAAATAGAAACATAAGACAAAATTTATTACTTCTATTAGTGATAAAATACTTTAAAATTTTT
8205348 AATCTTTTAAATGCAATTGTAC
131 AATCTTTTAAATGCAATTGTAC
8205370 TT
1 TT
8205372 CACTAACAAG
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (152 bp):
TTTGGTAAATTTGTTCTCATTACTTTTATCATATATATAACAAATTTTTATCCAAAATTGTATAA
TTAAAAATAGAAACATAAGACAAAATTTATTACTTCTATTAGTGATAAAATACTTTAAAATTTTT
AATCTTTTAAATGCAATTGTAC
Found at i:8205801 original size:22 final size:22
Alignment explanation
Indices: 8205776--8205820 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8205766 AAATATAATA
8205776 AGTACAAAATTA-TCGATAACTT
1 AGTACAAAATTAGT-GATAACTT
**
8205798 AGTATTAAATTAGTGATAACTT
1 AGTACAAAATTAGTGATAACTT
8205820 A
1 A
8205821 ATAGTAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
AGTACAAAATTAGTGATAACTT
Found at i:8205828 original size:22 final size:22
Alignment explanation
Indices: 8205782--8205829 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8205772 AATAAGTACA
* *
8205782 AAATTATCGATAACTTAGTATT
1 AAATTATCGATAACTTAATAGT
8205804 AAATTAGT-GATAACTTAATAGT
1 AAATTA-TCGATAACTTAATAGT
8205826 AAAT
1 AAAT
8205830 GATAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (22 bp):
AAATTATCGATAACTTAATAGT
Found at i:8205834 original size:18 final size:18
Alignment explanation
Indices: 8205811--8205847 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8205801 ATTAAATTAG
8205811 TGATAACTTAATAGTAAA
1 TGATAACTTAATAGTAAA
**
8205829 TGATAACTTTTTAGTAAA
1 TGATAACTTAATAGTAAA
8205847 T
1 T
8205848 CAATAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (18 bp):
TGATAACTTAATAGTAAA
Found at i:8205875 original size:22 final size:22
Alignment explanation
Indices: 8205850--8205935 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
8205840 TAGTAAATCA
*
8205850 ATAATAATATAATAATATATGC
1 ATAATAATATAATAATAAATGC
* * **
8205872 ATAATACCT-TAATGATAAATTA
1 ATAATA-ATATAATAATAAATGC
* * *
8205894 ATTATAATATAGTAGTAAATGC
1 ATAATAATATAATAATAAATGC
* *
8205916 ATAATAATATAGTATTAAAT
1 ATAATAATATAATAATAAAT
8205936 CAAGGATAAC
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 1 0.02
22 46 0.96
23 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAATAATATAATAATAAATGC
Found at i:8206009 original size:22 final size:22
Alignment explanation
Indices: 8205984--8206044 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
8205974 TTAATTATTG
*
8205984 ATAACTTAGTAATAAATAAATA
1 ATAACTTAATAATAAATAAATA
* * *
8206006 ATAACTTAATAGTAAATTAGTA
1 ATAACTTAATAATAAATAAATA
* *
8206028 ATAATTTAATAGTAAAT
1 ATAACTTAATAATAAAT
8206045 TTGTTTTAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAATAAATAAATA
Found at i:8206016 original size:11 final size:11
Alignment explanation
Indices: 8205993--8206045 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
8205983 GATAACTTAG
*
8205993 TAATAAATAAA
1 TAATAAATTAA
*
8206004 TAATAACTTAA
1 TAATAAATTAA
* *
8206015 TAGTAAATTAG
1 TAATAAATTAA
*
8206026 TAATAATTTAA
1 TAATAAATTAA
*
8206037 TAGTAAATT
1 TAATAAATT
8206046 TGTTTTAGTT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:8206045 original size:22 final size:22
Alignment explanation
Indices: 8206004--8206501 Score: 120
Period size: 22 Copynumber: 23.0 Consensus size: 22
8205994 AATAAATAAA
*
8206004 TAATAACTTAATAGTAAATTAG
1 TAATAATTTAATAGTAAATTAG
*
8206026 TAATAATTTAATAGTAAATTTG
1 TAATAATTTAATAGTAAATTAG
** *
8206048 TTTTAGTTTAATAGT-AATTA-
1 TAATAATTTAATAGTAAATTAG
* *
8206068 -ATTGA--TAATAGTAAATTA-
1 TAATAATTTAATAGTAAATTAG
* * ** *
8206086 TAAATAATTTAGTAATAAACCAA
1 T-AATAATTTAATAGTAAATTAG
** * * * *
8206109 TGGTAAATTAGTAGTAAATAAT
1 TAATAATTTAATAGTAAATTAG
* * *
8206131 TAATAATTTAGTAGTCAA-TCG
1 TAATAATTTAATAGTAAATTAG
* *
8206152 TTGAA-AACTTAAAAGTAAATTAG
1 -T-AATAATTTAATAGTAAATTAG
* ** *
8206175 T-ATAACTTAGCAGTAAATCA-
1 TAATAATTTAATAGTAAATTAG
* ** * *
8206195 TCGATAACATAATAGTTAATCAG
1 T-AATAATTTAATAGTAAATTAG
* * * *
8206218 TGATGAGTTAATAATAAATTATG
1 TAATAATTTAATAGTAAATTA-G
8206241 T-ATAATTTAATA-TAAATCTA-
1 TAATAATTTAATAGTAAAT-TAG
* ** * *
8206261 TAATAACTTGGTAGTGAATCA-
1 TAATAATTTAATAGTAAATTAG
* *
8206282 TAGATAATTTAGTGGTAAATT-G
1 TA-ATAATTTAATAGTAAATTAG
* ** *
8206304 ATGATAATTTTGTAGTAAA-TAA
1 -TAATAATTTAATAGTAAATTAG
* * * * *
8206326 TAAAAAATTATGTAGTAAATCAA
1 TAATAATTTA-ATAGTAAATTAG
* **
8206349 TGATAACATAATAGTAAATATA-
1 TAATAATTTAATAGTAAAT-TAG
* * * * *
8206371 TAAAAAATATAATAATAAATCAA
1 T-AATAATTTAATAGTAAATTAG
*
8206394 TGATAATTTAATAGTAAATTA-
1 TAATAATTTAATAGTAAATTAG
* * *
8206415 -AA-AATTTAACAGTAAATCAC
1 TAATAATTTAATAGTAAATTAG
**
8206435 TAATAACGTAATAGTAAATT-G
1 TAATAATTTAATAGTAAATTAG
* *
8206456 CTAATAATTTACTTGTAAATTAG
1 -TAATAATTTAATAGTAAATTAG
*
8206479 TGATAATTTAATAGTAAATTAG
1 TAATAATTTAATAGTAAATTAG
8206501 T
1 T
8206502 TAATCATTGA
Statistics
Matches: 346, Mismatches: 99, Indels: 62
0.68 0.20 0.12
Matches are distributed among these distances:
17 7 0.02
18 5 0.01
19 17 0.05
20 7 0.02
21 43 0.12
22 233 0.67
23 34 0.10
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (22 bp):
TAATAATTTAATAGTAAATTAG
Found at i:8206266 original size:21 final size:22
Alignment explanation
Indices: 8206225--8206266 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
8206215 CAGTGATGAG
*
8206225 TTAATAATAAATTATGTATAAT
1 TTAATAATAAATTATGAATAAT
8206247 TTAAT-ATAAATCTAT-AATAA
1 TTAATAATAAAT-TATGAATAA
8206267 CTTGGTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAATAATAAATTATGAATAAT
Found at i:8206702 original size:44 final size:44
Alignment explanation
Indices: 8206610--8206732 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
8206600 AATTTAATAA
* * * * * * *
8206610 AAATCATTCATAACTTAAAAATAAATCATTTATAAATTAGTAGC
1 AAATAATTAATAACTTAATAGTAAATAATTGATAAATTAGTAAC
* * * *
8206654 AAATAATTGATAA-TCTAATAGTAAATTATTGATAATTTAGTAAT
1 AAATAATTAATAACT-TAATAGTAAATAATTGATAAATTAGTAAC
* *
8206698 AAATAATTAATAACTTAATTGTCAATAATTGATAA
1 AAATAATTAATAACTTAATAGTAAATAATTGATAA
8206733 CTTTTTATAC
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 62 0.97
45 1 0.02
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (44 bp):
AAATAATTAATAACTTAATAGTAAATAATTGATAAATTAGTAAC
Found at i:8206733 original size:22 final size:22
Alignment explanation
Indices: 8206498--8206735 Score: 99
Period size: 22 Copynumber: 10.9 Consensus size: 22
8206488 AATAGTAAAT
* * **
8206498 TAGTTAATCATTGATAACTTTT
1 TAGTAAATAATTGATAACTTAA
* * *
8206520 TAGTAAATCATTGATAAATTAG
1 TAGTAAATAATTGATAACTTAA
* *
8206542 TAGTAAATCAATT-ATAAATTTA
1 TAGTAAAT-AATTGATAACTTAA
* * **
8206564 TAAT-AATTATCAATAACTTAA
1 TAGTAAATAATTGATAACTTAA
* ** * *
8206585 T-GATAAATTATCAACAATTTAA
1 TAG-TAAATAATTGATAACTTAA
* * *
8206607 TA-AAAATCATTCATAACTTAA
1 TAGTAAATAATTGATAACTTAA
* * * * * *
8206628 AAATAAATCATTTATAAATTAG
1 TAGTAAATAATTGATAACTTAA
*
8206650 TAGCAAATAATTGATAA-TCTAA
1 TAGTAAATAATTGATAACT-TAA
* * *
8206672 TAGTAAATTATTGATAATTTAG
1 TAGTAAATAATTGATAACTTAA
* *
8206694 TAATAAATAATTAATAACTTAA
1 TAGTAAATAATTGATAACTTAA
* *
8206716 TTGTCAATAATTGATAACTT
1 TAGTAAATAATTGATAACTT
8206736 TTTATACTTG
Statistics
Matches: 164, Mismatches: 44, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.01
21 27 0.16
22 131 0.80
23 4 0.02
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.39
Consensus pattern (22 bp):
TAGTAAATAATTGATAACTTAA
Found at i:8207053 original size:22 final size:22
Alignment explanation
Indices: 8206973--8207090 Score: 96
Period size: 22 Copynumber: 5.4 Consensus size: 22
8206963 AACAATATAT
** *
8206973 TAATAAATCAATGATAGGTTAC
1 TAATAAATCAATGATAACTTAA
* *
8206995 TAA-AAACTAAATGATAACTTAG
1 TAATAAA-TCAATGATAACTTAA
* * *
8207017 TAGCT-AATTATTGATAACTTAA
1 TA-ATAAATCAATGATAACTTAA
8207039 TAATAAATCAATGATAACTTAA
1 TAATAAATCAATGATAACTTAA
* * *
8207061 TAGTAAATTAATGATAATTTAA
1 TAATAAATCAATGATAACTTAA
*
8207083 TAGTAAAT
1 TAATAAAT
8207091 TGGTTTCAGT
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.05
22 72 0.92
23 2 0.03
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
TAATAAATCAATGATAACTTAA
Found at i:8207055 original size:11 final size:11
Alignment explanation
Indices: 8207022--8207083 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
8207012 CTTAGTAGCT
*
8207022 AATTATTGATA
1 AATTAATGATA
* *
8207033 ACTTAATAATA
1 AATTAATGATA
*
8207044 AATCAATGATA
1 AATTAATGATA
*
8207055 ACTTAAT-AGTA
1 AATTAATGA-TA
8207066 AATTAATGATA
1 AATTAATGATA
*
8207077 ATTTAAT
1 AATTAAT
8207084 AGTAAATTGG
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
10 1 0.03
11 37 0.95
12 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (11 bp):
AATTAATGATA
Found at i:8207091 original size:22 final size:22
Alignment explanation
Indices: 8207004--8207175 Score: 120
Period size: 22 Copynumber: 7.8 Consensus size: 22
8206994 CTAAAAACTA
*
8207004 AATGATAACTTAGTAGCT-AATT
1 AATGATAACTTAATAG-TAAATT
* * *
8207026 ATTGATAACTTAATAATAAATC
1 AATGATAACTTAATAGTAAATT
8207048 AATGATAACTTAATAGTAAATT
1 AATGATAACTTAATAGTAAATT
*
8207070 AATGATAATTTAATAGTAAATT
1 AATGATAACTTAATAGTAAATT
** * ** *
8207092 GGT-TTCAGTTTAGTAGT-AATT
1 AATGAT-AACTTAATAGTAAATT
* *
8207113 AATTGATAAATTTATTAGTAAATCAT
1 AA-TGAT-AACTTAATAGTAAAT--T
*
8207139 AA--ATAACTTAGTAGTAAATT
1 AATGATAACTTAATAGTAAATT
*
8207159 AATGATAATTTAATAGT
1 AATGATAACTTAATAGT
8207176 TAATCATTTA
Statistics
Matches: 118, Mismatches: 23, Indels: 18
0.74 0.14 0.11
Matches are distributed among these distances:
20 3 0.03
21 6 0.05
22 91 0.77
23 12 0.10
24 3 0.03
26 3 0.03
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.40
Consensus pattern (22 bp):
AATGATAACTTAATAGTAAATT
Found at i:8207156 original size:89 final size:88
Alignment explanation
Indices: 8207013--8207175 Score: 240
Period size: 89 Copynumber: 1.8 Consensus size: 88
8207003 AAATGATAAC
*
8207013 TTAGTAGCTAATTATTGATAACTTAATAATAAATCAATGATAACTTAATAGTAAATTAATGATAA
1 TTAGTAGCTAATTATTGATAACTTAATAATAAATCAATAATAACTTAATAGTAAATTAATGATAA
8207078 TTTAATAGTAAATTGGTTTCAGT
66 TTTAATAGTAAATTGGTTTCAGT
* * * *
8207101 TTAGTAG-TAATTAATTGATAAATTTATTAGTAAATC-ATAAATAACTTAGTAGTAAATTAATGA
1 TTAGTAGCTAATT-ATTGAT-AACTTAATAATAAATCAAT-AATAACTTAATAGTAAATTAATGA
8207164 TAATTTAATAGT
63 TAATTTAATAGT
8207176 TAATCATTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
87 5 0.07
88 15 0.22
89 47 0.70
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (88 bp):
TTAGTAGCTAATTATTGATAACTTAATAATAAATCAATAATAACTTAATAGTAAATTAATGATAA
TTTAATAGTAAATTGGTTTCAGT
Found at i:8207191 original size:44 final size:44
Alignment explanation
Indices: 8207010--8207219 Score: 160
Period size: 44 Copynumber: 4.8 Consensus size: 44
8207000 ACTAAATGAT
* * * * * *
8207010 AACTTAGTAGCT-AATTATTGATAACTTAATAATAAATCAATGAT
1 AACTTAGTAG-TAAATTAATGATAATTTAATAGTAAATCATTTAA
* ** *
8207054 AACTTAATAGTAAATTAATGATAATTTAATAGTAAATTGGTTT-C
1 AACTTAGTAGTAAATTAATGATAATTTAATAGTAAA-TCATTTAA
** * *
8207098 AGTTTAGTAGT-AATTAATTGATAAATTTATTAGTAAATCA-TAAA
1 AACTTAGTAGTAAATTAA-TGAT-AATTTAATAGTAAATCATTTAA
*
8207142 TAACTTAGTAGTAAATTAATGATAATTTAATAGTTAATCATTTAA
1 -AACTTAGTAGTAAATTAATGATAATTTAATAGTAAATCATTTAA
** ** *
8207187 AACTTAAAAGTAAAACAAT-ATAATTTAGTAGTA
1 AACTTAGTAGTAAATTAATGATAATTTAATAGTA
8207220 GTTAATCATC
Statistics
Matches: 130, Mismatches: 28, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
43 20 0.15
44 73 0.56
45 31 0.24
46 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (44 bp):
AACTTAGTAGTAAATTAATGATAATTTAATAGTAAATCATTTAA
Found at i:8207237 original size:46 final size:44
Alignment explanation
Indices: 8207116--8207239 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
8207106 AGTAATTAAT
* * ** **
8207116 TGATAAATTTATTAGTAAATCATAAATAACTTAGTAGTAAATTAA
1 TGAT-AATTTAATAGTTAATCATAAATAACTTAAAAGTAAAACAA
*
8207161 TGATAATTTAATAGTTAATCATTTAA-AACTTAAAAGTAAAACAA
1 TGATAATTTAATAGTTAATCA-TAAATAACTTAAAAGTAAAACAA
*
8207205 T-ATAATTTAGTAGTAGTTAATCATCAATAACTTAA
1 TGATAATTTA--A-TAGTTAATCATAAATAACTTAA
8207240 TATTTAAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
43 8 0.12
44 30 0.45
45 11 0.17
46 17 0.26
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (44 bp):
TGATAATTTAATAGTTAATCATAAATAACTTAAAAGTAAAACAA
Found at i:8207711 original size:22 final size:22
Alignment explanation
Indices: 8207568--8207708 Score: 138
Period size: 22 Copynumber: 6.4 Consensus size: 22
8207558 AATTAGTAAC
* **
8207568 TTAGTAATAAATCATCAATAAT
1 TTAGTAGTAAATCATTGATAAT
*
8207590 TTAGTAGTAAATCATTCATAAT
1 TTAGTAGTAAATCATTGATAAT
* *
8207612 TTAGTAGTAAATCATTCATAAA
1 TTAGTAGTAAATCATTGATAAT
* * * *
8207634 TTAATAATAAATCAATGTTAAT
1 TTAGTAGTAAATCATTGATAAT
* **
8207656 TTAGTAATATTTCATTGATAAT
1 TTAGTAGTAAATCATTGATAAT
* * *
8207678 TTAGAAGTATATCATTGATAGT
1 TTAGTAGTAAATCATTGATAAT
8207700 TTAGTAGTA
1 TTAGTAGTA
8207709 TATTGTTGAT
Statistics
Matches: 99, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 99 1.00
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (22 bp):
TTAGTAGTAAATCATTGATAAT
Found at i:8208087 original size:21 final size:21
Alignment explanation
Indices: 8208056--8208114 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
8208046 AAAAGGTTAA
*
8208056 TTACTAAAATTATATCAA-GAG
1 TTACCAAAATTATATCAATG-G
* *
8208077 ATTACC-AAATTTTATTAATGG
1 -TTACCAAAATTATATCAATGG
8208098 TTACCAAAATTATATCA
1 TTACCAAAATTATATCA
8208115 TAAGTTATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
TTACCAAAATTATATCAATGG
Found at i:8208121 original size:21 final size:21
Alignment explanation
Indices: 8208056--8208126 Score: 51
Period size: 21 Copynumber: 3.4 Consensus size: 21
8208046 AAAAGGTTAA
*
8208056 TTACTAAAATTATATCA-AGAG
1 TTACCAAAATTATATCATA-AG
*
8208077 ATTACC-AAATTTTAT--TAATGG
1 -TTACCAAAATTATATCATAA--G
8208098 TTACCAAAATTATATCATAAG
1 TTACCAAAATTATATCATAAG
*
8208119 TTATCAAA
1 TTACCAAA
8208127 CTAACATTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
19 1 0.03
20 6 0.15
21 25 0.64
22 4 0.10
23 3 0.08
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (21 bp):
TTACCAAAATTATATCATAAG
Found at i:8213131 original size:6 final size:6
Alignment explanation
Indices: 8213120--8213144 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8213110 AATCTAATAA
8213120 ATAAAT ATAAAT ATAAAT ATAAAT A
1 ATAAAT ATAAAT ATAAAT ATAAAT A
8213145 AACGAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAAAT
Found at i:8218155 original size:19 final size:17
Alignment explanation
Indices: 8218115--8218157 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
8218105 TTTTTTTGTT
*
8218115 TTTTTTTAATATTAATA
1 TTTTTTTAATATTAAAA
*
8218132 GTTTTTTACATATTTAAAA
1 TTTTTTTA-ATA-TTAAAA
8218151 TTTTTTT
1 TTTTTTT
8218158 GTATTAGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 3 0.14
19 11 0.52
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTTTTAATATTAAAA
Found at i:8225090 original size:2 final size:2
Alignment explanation
Indices: 8225077--8225107 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8225067 ACAGATAAAA
*
8225077 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8225108 GACGGTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8235399 original size:71 final size:71
Alignment explanation
Indices: 8235293--8235428 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 71
8235283 ATTCTTTTAA
* *
8235293 AAAAAAAATCAAACCCAAAAAAACCTTTGCAGAGAAATTTCTAAAAAGAATCAAA-CTAAAAAAA
1 AAAAAAAATCAAACCCAAAAAAACCCTTACAGAGAAATTTCTAAAAAGAATCAAACCTAAAAAAA
8235357 AATCCC
66 AATCCC
* * *
8235363 AAAAAGAATCAAACCCAGAAAAAACCCTTACTGAGAAATTTCTAAAAAGAATCAAACCTAGAAAA
1 AAAAAAAATCAAACCCA-AAAAAACCCTTACAGAGAAATTTCTAAAAAGAATCAAACCTAAAAAA
8235428 A
65 A
8235429 CCCTAGTTGA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 16 0.27
71 35 0.59
72 8 0.14
ACGTcount: A:0.59, C:0.18, G:0.07, T:0.15
Consensus pattern (71 bp):
AAAAAAAATCAAACCCAAAAAAACCCTTACAGAGAAATTTCTAAAAAGAATCAAACCTAAAAAAA
AATCCC
Found at i:8238871 original size:29 final size:28
Alignment explanation
Indices: 8238797--8238878 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 28
8238787 AAATTAATAA
8238797 TATTAAAACTAATTTAATAAG-TA-TAT
1 TATTAAAACTAATTTAATAAGTTATTAT
*
8238823 CATTAAAACTAATTTAATAAGTCTATTAT
1 TATTAAAACTAATTTAATAAGT-TATTAT
* *
8238852 TATTTAAACTAATTTTATAAGTATATT
1 TATTAAAACTAATTTAATAAGT-TATT
8238879 TTGTCATTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 20 0.42
28 2 0.04
29 26 0.54
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (28 bp):
TATTAAAACTAATTTAATAAGTTATTAT
Found at i:8238878 original size:26 final size:26
Alignment explanation
Indices: 8238797--8238878 Score: 110
Period size: 26 Copynumber: 3.0 Consensus size: 26
8238787 AAATTAATAA
8238797 TATTAAAACTAATTTAATAAGTATAT
1 TATTAAAACTAATTTAATAAGTATAT
*
8238823 CATTAAAACTAATTTAATAAGTCTATTAT
1 TATTAAAACTAATTTAATAAG--TA-TAT
* *
8238852 TATTTAAACTAATTTTATAAGTATAT
1 TATTAAAACTAATTTAATAAGTATAT
8238878 T
1 T
8238879 TTGTCATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 24 0.49
27 2 0.04
28 2 0.04
29 21 0.43
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
TATTAAAACTAATTTAATAAGTATAT
Found at i:8242039 original size:17 final size:17
Alignment explanation
Indices: 8242019--8242051 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8242009 CAAAATATTA
8242019 AAATTAAAAAAAATAAT
1 AAATTAAAAAAAATAAT
*
8242036 AAATTAATAAAAATAA
1 AAATTAAAAAAAATAA
8242052 ATTAGGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATTAAAAAAAATAAT
Found at i:8242573 original size:27 final size:27
Alignment explanation
Indices: 8242524--8242575 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
8242514 GCATGAAATA
* *
8242524 TGAAATTTATGTTTAAGAATTGTAATT
1 TGAAATTTATGTATAACAATTGTAATT
*
8242551 TGAAATTTATGTATAACATTTGTAA
1 TGAAATTTATGTATAACAATTGTAA
8242576 AGGGTCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.46
Consensus pattern (27 bp):
TGAAATTTATGTATAACAATTGTAATT
Found at i:8244464 original size:26 final size:23
Alignment explanation
Indices: 8244410--8244464 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 23
8244400 TGGAGCATAC
8244410 AAAAAAAAAAAAAAGAAACGAGAA
1 AAAAAAAAAAAAAAGAAACGA-AA
* * *
8244434 CAAAAATAAAGAAAATGAAATGAAA
1 -AAAAA-AAAAAAAAAGAAACGAAA
8244459 AAAAAA
1 AAAAAA
8244465 TGAAAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 5 0.19
25 7 0.27
26 13 0.50
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.05
Consensus pattern (23 bp):
AAAAAAAAAAAAAAGAAACGAAA
Found at i:8245585 original size:71 final size:70
Alignment explanation
Indices: 8245474--8245818 Score: 356
Period size: 71 Copynumber: 4.9 Consensus size: 70
8245464 TCTAGGTTAA
* ** * *
8245474 ATATAGATCATTAATTTGAATGTTACATTTGCATTATTGTTTCAACCATGCATTTGCATCATTTG
1 ATATGGATCATTGTTTTGAATGTTACATTTACATTATTGTTT-AACCATGCATTTGCATTATTTG
8245539 GTAAGT
65 GTAAGT
* *
8245545 ATATGGATCATTGTTTTGAATGTTACATTTACATTGTTGTTTGAACCATGTATTTGCATTATTTG
1 ATATGGATCATTGTTTTGAATGTTACATTTACATTATTGTTT-AACCATGCATTTGCATTATTTG
*
8245610 GTGAGT
65 GTAAGT
* * * *
8245616 ATATGGATCATTGTTTTGAATGTTGCATTTGCATTGTTGTTTAAACCATGCATTTACATTATTTG
1 ATATGGATCATTGTTTTGAATGTTACATTTACATTATTGTTT-AACCATGCATTTGCATTATTTG
8245681 GTAAGT
65 GTAAGT
* * * * * * *
8245687 ATAAGGATCATTGTTTTGAATATTGCATTTACATCATCG-TT-ATCATTCATTTGCA-TATTTGG
1 ATATGGATCATTGTTTTGAATGTTACATTTACATTATTGTTTAACCATGCATTTGCATTATTTGG
8245749 TAAGT
66 TAAGT
** * * * ** * * *
8245754 ATATACATTATTGTTTTGAAAGATGTATTTGCATCTA-TGTTTGGACCATGCATTTACATTATTT
1 ATATGGATCATTGTTTTGAATGTTACATTTACAT-TATTGTTT-AACCATGCATTTGCATTATTT
8245818 G
64 G
8245819 AAGAATATTT
Statistics
Matches: 231, Mismatches: 38, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
67 38 0.16
68 14 0.06
70 13 0.06
71 166 0.72
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.46
Consensus pattern (70 bp):
ATATGGATCATTGTTTTGAATGTTACATTTACATTATTGTTTAACCATGCATTTGCATTATTTGG
TAAGT
Found at i:8245839 original size:138 final size:139
Alignment explanation
Indices: 8245499--8245860 Score: 335
Period size: 138 Copynumber: 2.6 Consensus size: 139
8245489 TTGAATGTTA
* * * * *
8245499 CATTTGCATT-ATTGTTTCAACCATGCATTTGCATCATTTGGTAAGTATATGGATCATTGTTTTG
1 CATTTGCATTGA-TGTTTAAACCATGCATTTACATTATTTGGTAAGTATAAGAATCATTGTTTTG
* * ** * * * **
8245563 A-ATGTTACATTTACATTGTTGTTTGAACCATGT-ATTTGCATTATTTGGTGAGTATATGGATCA
65 ATA-ATTGCATTTACATCATCG-TT--ATCAT-TCATTTGCATTATTTGGTAAGTATATACATCA
* *
8245626 TTGTTTTGAATGTTG
125 TTGTTTTGAAAGATG
* *
8245641 CATTTGCATTGTTGTTTAAACCATGCATTTACATTATTTGGTAAGTATAAGGATCATTGTTTTGA
1 CATTTGCATTGATGTTTAAACCATGCATTTACATTATTTGGTAAGTATAAGAATCATTGTTTTGA
*
8245706 -ATATTGCATTTACATCATCGTTATCATTCATTTGCA-TATTTGGTAAGTATATACATTATTGTT
66 TA-ATTGCATTTACATCATCGTTATCATTCATTTGCATTATTTGGTAAGTATATACATCATTGTT
8245769 TTGAAAGATG
130 TTGAAAGATG
* ** ** **
8245779 TATTTGCATCT-ATGTTTGGACCATGCATTTACATTATTT-G-AAGAATATTTGAATTTTTGTTT
1 CATTTGCAT-TGATGTTTAAACCATGCATTTACATTATTTGGTAAG--TATAAGAATCATTGTTT
*
8245841 TGATAATTGCATTTGCATCA
63 TGATAATTGCATTTACATCA
8245861 AGGTTTGGAC
Statistics
Matches: 187, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
136 3 0.02
137 1 0.01
138 94 0.50
139 13 0.07
141 2 0.01
142 74 0.40
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.46
Consensus pattern (139 bp):
CATTTGCATTGATGTTTAAACCATGCATTTACATTATTTGGTAAGTATAAGAATCATTGTTTTGA
TAATTGCATTTACATCATCGTTATCATTCATTTGCATTATTTGGTAAGTATATACATCATTGTTT
TGAAAGATG
Found at i:8246020 original size:20 final size:19
Alignment explanation
Indices: 8245973--8246022 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
8245963 AGAATCTGAA
*
8245973 TTATTGCATTTGCATCATT
1 TTATGGCATTTGCATCATT
* *
8245992 TATAAGGCATTTGCATTATT
1 T-TATGGCATTTGCATCATT
8246012 CTTATGGCATT
1 -TTATGGCATT
8246023 CATTGCATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (19 bp):
TTATGGCATTTGCATCATT
Found at i:8246151 original size:39 final size:38
Alignment explanation
Indices: 8246109--8246267 Score: 144
Period size: 39 Copynumber: 4.1 Consensus size: 38
8246099 AAATGGAAAT
* * *
8246109 TTTTCAACATGAGA-TTTAAATCCTTAAATGAGGAAAGC
1 TTTTCAAGATGAGATTTTGAATCCTT-AATGAGGAAAAC
* *
8246147 TTTTTAAAAT-ATGATTTTGAATCCTCTAATGAGGAAAAC
1 TTTTCAAGATGA-GATTTTGAATCCT-TAATGAGGAAAAC
* * *
8246186 TTTTCAAGGTAAGATTTTGATTCCTTGAATGAGGAAAAC
1 TTTTCAAGATGAGATTTTGAATCCTT-AATGAGGAAAAC
* * *
8246225 TTTTCTAGATGAGATTTTG-ACCCATTGAATGAGAAAAAC
1 TTTTCAAGATGAGATTTTGAATCC-TT-AATGAGGAAAAC
8246264 TTTT
1 TTTT
8246268 TTCGGAGGAG
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
37 1 0.01
38 13 0.13
39 85 0.84
40 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (38 bp):
TTTTCAAGATGAGATTTTGAATCCTTAATGAGGAAAAC
Found at i:8246293 original size:40 final size:38
Alignment explanation
Indices: 8246174--8246294 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 38
8246164 TGAATCCTCT
*
8246174 AATGAGGAAAACTTTTC-A-AGGTAAGATTTTGATTCCTTG
1 AATGAGAAAAACTTTTCTAGAGG--AGATTTTGATT-CTTG
* * **
8246213 AATGAGGAAAACTTTTCTAGATGAGATTTTGACCCATTG
1 AATGAGAAAAACTTTTCTAGAGGAGATTTTGATTC-TTG
* *
8246252 AATGAGAAAAACTTTTTTCGGAGGAGATTTTGAATTCTTG
1 AATGAGAAAAACTTTTCT-AGAGGAGATTTTG-ATTCTTG
8246292 AAT
1 AAT
8246295 AAAACTTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
38 1 0.01
39 45 0.66
40 18 0.26
41 4 0.06
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (38 bp):
AATGAGAAAAACTTTTCTAGAGGAGATTTTGATTCTTG
Found at i:8246385 original size:43 final size:42
Alignment explanation
Indices: 8246341--8246438 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 42
8246331 AAAATGAGCT
8246341 TTTTATATTTTTCAAAGTGT-TTAAGCCTCTAAAAAGAGAAGC
1 TTTTATATTTTTCAAAGT-TATTAAGCCTCTAAAAAGAGAAGC
* * ** *
8246383 TTTTATTATTTTTCATAGTTATTAAGCCTTTAATGAGTGAAGCC
1 TTTTA-TATTTTTCAAAGTTATTAAGCCTCTAAAAAGAGAAG-C
*
8246427 TTCTATATTTTT
1 TTTTATATTTTT
8246439 TTAAAAGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
42 6 0.13
43 36 0.77
44 5 0.11
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (42 bp):
TTTTATATTTTTCAAAGTTATTAAGCCTCTAAAAAGAGAAGC
Found at i:8246708 original size:44 final size:45
Alignment explanation
Indices: 8246548--8246739 Score: 159
Period size: 44 Copynumber: 4.4 Consensus size: 45
8246538 AAGAAAATCT
* *
8246548 TTTTAGATGTGCATTTCTAAAATTTTTCAAAT-ACGAATCTTTGAA
1 TTTTAGATGTGAATCTCTAAAATTTTTCAAATGA-GAATCTTTGAA
* * * * *
8246593 TGTTA-CTGAGAAAT-TCT-AAATTTTTCAAATGAAAATCTTTTAA
1 TTTTAGATGTG-AATCTCTAAAATTTTTCAAATGAGAATCTTTGAA
* * *
8246636 -TATAGATGAGAA-CTTCTAAGAATTTTT-AAATGAGAATGTTTGAA
1 TTTTAGATGTGAATC-TCTAA-AATTTTTCAAATGAGAATCTTTGAA
* *
8246680 TTTTAGATGTGAATCTCTAAAAATTTT-AAATGAGAATATTT-AA
1 TTTTAGATGTGAATCTCTAAAATTTTTCAAATGAGAATCTTTGAA
*
8246723 GTTTTAGATATGAATCT
1 -TTTTAGATGTGAATCT
8246740 TTAAGACTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
42 4 0.03
43 31 0.26
44 56 0.47
45 28 0.23
46 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (45 bp):
TTTTAGATGTGAATCTCTAAAATTTTTCAAATGAGAATCTTTGAA
Found at i:8246750 original size:23 final size:22
Alignment explanation
Indices: 8246679--8246750 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 22
8246669 GAATGTTTGA
* * *
8246679 ATTTTAGATGTGAATCTCTAAAA
1 ATTTTAGATATGAATCT-TTAAG
* *
8246702 ATTTTAAATGA-GAATATTTAAG
1 ATTTTAGAT-ATGAATCTTTAAG
8246724 -TTTTAGATATGAATCTTTAAG
1 ATTTTAGATATGAATCTTTAAG
8246745 ACTTTT
1 A-TTTT
8246751 TAGGTGTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 17 0.45
22 3 0.08
23 17 0.45
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (22 bp):
ATTTTAGATATGAATCTTTAAG
Found at i:8247065 original size:22 final size:21
Alignment explanation
Indices: 8246999--8247066 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
8246989 GTCTCATTTT
8246999 TTTTAGAATGTGAACATTTG-AA
1 TTTTA-AATGTGAA-ATTTGAAA
*
8247021 TTTTAAATGTGAAACTTTAAAA
1 TTTTAAATGTGAAA-TTTGAAA
*
8247043 TTTTAATTGTGAATATTTGAAA
1 TTTTAAATGTGAA-ATTTGAAA
8247065 TT
1 TT
8247067 ATTTGTGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.03
21 11 0.28
22 27 0.68
23 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (21 bp):
TTTTAAATGTGAAATTTGAAA
Found at i:8247209 original size:18 final size:18
Alignment explanation
Indices: 8247183--8247243 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
8247173 GAATTCTTAC
8247183 AATCTTTAAATTTTTGCA
1 AATCTTTAAATTTTTGCA
* * *
8247201 AATCATTAAATTCTTGTA
1 AATCTTTAAATTTTTGCA
* *
8247219 AATC--TAAGTTTTTGCG
1 AATCTTTAAATTTTTGCA
8247235 AATCTTTAA
1 AATCTTTAA
8247244 TTTCTGATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 12 0.35
18 22 0.65
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.46
Consensus pattern (18 bp):
AATCTTTAAATTTTTGCA
Found at i:8247400 original size:19 final size:20
Alignment explanation
Indices: 8247378--8247424 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
8247368 AATCTTTGGC
8247378 GAACCTTTGAATAT-ATTGT
1 GAACCTTTGAATATAATTGT
* *
8247397 GAACTTTTGAATCTAATTGT
1 GAACCTTTGAATATAATTGT
*
8247417 GAATCTTT
1 GAACCTTT
8247425 AAACTTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.45
Consensus pattern (20 bp):
GAACCTTTGAATATAATTGT
Found at i:8247477 original size:22 final size:22
Alignment explanation
Indices: 8247444--8247517 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 22
8247434 GTTGAGAGTT
8247444 TTTGAATGTCAAATTGCGAA-CC
1 TTTGAAT-TCAAATTGCGAATCC
* *
8247466 TTTGAACTTCAAGTTGGGAATCC
1 TTTGAA-TTCAAATTGCGAATCC
* * *
8247489 -TTAAATTTCAAATTGCAAAT-G
1 TTTGAA-TTCAAATTGCGAATCC
8247510 TTTGAATT
1 TTTGAATT
8247518 TTGAATTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
21 2 0.05
22 35 0.88
23 3 0.08
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (22 bp):
TTTGAATTCAAATTGCGAATCC
Found at i:8248903 original size:14 final size:16
Alignment explanation
Indices: 8248860--8248906 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
8248850 ACTTAAATAT
*
8248860 CAAAATATTGAAATTAA
1 CAAAATAAT-AAATTAA
8248877 CAAAATTAATAAATTAA
1 CAAAA-TAATAAATTAA
8248894 C-AAA-AATAAATTA
1 CAAAATAATAAATTA
8248907 GGAATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 9 0.32
16 3 0.11
17 13 0.46
18 3 0.11
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (16 bp):
CAAAATAATAAATTAA
Found at i:8250638 original size:104 final size:104
Alignment explanation
Indices: 8250526--8250733 Score: 389
Period size: 104 Copynumber: 2.0 Consensus size: 104
8250516 ATACATAAGC
* *
8250526 AAGTAGTTATTTGTATATAGGGTGCTGGTGGGACTTTGAATATAGGTATTTTAGGTTCCAGTTGT
1 AAGTAGTTATTTGTATATAGGGTGCTGGTGGGACTTTAAATATAGATATTTTAGGTTCCAGTTGT
8250591 AATGTTTTCTTTGTACAAAAATATATGGAATACTAAAGT
66 AATGTTTTCTTTGTACAAAAATATATGGAATACTAAAGT
*
8250630 AAGTAGTTATTTGTATATAGGGTGTTGGTGGGACTTTAAATATAGATATTTTAGGTTCCAGTTGT
1 AAGTAGTTATTTGTATATAGGGTGCTGGTGGGACTTTAAATATAGATATTTTAGGTTCCAGTTGT
8250695 AATGTTTTCTTTGTACAAAAATATATGGAATACTAAAGT
66 AATGTTTTCTTTGTACAAAAATATATGGAATACTAAAGT
8250734 TATTAATTTC
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (104 bp):
AAGTAGTTATTTGTATATAGGGTGCTGGTGGGACTTTAAATATAGATATTTTAGGTTCCAGTTGT
AATGTTTTCTTTGTACAAAAATATATGGAATACTAAAGT
Found at i:8251554 original size:94 final size:95
Alignment explanation
Indices: 8251426--8251616 Score: 260
Period size: 103 Copynumber: 1.9 Consensus size: 95
8251416 AAGGTGCACA
* *
8251426 AAACTAATATCTCTCAGTTACCACGAAATTGTG-A-ATCAGGTTTTACATCCTAGGCACCACCTG
1 AAACTAATATCTCTCAGTTACCACGAAATTGTGAAGATCAGGTTTTACATACTACGCACCACCTG
8251489 ATGTGATCAAGTATGGAAGTAAAACTTTAT
66 ATGTGATCAAGTATGGAAGTAAAACTTTAT
*
8251519 AAACTAATATCTCTCAGCTTACCGCGAAATTGTGAATCATCAAGATCAGGTTTTACATACTACGC
1 AAACTAATATCTCTCAG-TTACCACGAAATTGTG-------AAGATCAGGTTTTACATACTACGC
*
8251584 ACCACCTGATGTGATCAAGTATGGAGGTAAAAC
58 ACCACCTGATGTGATCAAGTATGGAAGTAAAAC
8251617 CGTATACGTA
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
93 17 0.20
94 15 0.18
102 1 0.01
103 51 0.61
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (95 bp):
AAACTAATATCTCTCAGTTACCACGAAATTGTGAAGATCAGGTTTTACATACTACGCACCACCTG
ATGTGATCAAGTATGGAAGTAAAACTTTAT
Found at i:8253242 original size:19 final size:19
Alignment explanation
Indices: 8253220--8253256 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8253210 AACCAAAAAA
8253220 AAAAAAGAGCAAAA-AAAGG
1 AAAAAAGAG-AAAAGAAAGG
8253239 AAAAAAGAGAAAAGAAAG
1 AAAAAAGAGAAAAGAAAG
8253257 TTTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAAAGAGAAAAGAAAGG
Found at i:8255876 original size:37 final size:35
Alignment explanation
Indices: 8255834--8255902 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 35
8255824 TAAATTTTAA
8255834 CAATTT-TAATGCCAATAAACACAATAATCATAAATAT
1 CAATTTCTAA-GCCAATAAACACAA-AAT-ATAAATAT
*
8255871 CAATTTCTAAGCTAATAAACACAAAATATAAA
1 CAATTTCTAAGCCAATAAACACAAAATATAAA
8255903 CACAATAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 5 0.17
36 3 0.10
37 19 0.63
38 3 0.10
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.28
Consensus pattern (35 bp):
CAATTTCTAAGCCAATAAACACAAAATATAAATAT
Found at i:8256659 original size:21 final size:21
Alignment explanation
Indices: 8256634--8256673 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8256624 CTTCTGTATG
8256634 AAAAAGGGATCAATTGGTTTA
1 AAAAAGGGATCAATTGGTTTA
**
8256655 AAAAAGGGATTGATTGGTT
1 AAAAAGGGATCAATTGGTT
8256674 CTTTAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.30
Consensus pattern (21 bp):
AAAAAGGGATCAATTGGTTTA
Found at i:8260403 original size:10 final size:9
Alignment explanation
Indices: 8260388--8260415 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8260378 CAACTACCTA
8260388 TTTTTTTAT
1 TTTTTTTAT
8260397 TTTTTTTAT
1 TTTTTTTAT
8260406 TTTTTTTAT
1 TTTTTTTAT
8260415 T
1 T
8260416 AACAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:8260790 original size:41 final size:41
Alignment explanation
Indices: 8260611--8260820 Score: 240
Period size: 42 Copynumber: 5.0 Consensus size: 41
8260601 GAAAAAAATC
*
8260611 AATGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAGTAA
1 AATGCTCCTCTAAATAGAGGCACCACAACTTTGGAAAA-TAA
*
8260653 AATGCTCCTCTAAATAGAAGCACCACAACTTTGGAAAAATAA
1 AATGCTCCTCTAAATAGAGGCACCACAACTTTGG-AAAATAA
* ** * * * *
8260695 ATTAATCCTTTAAATAAAGTCACCACAACTTTGAAAAAATAA
1 AATGCTCCTCTAAATAGAGGCACCACAACTTTG-GAAAATAA
* * * *
8260737 AATGCTCATCTAAATAGAGGTACTACAACTTTAGAAAATAA
1 AATGCTCCTCTAAATAGAGGCACCACAACTTTGGAAAATAA
* * * *
8260778 ATTGTTACTCTAAACAGAGGCACCACAACTTTGGAAAATAA
1 AATGCTCCTCTAAATAGAGGCACCACAACTTTGGAAAATAA
8260819 AA
1 AA
8260821 GGCGCATTGA
Statistics
Matches: 136, Mismatches: 30, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
41 41 0.30
42 91 0.67
43 4 0.03
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (41 bp):
AATGCTCCTCTAAATAGAGGCACCACAACTTTGGAAAATAA
Found at i:8261184 original size:20 final size:21
Alignment explanation
Indices: 8261137--8261190 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
8261127 TTCACACCTT
*
8261137 AAAGATTATCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
*
8261158 AAAGATTCTCATTTG-AGTTC
1 AAAGATTCTCATTTGAAATTC
* *
8261178 GAAGATTCACATT
1 AAAGATTCTCATT
8261191 CAACAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:8261221 original size:58 final size:58
Alignment explanation
Indices: 8261156--8261370 Score: 191
Period size: 58 Copynumber: 3.6 Consensus size: 58
8261146 CATTTGAAAT
* *
8261156 TCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTTGGGTTTCACACC
1 TCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCAATAAATTTTGGGTTTCACACC
* * ** * * * * **
8261214 TCAAAGATTCTTATTTGAAATTCAAAGATTTTCATTTGAGATTTAAATATCCT-CGTTTGA-AAT
1 TCAAAGATTCTCATTTG-AGTTCAAAGATTCACA-TTCA-A--TAAAT-T-TTGGGTTTCACACC
* *
8261277 TCAAAGATTCTCCTTTGAGTTCAAAGATTCACATTCGATAAATTTTGGGTTTCACACC
1 TCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCAATAAATTTTGGGTTTCACACC
* * *
8261335 TCAAAGATTCTCATTTGAAATTCAAAGCTTCTCATT
1 TCAAAGATTCTCATTTG-AGTTCAAAGATTCACATT
8261371 TGAGTTCGAA
Statistics
Matches: 119, Mismatches: 28, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
56 1 0.01
57 6 0.05
58 38 0.32
59 27 0.23
60 4 0.03
61 3 0.03
62 13 0.11
63 20 0.17
64 6 0.05
65 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (58 bp):
TCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCAATAAATTTTGGGTTTCACACC
Found at i:8261238 original size:21 final size:21
Alignment explanation
Indices: 8261214--8261311 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 21
8261204 GTTTCACACC
*
8261214 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
8261235 TCAAAGATTTTCATTTGAGAT
1 TCAAAGATTCTCATTTGAAAT
* * * *
8261256 TTAAATATCCTCGTTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
8261277 TCAAAGATTCTCCTTTG-AGT
1 TCAAAGATTCTCATTTGAAAT
*
8261297 TCAAAGATTCACATT
1 TCAAAGATTCTCATT
8261312 CGATAAATTT
Statistics
Matches: 61, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
20 15 0.25
21 46 0.75
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:8261279 original size:121 final size:121
Alignment explanation
Indices: 8261148--8261374 Score: 391
Period size: 121 Copynumber: 1.9 Consensus size: 121
8261138 AAGATTATCA
*
8261148 TTTGAAATTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTTGGGTTTCACAC
1 TTTGAAATTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCAACAAATTTTGGGTTTCACAC
* *
8261213 CTCAAAGATTCTTATTTGAAATTCAAAGATTTTCATTTGAGATTTAAATATCCTCG
66 CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAGATTTAAATATCCTCG
* * *
8261269 TTTGAAATTCAAAGATTCTCCTTTGAGTTCAAAGATTCACATTCGATAAATTTTGGGTTTCACAC
1 TTTGAAATTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCAACAAATTTTGGGTTTCACAC
*
8261334 CTCAAAGATTCTCATTTGAAATTCAAAGCTTCTCATTTGAG
66 CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAG
8261375 TTCGAAGATT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 99 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (121 bp):
TTTGAAATTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCAACAAATTTTGGGTTTCACAC
CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAGATTTAAATATCCTCG
Found at i:8261367 original size:79 final size:79
Alignment explanation
Indices: 8261269--8261450 Score: 292
Period size: 79 Copynumber: 2.3 Consensus size: 79
8261259 AATATCCTCG
* *
8261269 TTTGAAATTCAAAGATTCTCCTTTGAGTTCAAAGATTCACATTCGATAAATTTTGGGTTTCACAC
1 TTTGAAATTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACAC
8261334 CTCAAAGATTCTCA
66 CTCAAAGATTCTCA
* * * *
8261348 TTTGAAATTCAAAGCTTCTCATTTGAGTTCGAAGATTCATATTCGACAAATTTTGGGTTTCATAC
1 TTTGAAATTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACAC
* *
8261413 CTCAAAGATTTTTA
66 CTCAAAGATTCTCA
8261427 TTTGAAATTCAAAGATTCTCATTT
1 TTTGAAATTCAAAGATTCTCATTT
8261451 AAGAACTCAA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 94 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (79 bp):
TTTGAAATTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACAC
CTCAAAGATTCTCA
Found at i:8262792 original size:11 final size:11
Alignment explanation
Indices: 8262776--8262821 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
8262766 TCAATTGAAG
8262776 TTTTTTTTCTC
1 TTTTTTTTCTC
8262787 TTTTTTTT-T-
1 TTTTTTTTCTC
*
8262796 TCTTTTTTC-C
1 TTTTTTTTCTC
*
8262806 TTTTTTTTTTC
1 TTTTTTTTCTC
8262817 TTTTT
1 TTTTT
8262822 CATCTCTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 7 0.24
10 8 0.28
11 14 0.48
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:8262792 original size:13 final size:12
Alignment explanation
Indices: 8262776--8262822 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
8262766 TCAATTGAAG
8262776 TTTTTTTTCTCTT
1 TTTTTTTTCT-TT
8262789 TTTTTTTTCTTT
1 TTTTTTTTCTTT
8262801 TTTCCTTTTT-TTT
1 TTT--TTTTTCTTT
*
8262814 TTCTTTTTC
1 TTTTTTTTC
8262823 ATCTCTTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 15 0.50
14 5 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:8262808 original size:19 final size:20
Alignment explanation
Indices: 8262778--8262821 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
8262768 AATTGAAGTT
8262778 TTTTTTCTCTTTTTTTTTTC
1 TTTTTTCTCTTTTTTTTTTC
8262798 TTTTTTC-CTTTTTTTTTTC
1 TTTTTTCTCTTTTTTTTTTC
8262817 TTTTT
1 TTTTT
8262822 CATCTCTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTCTCTTTTTTTTTTC
Found at i:8263225 original size:14 final size:16
Alignment explanation
Indices: 8263198--8263230 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
8263188 TCTTTCCATT
8263198 TTTTCTTTTGTTTTGC
1 TTTTCTTTTGTTTTGC
8263214 TTTT-TTTT-TTTTGC
1 TTTTCTTTTGTTTTGC
8263228 TTT
1 TTT
8263231 CTATGTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 4 0.24
16 4 0.24
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTGTTTTGC
Found at i:8267403 original size:9 final size:9
Alignment explanation
Indices: 8267397--8267430 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
8267387 TATTTTTTCA
8267397 TTTTTTTAT
1 TTTTTTTAT
8267406 TTTTTTTAT
1 TTTTTTTAT
8267415 TTTTCTTTAT
1 TTTT-TTTAT
8267425 TTTTTT
1 TTTTTT
8267431 GTTTTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:8267410 original size:10 final size:10
Alignment explanation
Indices: 8267397--8267430 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
8267387 TATTTTTTCA
8267397 TTTTTTTA-T
1 TTTTTTTATT
8267406 TTTTTTTATT
1 TTTTTTTATT
*
8267416 TTTCTTTATT
1 TTTTTTTATT
8267426 TTTTT
1 TTTTT
8267431 GTTTTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:8267411 original size:8 final size:8
Alignment explanation
Indices: 8267387--8267435 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 8
8267377 TTTTTATCAA
8267387 TATTTTTT
1 TATTTTTT
*
8267395 CATTTTTT
1 TATTTTTT
8267403 TATTTTTTT
1 TA-TTTTTT
8267412 TATTTTTCTT
1 TA-TTTT-TT
8267422 TATTTTTT
1 TATTTTTT
*
8267430 TGTTTT
1 TATTTT
8267436 GAAAATAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 15 0.42
9 17 0.47
10 4 0.11
ACGTcount: A:0.10, C:0.04, G:0.02, T:0.84
Consensus pattern (8 bp):
TATTTTTT
Found at i:8267631 original size:218 final size:218
Alignment explanation
Indices: 8267231--8267631 Score: 530
Period size: 218 Copynumber: 1.8 Consensus size: 218
8267221 AAAAGAATAC
* *
8267231 AATTACTTTTATTAAAATTTTATCTAAATTATTCCACCATTTGAGACAAATTTAGAGAAAATTTC
1 AATTACTTTTATTAAAACTTTATCTAAATTATTCCACCATTTGAGACAAATTTAGACAAAATTTC
* * *
8267296 TCACATAGAGATTTTTTAAAAATTTATCATTTGAAATTTTTAAGAATCTCATCATTAGGTAATTT
66 TCACATAGAGATTTTATAAAAATTTATCATTTGAAATTTTCAAGAATCTCATCATTAGGTAATTA
*
8267361 GTACTTAATTCCAAAATTTTTATCAATATTTTTTCATTTTTTTATTTTTTTTATTTTTCTTTATT
131 ATACTTAATTCCAAAATTTTTATCAATATTTTTTCATTTTTTTATTTTTTTTATTTTTCTTTATT
8267426 TTTTTGTTTTGAAAATAAATATT
196 TTTTTGTTTTGAAAATAAATATT
* * *
8267449 AATTA-TTGTTATTAAAACTTTATCTAAATTATTTCACCATTTGGGATAAATTTAGACAAAATTT
1 AATTACTT-TTATTAAAACTTTATCTAAATTATTCCACCATTTGAGACAAATTTAGACAAAATTT
* * *
8267513 CTCACTTAG-GAATTTTATAGAAATTTATCATTTGAAATTTTCATA-AATTTCATCATT-GGATA
65 CTCACATAGAG-ATTTTATAAAAATTTATCATTTGAAATTTTCA-AGAATCTCATCATTAGG-TA
* ** *
8267575 ATTAATA-TTTATTCTC-AAA-TTTTAT-TTTATTTTTTACATTTTTATTTTTATTTTTTA
127 ATTAATACTTAATTC-CAAAATTTTTATCAATATTTTTT-CATTTTT-TTATT-TTTTTTA
8267632 AAAAAATTTA
Statistics
Matches: 159, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
215 8 0.05
216 13 0.08
217 18 0.11
218 119 0.75
219 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (218 bp):
AATTACTTTTATTAAAACTTTATCTAAATTATTCCACCATTTGAGACAAATTTAGACAAAATTTC
TCACATAGAGATTTTATAAAAATTTATCATTTGAAATTTTCAAGAATCTCATCATTAGGTAATTA
ATACTTAATTCCAAAATTTTTATCAATATTTTTTCATTTTTTTATTTTTTTTATTTTTCTTTATT
TTTTTGTTTTGAAAATAAATATT
Found at i:8268285 original size:37 final size:37
Alignment explanation
Indices: 8268244--8268316 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
8268234 GGCAATAACC
8268244 CTCATAACTTCATAATCAGTTGCTTGAATAAACAATT
1 CTCATAACTTCATAATCAGTTGCTTGAATAAACAATT
* * *
8268281 CTCATAACTTTATAATCATTTGTTTGAATAAACAAT
1 CTCATAACTTCATAATCAGTTGCTTGAATAAACAAT
8268317 CCCATTCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (37 bp):
CTCATAACTTCATAATCAGTTGCTTGAATAAACAATT
Found at i:8275077 original size:6 final size:6
Alignment explanation
Indices: 8275066--8275134 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
8275056 CCCAACTGTT
* * *
8275066 TTTTTA TTTTTA -TATTA TTTTTA -TTCTA GTTTTTA TTTTAA TTTTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA
8275112 TTTATTA TTATTTA -TTTTA TTTT
1 TTT-TTA TT-TTTA TTTTTA TTTT
8275135 AAGATAATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
5 15 0.30
6 25 0.50
7 9 0.18
8 1 0.02
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:8275110 original size:12 final size:11
Alignment explanation
Indices: 8275067--8275134 Score: 73
Period size: 12 Copynumber: 5.8 Consensus size: 11
8275057 CCAACTGTTT
8275067 TTTTATTTTTA
1 TTTTATTTTTA
*
8275078 TATTATTTTTA
1 TTTTATTTTTA
*
8275089 TTCTAGTTTTTA
1 TTTTA-TTTTTA
*
8275101 TTTTAATTTTTT
1 TTTT-ATTTTTA
8275113 TTATTATTATTTA
1 TT-TTATT-TTTA
8275126 TTTTATTTT
1 TTTTATTTT
8275135 AAGATAATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 15 0.32
12 24 0.51
13 8 0.17
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:8275115 original size:15 final size:15
Alignment explanation
Indices: 8275095--8275136 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
8275085 TTTATTCTAG
8275095 TTTTTATTTTAATTT
1 TTTTTATTTTAATTT
8275110 TTTTTATTATT-ATTT
1 TTTTTATT-TTAATTT
*
8275125 ATTTTATTTTAA
1 TTTTTATTTTAA
8275137 GATAATAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATTTTAATTT
Found at i:8275177 original size:18 final size:19
Alignment explanation
Indices: 8275154--8275194 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8275144 GAATATTAAT
*
8275154 TAAAAAATTAAA-AAATAA
1 TAAAAAATGAAATAAATAA
8275172 T-AAAAATGAAATAAATAA
1 TAAAAAATGAAATAAATAA
8275190 -AAAAA
1 TAAAAA
8275195 TGTGGTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
TAAAAAATGAAATAAATAA
Found at i:8275178 original size:17 final size:17
Alignment explanation
Indices: 8275155--8275196 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8275145 AATATTAATT
*
8275155 AAAAAATTAAA-AAATA
1 AAAAAATGAAATAAATA
8275171 ATAAAAATGAAATAAATA
1 A-AAAAATGAAATAAATA
8275189 AAAAAATG
1 AAAAAATG
8275197 TGGTTGAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 16 0.70
18 6 0.26
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAAAAATGAAATAAATA
Found at i:8275975 original size:17 final size:18
Alignment explanation
Indices: 8275953--8275991 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
8275943 ATTTAGTATT
8275953 TTTCTTAGT-TTTTTTTC
1 TTTCTTAGTATTTTTTTC
8275970 TTTCTTAGTACTTTTTTTC
1 TTTCTTAGTA-TTTTTTTC
8275989 TTT
1 TTT
8275992 TCTTTCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.08, C:0.13, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTCTTAGTATTTTTTTC
Found at i:8275993 original size:20 final size:18
Alignment explanation
Indices: 8275952--8275995 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
8275942 TATTTAGTAT
8275952 TTTTCTTAGTTTTTTTTC
1 TTTTCTTAGTTTTTTTTC
8275970 -TTTCTTAGTACTTTTTTTC
1 TTTTCTTAGT--TTTTTTTC
8275989 TTTTCTT
1 TTTTCTT
8275996 TCATGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.39
19 8 0.35
20 6 0.26
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTCTTAGTTTTTTTTC
Found at i:8277771 original size:23 final size:22
Alignment explanation
Indices: 8277723--8277784 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
8277713 TTTTTATATT
* *
8277723 ATCATTTCATTTCATTTCGTGT
1 ATCATTTCATTTCATTTCATGC
8277745 ATCATTGTCATTTCATTAT-ATGC
1 ATCATT-TCATTTCATT-TCATGC
8277768 ATCATTTTCATGTTCAT
1 ATCA-TTTCAT-TTCAT
8277785 GATTTAGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.18
23 20 0.59
24 8 0.24
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.52
Consensus pattern (22 bp):
ATCATTTCATTTCATTTCATGC
Found at i:8280649 original size:12 final size:11
Alignment explanation
Indices: 8280634--8280685 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 11
8280624 TGAAAAAAAT
8280634 AAAAAAGAAGAG
1 AAAAAAGAA-AG
8280646 AAAAAAGAAAG
1 AAAAAAGAAAG
8280657 AAAAAAAGAAA-
1 -AAAAAAGAAAG
8280668 AATGAAAATGAAAG
1 AA--AAAA-GAAAG
8280682 AAAA
1 AAAA
8280686 GGAAGACTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 2 0.06
11 2 0.06
12 25 0.71
13 4 0.11
14 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:8280649 original size:19 final size:19
Alignment explanation
Indices: 8280609--8280674 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
8280599 GTGAATGACT
8280609 AAAGAAAGAAAAAAATGAAA
1 AAAGAAAGAAAAAAA-GAAA
8280629 AAA-ATAA-AAAAGAAGAGAAA
1 AAAGA-AAGAAAA-AA-AGAAA
8280649 AAAGAAAGAAAAAAAGAAA
1 AAAGAAAGAAAAAAAGAAA
*
8280668 AATGAAA
1 AAAGAAA
8280675 ATGAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
19 16 0.40
20 18 0.45
21 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAGAAAGAAAAAAAGAAA
Found at i:8280655 original size:36 final size:36
Alignment explanation
Indices: 8280609--8280685 Score: 100
Period size: 40 Copynumber: 2.0 Consensus size: 36
8280599 GTGAATGACT
8280609 AAAGAAAGAAAAAAATGAAAAAAATAAAAAAGAAGAGAAA
1 AAAGAAAGAAAAAAA-G--AAAAATAAAAAAGAA-AGAAA
* *
8280649 AAAGAAAGAAAAAAAGAAAAATGAAAATGAAAGAAA
1 AAAGAAAGAAAAAAAGAAAAATAAAAAAGAAAGAAA
8280685 A
1 A
8280686 GGAAGACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 6 0.17
37 13 0.37
39 1 0.03
40 15 0.43
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (36 bp):
AAAGAAAGAAAAAAAGAAAAATAAAAAAGAAAGAAA
Found at i:8280657 original size:13 final size:12
Alignment explanation
Indices: 8280609--8280685 Score: 66
Period size: 13 Copynumber: 6.0 Consensus size: 12
8280599 GTGAATGACT
8280609 AAAGAAAGAAAA
1 AAAGAAAGAAAA
*
8280621 AAATGAAAAAAATA
1 AAA-GAAAGAAA-A
*
8280635 AAAAAGAAGAGAAA
1 AAAGA-AAGA-AAA
8280649 AAAGAAAGAAAA
1 AAAGAAAGAAAA
8280661 AAAGAAA-AATGAA
1 AAAGAAAGAA--AA
*
8280674 AATGAAAGAAAA
1 AAAGAAAGAAAA
8280686 GGAAGACTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
11 2 0.04
12 15 0.28
13 20 0.38
14 14 0.26
15 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:8280663 original size:31 final size:28
Alignment explanation
Indices: 8280609--8280674 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 28
8280599 GTGAATGACT
* *
8280609 AAAGAAAGAAAAAAATGAAAAAAATAAA
1 AAAGAAAGAAAAAAAAGAAAAAAAGAAA
8280637 AAAGAAGAGAAAAAAGAAAGAAAAAAAGAAA
1 AAAGAA-AG-AAAAA-AAAGAAAAAAAGAAA
*
8280668 AATGAAA
1 AAAGAAA
8280675 ATGAAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.19
29 2 0.06
30 6 0.19
31 18 0.56
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (28 bp):
AAAGAAAGAAAAAAAAGAAAAAAAGAAA
Found at i:8281923 original size:20 final size:20
Alignment explanation
Indices: 8281894--8281933 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8281884 AAAGTTCGTC
* *
8281894 GAATGTGAATCTTTGAACTT
1 GAATGAGAATCTTTAAACTT
*
8281914 GAATGAGAATTTTTAAACTT
1 GAATGAGAATCTTTAAACTT
8281934 TTACATGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (20 bp):
GAATGAGAATCTTTAAACTT
Found at i:8282363 original size:42 final size:41
Alignment explanation
Indices: 8282317--8282545 Score: 212
Period size: 42 Copynumber: 5.5 Consensus size: 41
8282307 AAAAGTTTCA
* *
8282317 TTGCCTCTATTTAGAGGAGCCATTTACTTTCCAAAAGTTCCG
1 TTGCCTCTATTTAGAAGAGCCATTTACTTTCC-AAAGTTCTG
* * *
8282359 TTGCCTCTATTTAG-TGATGCCATTTGTATTTTCAAAAGTTCTG
1 TTGCCTCTATTTAGAAGA-GCCA-TT-TACTTTCCAAAGTTCTG
* * * * *
8282402 TTGCCTCTATTT-GTAAGAGCTATTTATTTTTTCAAAGTTTTA
1 TTGCCTCTATTTAG-AAGAGCCATTTA-CTTTCCAAAGTTCTG
* *
8282444 TTACCTCTATTTAGAAGAGCCATTTATTTTTCCAAAGTTCTG
1 TTGCCTCTATTTAGAAGAGCCATTTA-CTTTCCAAAGTTCTG
** * *
8282486 TTGCCTCCGTTTAAAAGAG-CATTTTACTTTCCAAAGTTGTG
1 TTGCCTCTATTTAGAAGAGCCA-TTTACTTTCCAAAGTTCTG
*
8282527 GTGCCTCTATTTAGAAGAG
1 TTGCCTCTATTTAGAAGAG
8282546 TAATTTTTAG
Statistics
Matches: 154, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
41 34 0.22
42 86 0.56
43 26 0.17
44 8 0.05
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (41 bp):
TTGCCTCTATTTAGAAGAGCCATTTACTTTCCAAAGTTCTG
Found at i:8282737 original size:35 final size:36
Alignment explanation
Indices: 8282678--8282749 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
8282668 ATTGGTCTAG
**
8282678 GCCTAAGCCTATTAGGTTCAATTCAAT-GGGCCCAA
1 GCCTAAGCCTATTAGGCCCAATTCAATAGGGCCCAA
* *
8282713 GCCTAAGCCTATTAGGCCCTATTCAATAGGGTCCAA
1 GCCTAAGCCTATTAGGCCCAATTCAATAGGGCCCAA
8282749 G
1 G
8282750 TGATAAGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 24 0.75
36 8 0.25
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (36 bp):
GCCTAAGCCTATTAGGCCCAATTCAATAGGGCCCAA
Found at i:8282775 original size:5 final size:5
Alignment explanation
Indices: 8282765--8282820 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
8282755 AGCCCAATTA
*
8282765 TTTAT TTTA- TTTAT TTTATT TTTAT TCTTGTT TTTAT TTTGA- TTTAT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT T-TT-AT TTTAT TTT-AT TTTAT
8282812 TTTAT TTTA
1 TTTAT TTTA
8282821 AGATAATAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
4 5 0.12
5 26 0.60
6 10 0.23
7 2 0.05
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:8282800 original size:12 final size:11
Alignment explanation
Indices: 8282765--8282819 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 11
8282755 AGCCCAATTA
8282765 TTTATTTTA--
1 TTTATTTTATT
8282774 TTTATTTTATT
1 TTTATTTTATT
*
8282785 TTTATTCTTGTT
1 TTTATT-TTATT
8282797 TTTATTTTGA--
1 TTTATTTT-ATT
8282807 TTTATTTTATT
1 TTTATTTTATT
8282818 TT
1 TT
8282820 AAGATAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 10 0.26
10 8 0.21
11 10 0.26
12 10 0.26
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:8283591 original size:13 final size:13
Alignment explanation
Indices: 8283575--8283621 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
8283565 TTTTTCTTTG
8283575 TTATTTTTTTTAT
1 TTATTTTTTTTAT
*
8283588 TTATTTTATTTA-
1 TTATTTTTTTTAT
* *
8283600 GTATTTTTCTTAGT
1 TTATTTTTTTTA-T
8283614 TTATTTTT
1 TTATTTTT
8283622 CCTTCTTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
12 9 0.33
13 11 0.41
14 7 0.26
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (13 bp):
TTATTTTTTTTAT
Found at i:8285354 original size:23 final size:22
Alignment explanation
Indices: 8285324--8285425 Score: 78
Period size: 23 Copynumber: 4.9 Consensus size: 22
8285314 TTTGTGCACC
8285324 TGCATCATTTTCATTTCATTCAA
1 TGCATCATTTTCATTTCATTC-A
*
8285347 TGCATCATTTTTATATT-ATT-A
1 TGCATCATTTTCAT-TTCATTCA
*
8285368 T--ATCA-TTTCA--T--TTCG
1 TGCATCATTTTCATTTCATTCA
*
8285383 TGCATCATTGTCATTTCATTCTA
1 TGCATCATTTTCATTTCATTC-A
8285406 TGCATCATTTTCATGTTCAT
1 TGCATCATTTTCAT-TTCAT
8285426 GATTTAACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 21
0.70 0.07 0.24
Matches are distributed among these distances:
14 2 0.03
15 2 0.03
17 4 0.06
18 8 0.13
19 4 0.06
20 1 0.02
21 2 0.03
22 3 0.05
23 29 0.47
24 7 0.11
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.51
Consensus pattern (22 bp):
TGCATCATTTTCATTTCATTCA
Found at i:8288219 original size:10 final size:10
Alignment explanation
Indices: 8288204--8288248 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
8288194 TGAAGGAAGG
8288204 AAAAAAAAGA
1 AAAAAAAAGA
8288214 AAAAAAAAG-
1 AAAAAAAAGA
*
8288223 AGAAAAAAGA
1 AAAAAAAAGA
8288233 AAAAAAAAGA
1 AAAAAAAAGA
8288243 AAAAAA
1 AAAAAA
8288249 TTGGAAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:8288230 original size:19 final size:18
Alignment explanation
Indices: 8288205--8288248 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
8288195 GAAGGAAGGA
8288205 AAAAAAAGAAAAAAAAAG
1 AAAAAAAGAAAAAAAAAG
8288223 AGAAAAAAGAAAAAAAAAG
1 A-AAAAAAGAAAAAAAAAG
8288242 AAAAAAA
1 AAAAAAA
8288249 TTGGAAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAAAG
Found at i:8288235 original size:17 final size:17
Alignment explanation
Indices: 8288206--8288247 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
8288196 AAGGAAGGAA
8288206 AAAAAAGAAAAAAAAAGAG
1 AAAAAAG-AAAAAAAA-AG
8288225 AAAAAAGAAAAAAAAAG
1 AAAAAAGAAAAAAAAAG
8288242 AAAAAA
1 AAAAAA
8288248 ATTGGAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAG
Found at i:8289665 original size:15 final size:14
Alignment explanation
Indices: 8289647--8289700 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
8289637 TTTTGAGATC
8289647 TTGTGAATCAAATT
1 TTGTGAATCAAATT
*
8289661 CTTGTGAAACTGAAATT
1 -TTGTG-AA-TCAAATT
*
8289678 TTGAGAATCAAATT
1 TTGTGAATCAAATT
8289692 TTAGTGAAT
1 TT-GTGAAT
8289701 TTTTACGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 8 0.25
15 12 0.38
16 6 0.19
17 6 0.19
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (14 bp):
TTGTGAATCAAATT
Found at i:8289909 original size:42 final size:42
Alignment explanation
Indices: 8289829--8290188 Score: 404
Period size: 42 Copynumber: 8.5 Consensus size: 42
8289819 GATTGTTAAA
* *
8289829 GAGCAATTTATTTTTCCAAAAGTTCTATTGCCTATATTTAGAG
1 GAGCCATTTATTTTTCC-AAAGTTCTATTGCCTCTATTTAGAG
* *
8289872 GAGCCATTTATTTTTCCAAAGTTCTATTACCTCTATTTAAAG
1 GAGCCATTTATTTTTCCAAAGTTCTATTGCCTCTATTTAGAG
* *
8289914 GAGCCATTTATTTTTCCAAAAGTTCCATTACCTCTATTTAGAG
1 GAGCCATTTATTTTTCC-AAAGTTCTATTGCCTCTATTTAGAG
* * *
8289957 GA-CCATTTATTTTTCCAAAAATTCCATTGCCTCTATTTAGAT
1 GAGCCATTTATTTTTCC-AAAGTTCTATTGCCTCTATTTAGAG
* * * * *
8289999 GAGCTATTTA-CTTTCTAAAGTTCTGTTGCCTCTATTTAAAG
1 GAGCCATTTATTTTTCCAAAGTTCTATTGCCTCTATTTAGAG
* * * *
8290040 GAGCCATTTATTTTTTCAAAAGTTTTGTTGCCTCTATTTAGTG
1 GAGCCATTTA-TTTTTCCAAAGTTCTATTGCCTCTATTTAGAG
** * *
8290083 GAGTGATTTATTTTTTCAAAGTTCTATTGCCTCTATTTAGAA
1 GAGCCATTTATTTTTCCAAAGTTCTATTGCCTCTATTTAGAG
* * * *
8290125 GAGCTATTTATTTTTTCAAAGTTCTGTTGCCTCTGTTTAGAG
1 GAGCCATTTATTTTTCCAAAGTTCTATTGCCTCTATTTAGAG
*
8290167 GAG-CATTT-TACTTTCCAAAGTT
1 GAGCCATTTAT-TTTTCCAAAGTT
8290189 GTGATGCTTC
Statistics
Matches: 273, Mismatches: 39, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.00
41 43 0.16
42 148 0.54
43 81 0.30
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (42 bp):
GAGCCATTTATTTTTCCAAAGTTCTATTGCCTCTATTTAGAG
Found at i:8289990 original size:85 final size:85
Alignment explanation
Indices: 8289829--8290174 Score: 405
Period size: 85 Copynumber: 4.1 Consensus size: 85
8289819 GATTGTTAAA
* *
8289829 GAGCAATTTATTTTTCCAAAAGTTCTATTGCCTATATTTAGAGGAGCCATTTATTTTTCCAAAGT
1 GAGCCATTTATTTTTCCAAAAGTTCTATTGCCTCTATTTAGAGGAGCCATTTATTTTTCCAAAGT
* *
8289894 TCTATTACCTCTATTTAAAG
66 TCTATTGCCTCTATTTAGAG
* * *
8289914 GAGCCATTTATTTTTCCAAAAGTTCCATTACCTCTATTTAGAGGA-CCATTTATTTTTCCAAAAA
1 GAGCCATTTATTTTTCCAAAAGTTCTATTGCCTCTATTTAGAGGAGCCATTTATTTTTCC-AAAG
* *
8289978 TTCCATTGCCTCTATTTAGAT
65 TTCTATTGCCTCTATTTAGAG
* * * * * *
8289999 GAGCTATTTA-CTTT-CTAAAGTTCTGTTGCCTCTATTTAAAGGAGCCATTTATTTTTTCAAAAG
1 GAGCCATTTATTTTTCCAAAAGTTCTATTGCCTCTATTTAGAGGAGCCATTTA-TTTTTCCAAAG
* * *
8290062 TTTTGTTGCCTCTATTTAGTG
65 TTCTATTGCCTCTATTTAGAG
** * * * *
8290083 GAGTGATTTATTTTTTC-AAAGTTCTATTGCCTCTATTTAGAAGAGCTATTTATTTTTTCAAAGT
1 GAGCCATTTATTTTTCCAAAAGTTCTATTGCCTCTATTTAGAGGAGCCATTTATTTTTCCAAAGT
* *
8290147 TCTGTTGCCTCTGTTTAGAG
66 TCTATTGCCTCTATTTAGAG
8290167 GAG-CATTT
1 GAGCCATTT
8290175 TACTTTCCAA
Statistics
Matches: 220, Mismatches: 36, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
83 28 0.13
84 81 0.37
85 110 0.50
86 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (85 bp):
GAGCCATTTATTTTTCCAAAAGTTCTATTGCCTCTATTTAGAGGAGCCATTTATTTTTCCAAAGT
TCTATTGCCTCTATTTAGAG
Done.