Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 254 of 279
Found at i:82669656 original size:17 final size:18
Alignment explanation
Indices: 82669636--82669672 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
82669626 TAAAATTGGG
*
82669636 TTAAGAAAAT-AATTTAA
1 TTAAGAAAATCAATTAAA
82669653 TTAAGAAAATCAATTAAA
1 TTAAGAAAATCAATTAAA
82669671 TT
1 TT
82669673 TATTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (18 bp):
TTAAGAAAATCAATTAAA
Found at i:82671952 original size:15 final size:15
Alignment explanation
Indices: 82671932--82671961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82671922 CCTTTCAATA
82671932 GTAACTATTCCAACG
1 GTAACTATTCCAACG
*
82671947 GTAACTTTTCCAACG
1 GTAACTATTCCAACG
82671962 ACTAACAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (15 bp):
GTAACTATTCCAACG
Found at i:82677941 original size:49 final size:50
Alignment explanation
Indices: 82677760--82677956 Score: 225
Period size: 50 Copynumber: 3.9 Consensus size: 50
82677750 ATCTATTGTG
* *
82677760 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * * * **
82677811 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * * *
82677861 AGGTCACATCTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* **
82677911 -GGTCGCATGTGTAGTACTTTGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
82677957 GCTTTGGCTA
Statistics
Matches: 119, Mismatches: 27, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
49 39 0.33
50 42 0.35
51 38 0.32
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:82679892 original size:3 final size:3
Alignment explanation
Indices: 82679879--82679912 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
82679869 TCATTAGCTT
82679879 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
82679913 TTTTCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:82681850 original size:3 final size:3
Alignment explanation
Indices: 82681844--82681872 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
82681834 TTCTTCTTCT
82681844 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
82681873 TTCTCCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:82681881 original size:6 final size:6
Alignment explanation
Indices: 82681872--82681928 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
82681862 TCATCATCAT
*
82681872 CTTCTC CTTCTC CTTCTC CTTCTC CTTCT- CTT-T- CTTCTC CTCCTC
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC
* *
82681917 TTTCTT CTTCTC
1 CTTCTC CTTCTC
82681929 TCACCTTCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 35 0.81
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
CTTCTC
Found at i:82681910 original size:15 final size:15
Alignment explanation
Indices: 82681871--82681924 Score: 72
Period size: 15 Copynumber: 3.4 Consensus size: 15
82681861 ATCATCATCA
82681871 TCTTCTCCTTCTCCTT
1 TCTTCTCCTTCT-CTT
82681887 CTCCTTCTCCTTCTCTT
1 -T-CTTCTCCTTCTCTT
*
82681904 TCTTCTCCTCCTCTT
1 TCTTCTCCTTCTCTT
82681919 TCTTCT
1 TCTTCT
82681925 TCTCTCACCT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
15 19 0.54
16 1 0.03
17 4 0.11
18 11 0.31
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (15 bp):
TCTTCTCCTTCTCTT
Found at i:82682653 original size:25 final size:25
Alignment explanation
Indices: 82682619--82682675 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
82682609 TAAATCACAC
82682619 TATAAATATCACATATGAATTAATT
1 TATAAATATCACATATGAATTAATT
82682644 TATAAATATCACATATGAATTAATT
1 TATAAATATCACATATGAATTAATT
82682669 TATAAAT
1 TATAAAT
82682676 GGATGTGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (25 bp):
TATAAATATCACATATGAATTAATT
Found at i:82691885 original size:12 final size:12
Alignment explanation
Indices: 82691868--82691901 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
82691858 GTAATTGTGT
82691868 TTACCAAGTTAA
1 TTACCAAGTTAA
82691880 TTACC-AGTTAA
1 TTACCAAGTTAA
82691891 TTA-CAAGTTAA
1 TTACCAAGTTAA
82691902 GTAATTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 15 0.71
12 5 0.24
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (12 bp):
TTACCAAGTTAA
Found at i:82696076 original size:20 final size:22
Alignment explanation
Indices: 82696037--82696076 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
82696027 TTTTATAATC
*
82696037 TAAGCTTAATATCTATCAATTT
1 TAAGCCTAATATCTATCAATTT
82696059 TAAGCCTAAT-TC-ATCAAT
1 TAAGCCTAATATCTATCAAT
82696077 GGTGGCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAGCCTAATATCTATCAATTT
Found at i:82701931 original size:19 final size:19
Alignment explanation
Indices: 82701907--82701946 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
82701897 TTAGAGTTAG
82701907 AAAGCAATCTAAATGGGAA
1 AAAGCAATCTAAATGGGAA
82701926 AAAGCAATCTAAATGGGAA
1 AAAGCAATCTAAATGGGAA
82701945 AA
1 AA
82701947 GACCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.20, T:0.15
Consensus pattern (19 bp):
AAAGCAATCTAAATGGGAA
Found at i:82702203 original size:41 final size:41
Alignment explanation
Indices: 82702158--82702342 Score: 257
Period size: 41 Copynumber: 4.5 Consensus size: 41
82702148 TAGCGACGTT
* *
82702158 TTTTGTTAAAACGCCGCTAAAGACCAGAGCATTAACTGCGC
1 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCTGCGC
* * *
82702199 TTTTGGCAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCTGCGC
* *
82702240 TTTTGGCAAAACGCCGCTAAAGACCAGACCATTAGC-GACGC
1 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCTG-CGC
*
82702281 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTCG-TGGCGC
1 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCT-GCGC
*
82702322 TTTTGGTAAAACGCCACTAAA
1 TTTTGGTAAAACGCCGCTAAA
82702343 AGTCATATAA
Statistics
Matches: 130, Mismatches: 11, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 128 0.98
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (41 bp):
TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCTGCGC
Found at i:82702322 original size:123 final size:122
Alignment explanation
Indices: 82702108--82702342 Score: 305
Period size: 123 Copynumber: 1.9 Consensus size: 122
82702098 CACAGAGAAA
* * ** * *
82702108 TAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACTGAGTAATAGCGACGTTTTTTGTTAAAACGCC
1 TAGCGGCGTTTTGGCTAAAACGCCGCTAAAAACAGACCAATAGCGACGTCTTTTGGTAAAACGCC
* *
82702173 GCTAAAGACCAGAGCATTAACTGCGCTTTTGGCAAAATGCCGCTAAAGACCAGAGCAT
66 GCTAAAGACCAGAGCATT-ACTGCGCTTTTGGCAAAACGCCACTAAAGACCAGAGCAT
* *
82702231 TAGCGGCGCTTTTGGC-AAAACGCCGCTAAAGACCAGACCATTAGCGACG-CTTTTGGTAAAACG
1 TAGCGGCG-TTTTGGCTAAAACGCCGCTAAA-AACAGACCAATAGCGACGTCTTTTGGTAAAACG
*
82702294 CCGCTAAAGACCAGAGCATT-CGTGGCGCTTTTGGTAAAACGCCACTAAA
64 CCGCTAAAGACCAGAGCATTAC-T-GCGCTTTTGGCAAAACGCCACTAAA
82702343 AGTCATATAA
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
121 1 0.01
122 1 0.01
123 76 0.78
124 19 0.20
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (122 bp):
TAGCGGCGTTTTGGCTAAAACGCCGCTAAAAACAGACCAATAGCGACGTCTTTTGGTAAAACGCC
GCTAAAGACCAGAGCATTACTGCGCTTTTGGCAAAACGCCACTAAAGACCAGAGCAT
Found at i:82702950 original size:24 final size:24
Alignment explanation
Indices: 82702922--82702970 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
82702912 CATATATTTA
82702922 TTAAAAGTTTATACAAAAATTAAT
1 TTAAAAGTTTATACAAAAATTAAT
*
82702946 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATACAAAAATTAAT
82702970 T
1 T
82702971 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTTTATACAAAAATTAAT
Found at i:82703114 original size:13 final size:13
Alignment explanation
Indices: 82703098--82703122 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82703088 TTCACAACTA
82703098 AATTAATATACTG
1 AATTAATATACTG
82703111 AATTAATATACT
1 AATTAATATACT
82703123 TGATGTAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
AATTAATATACTG
Found at i:82713083 original size:27 final size:27
Alignment explanation
Indices: 82713053--82713104 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
82713043 GACCATTAAC
82713053 GGCGCCTTTCTCACAAACGCCGCTAGT
1 GGCGCCTTTCTCACAAACGCCGCTAGT
*
82713080 GGCGCTTTTCTCACAAACGCCGCTA
1 GGCGCCTTTCTCACAAACGCCGCTA
82713105 AAAATCAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.37, G:0.21, T:0.23
Consensus pattern (27 bp):
GGCGCCTTTCTCACAAACGCCGCTAGT
Found at i:82713199 original size:43 final size:43
Alignment explanation
Indices: 82713080--82713200 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
82713070 CGCCGCTAGT
* * * *
82713080 GGCGCTTTTCTCACAAACGCCGCTAAAAATCAAGACCTTTAGC
1 GGCGCTTTTCCCACAAACGCCCCTAAAAGTCATGACCTTTAGC
* *
82713123 GACGCTTTTCCTACAAACGCCCCT-AAAGATCATGACCTTTAGC
1 GGCGCTTTTCCCACAAACGCCCCTAAAAG-TCATGACCTTTAGC
82713166 GGCGCTTTTCCCACAAACGCCCCTAAAAGTCATGA
1 GGCGCTTTTCCCACAAACGCCCCTAAAAGTCATGA
82713201 AATTCAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 3 0.04
43 61 0.90
44 4 0.06
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (43 bp):
GGCGCTTTTCCCACAAACGCCCCTAAAAGTCATGACCTTTAGC
Found at i:82717464 original size:22 final size:22
Alignment explanation
Indices: 82717436--82717478 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
82717426 TTAATCATCT
82717436 TTAACGTTAACAGCAGGATTCC
1 TTAACGTTAACAGCAGGATTCC
82717458 TTAACGTTAACAGCAGGATTC
1 TTAACGTTAACAGCAGGATTC
82717479 GCAGGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (22 bp):
TTAACGTTAACAGCAGGATTCC
Found at i:82718911 original size:41 final size:41
Alignment explanation
Indices: 82718866--82719025 Score: 239
Period size: 41 Copynumber: 3.9 Consensus size: 41
82718856 TTATATGACT
* *
82718866 TTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTC
* * *
82718907 TTTAGCGGCGTTTTAACAAAAGCGCTGTTGATGCTCTGGTC
1 TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTC
*
82718948 TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATACTCTGGTC
1 TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTC
* * *
82718989 TTTAGCGGCGTTGTACCAAAAGCGCTGCTAATGCTCT
1 TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCT
82719026 CTAAAACGCC
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTC
Found at i:82720756 original size:18 final size:19
Alignment explanation
Indices: 82720720--82720756 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
82720710 GTTTATCGAA
82720720 AAATATTTTATATAATTGAT
1 AAATATTTTATAT-ATTGAT
82720740 AAATATTTTATAT-TTGA
1 AAATATTTTATATATTGA
82720757 ATTTGAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
AAATATTTTATATATTGAT
Found at i:82720874 original size:16 final size:16
Alignment explanation
Indices: 82720853--82720888 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
82720843 AACCGATATC
82720853 AATACATA-TCAATACT
1 AATACATACT-AATACT
82720869 AATACATACTAATACT
1 AATACATACTAATACT
82720885 AATA
1 AATA
82720889 AAAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (16 bp):
AATACATACTAATACT
Found at i:82722391 original size:77 final size:77
Alignment explanation
Indices: 82722294--82722447 Score: 227
Period size: 77 Copynumber: 2.0 Consensus size: 77
82722284 ATTAATTTTT
* * **
82722294 TCATTCATTTCGAGTGATTTAACAAATAATACAAATATATAGATTAAAAAAATGAAAAATTAAAA
1 TCATTCATTTCAAGTAATTTAACAAATAATACAAATATATAGATTAAAAAAACAAAAAATTAAAA
*
82722359 AAATTTAAAAAA
66 AAACTTAAAAAA
* * *
82722371 TCATTCATTTCAAGTAATTTAACAAATAATACAAATGTATGGATTAAAAAGACAAAAAATTAAAA
1 TCATTCATTTCAAGTAATTTAACAAATAATACAAATATATAGATTAAAAAAACAAAAAATTAAAA
*
82722436 AGACTTAAAAAA
66 AAACTTAAAAAA
82722448 AATGAAAGGT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.29
Consensus pattern (77 bp):
TCATTCATTTCAAGTAATTTAACAAATAATACAAATATATAGATTAAAAAAACAAAAAATTAAAA
AAACTTAAAAAA
Found at i:82728085 original size:90 final size:90
Alignment explanation
Indices: 82727985--82728168 Score: 359
Period size: 90 Copynumber: 2.0 Consensus size: 90
82727975 GTCAAGTTGT
*
82727985 AAATTAGAAAAATATTTTTAGAAATTTTCTGAAATAATCTCTTCAGAGGATTTTTTCTTTACAAC
1 AAATTAGAAAAATATCTTTAGAAATTTTCTGAAATAATCTCTTCAGAGGATTTTTTCTTTACAAC
82728050 TTTCTCTTAAATTCAAGTGGATGTA
66 TTTCTCTTAAATTCAAGTGGATGTA
82728075 AAATTAGAAAAATATCTTTAGAAATTTTCTGAAATAATCTCTTCAGAGGATTTTTTCTTTACAAC
1 AAATTAGAAAAATATCTTTAGAAATTTTCTGAAATAATCTCTTCAGAGGATTTTTTCTTTACAAC
82728140 TTTCTCTTAAATTCAAGTGGATGTA
66 TTTCTCTTAAATTCAAGTGGATGTA
82728165 AAAT
1 AAAT
82728169 AGTGACCCAA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (90 bp):
AAATTAGAAAAATATCTTTAGAAATTTTCTGAAATAATCTCTTCAGAGGATTTTTTCTTTACAAC
TTTCTCTTAAATTCAAGTGGATGTA
Found at i:82728317 original size:37 final size:35
Alignment explanation
Indices: 82728228--82728333 Score: 101
Period size: 37 Copynumber: 3.0 Consensus size: 35
82728218 TGATTAAACT
*
82728228 TAATCACTTTAATATTAAATCT-TATTAAAATAATA
1 TAATCACTTTAATATTAAAT-TAAATTAAAATAATA
* * ** * *
82728263 AAATTAGATAAACATTAAATTAAAGTTAAAATTAATA
1 TAATCACTTTAATATTAAATTAAA-TTAAAA-TAATA
82728300 TAATCACTTTAATATTAAATT-AA-TAAAATAATA
1 TAATCACTTTAATATTAAATTAAATTAAAATAATA
82728333 T
1 T
82728334 TAAGATAAGT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
33 6 0.11
34 6 0.11
35 15 0.27
36 8 0.15
37 20 0.36
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (35 bp):
TAATCACTTTAATATTAAATTAAATTAAAATAATA
Found at i:82735220 original size:2 final size:2
Alignment explanation
Indices: 82735215--82735245 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
82735205 ATATAATCAA
82735215 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
82735246 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:82745876 original size:43 final size:42
Alignment explanation
Indices: 82745762--82745919 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
82745752 TGAGATTACA
* *
82745762 TGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGCGATTATG
1 TGTAAGACCATGTCTAGGACATTGGCATCT-TA-TGCTATTATG
* *
82745805 TGTAAGACCATGTCTGGGGCATTGGCATCATTATGCTATTATG
1 TGTAAGACCATGTCTAGGACATTGGCATC-TTATGCTATTATG
* *
82745848 TGTAAGACCATGTTTAGGACATTGGCATCGTTAT-ATGATT-TCG
1 TGTAAGACCATGTCTAGGACATTGGCATC-TTATGCT-ATTAT-G
* * *
82745891 TGTAAGACCCTGTTTAGGACAGTGGCATC
1 TGTAAGACCATGTCTAGGACATTGGCATC
82745920 GATATGTGAT
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
42 2 0.02
43 97 0.95
44 2 0.02
45 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCTTATGCTATTATG
Found at i:82745917 original size:86 final size:85
Alignment explanation
Indices: 82745762--82745919 Score: 194
Period size: 86 Copynumber: 1.8 Consensus size: 85
82745752 TGAGATTACA
* * * * *
82745762 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTATGTGTAAGACCATGTCTGGGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCATCGTATT-CGATTATGTGTAAGACCATGTCTAGGACAG
82745827 TGGCATCATTATGCTATTATG
65 TGGCATCATTATGCTATTATG
* * *
82745848 TGTAAGACCATGTTTAGGACATTGGCATCGTTATAT-GATT-TCGTGTAAGACCCTGTTTAGGAC
1 TGTAAGACCATGTCTAGGACATTGGCATCG-TAT-TCGATTAT-GTGTAAGACCATGTCTAGGAC
82745911 AGTGGCATC
63 AGTGGCATC
82745920 GATATGTGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
85 1 0.02
86 56 0.92
87 3 0.05
88 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (85 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTATTCGATTATGTGTAAGACCATGTCTAGGACAGT
GGCATCATTATGCTATTATG
Found at i:82745920 original size:43 final size:43
Alignment explanation
Indices: 82745762--82745944 Score: 135
Period size: 43 Copynumber: 4.3 Consensus size: 43
82745752 TGAGATTACA
* * * *
82745762 TGTAAGACCATGTCTGGGACATTGGCATTG-TAT-TGCGATTAT-G
1 TGTAAGACCATGTTTAGGACAGTGGCATCGATATAT--GATT-TCG
* * * *
82745805 TGTAAGACCATGTCTGGGGCATTGGCATC-AT-TATGCTATTAT-G
1 TGTAAGACCATGTTTAGGACAGTGGCATCGATATATG--ATT-TCG
* *
82745848 TGTAAGACCATGTTTAGGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTTTAGGACAGTGGCATCGATATATGATTTCG
* * ** *
82745891 TGTAAGACCCTGTTTAGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTTTAGGACAGTGGCATCGATATATGATTTCG
82745934 TGTAAGACCAT
1 TGTAAGACCAT
82745945 ATCCGGGATA
Statistics
Matches: 119, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 111 0.93
44 1 0.01
45 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTTTAGGACAGTGGCATCGATATATGATTTCG
Found at i:82752051 original size:6 final size:7
Alignment explanation
Indices: 82752033--82752059 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
82752023 GATAAGGTTC
82752033 ATTTTTA
1 ATTTTTA
82752040 ATTTTTA
1 ATTTTTA
82752047 ATTTTTA
1 ATTTTTA
82752054 ATTTTT
1 ATTTTT
82752060 CCCGCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:82756709 original size:12 final size:12
Alignment explanation
Indices: 82756692--82756716 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82756682 ATGTAAGTGA
82756692 TCTTGATGATTT
1 TCTTGATGATTT
82756704 TCTTGATGATTT
1 TCTTGATGATTT
82756716 T
1 T
82756717 TACATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:82757069 original size:30 final size:30
Alignment explanation
Indices: 82757035--82757093 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
82757025 ATTTTCGAGC
* *
82757035 CTAGGGTAAAAATGGTCATTTTGCTAAGGT
1 CTAGGGCAAAAATGGTCATTTTACTAAGGT
*
82757065 CTAGGGCCAAAATGGTCATTTTACTAAGG
1 CTAGGGCAAAAATGGTCATTTTACTAAGG
82757094 ATGTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (30 bp):
CTAGGGCAAAAATGGTCATTTTACTAAGGT
Found at i:82766464 original size:29 final size:28
Alignment explanation
Indices: 82766398--82766465 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
82766388 ACATGTTAAA
82766398 TTCAAAAATTAGTCCTTCAAAACCTCATT
1 TTCAAAAATTAGTCC-TCAAAACCTCATT
* *
82766427 TTCACAAATTAG-CC-CAAATAGCTCATT
1 TTCAAAAATTAGTCCTCAAA-ACCTCATT
82766454 TCATCAAAAATT
1 T--TCAAAAATT
82766466 CAATAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.12
27 8 0.24
28 2 0.06
29 19 0.58
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (28 bp):
TTCAAAAATTAGTCCTCAAAACCTCATT
Found at i:82767201 original size:46 final size:46
Alignment explanation
Indices: 82767133--82767285 Score: 136
Period size: 47 Copynumber: 3.3 Consensus size: 46
82767123 GTTACATCTA
82767133 GGACAT-GCATCGGC-CTGAAGATGTAAGCCAGTGTAAGACATGTCTG
1 GGACATGGCATCGGCTC-G-AGATGTAAGCCAGTGTAAGACATGTCTG
* ** *
82767179 TGACAT-GCATCGGCTACGAGATG-ATAGTTAGTATAAGACTATG-CTTG
1 GGACATGGCATCGGCT-CGAGATGTA-AGCCAGTGTAAGAC-ATGTC-TG
* * * *
82767226 GGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCATGTCTG
1 GGACATGGCATCGGCTCGAGATGTAAGCCAGTGTAAGA-CATGTCTG
82767273 GGACATGGCATCG
1 GGACATGGCATCG
82767286 ACACCTTACC
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
45 1 0.01
46 30 0.35
47 44 0.51
48 11 0.13
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GGACATGGCATCGGCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
Found at i:82771886 original size:97 final size:97
Alignment explanation
Indices: 82771720--82772006 Score: 574
Period size: 97 Copynumber: 3.0 Consensus size: 97
82771710 TCGGGTCACT
82771720 ATTTCCGTGAATTAAGAAAATTGAATAAAGTGTGAAAGCTTAAATATAGAATAGAGAAAATTCAA
1 ATTTCCGTGAATTAAGAAAATTGAATAAAGTGTGAAAGCTTAAATATAGAATAGAGAAAATTCAA
82771785 GGGACTAAATAAATAAATAAACCAAATTGTAA
66 GGGACTAAATAAATAAATAAACCAAATTGTAA
82771817 ATTTCCGTGAATTAAGAAAATTGAATAAAGTGTGAAAGCTTAAATATAGAATAGAGAAAATTCAA
1 ATTTCCGTGAATTAAGAAAATTGAATAAAGTGTGAAAGCTTAAATATAGAATAGAGAAAATTCAA
82771882 GGGACTAAATAAATAAATAAACCAAATTGTAA
66 GGGACTAAATAAATAAATAAACCAAATTGTAA
82771914 ATTTCCGTGAATTAAGAAAATTGAATAAAGTGTGAAAGCTTAAATATAGAATAGAGAAAATTCAA
1 ATTTCCGTGAATTAAGAAAATTGAATAAAGTGTGAAAGCTTAAATATAGAATAGAGAAAATTCAA
82771979 GGGACTAAATAAATAAATAAACCAAATT
66 GGGACTAAATAAATAAATAAACCAAATT
82772007 TTAACAATTG
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 190 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (97 bp):
ATTTCCGTGAATTAAGAAAATTGAATAAAGTGTGAAAGCTTAAATATAGAATAGAGAAAATTCAA
GGGACTAAATAAATAAATAAACCAAATTGTAA
Found at i:82772111 original size:30 final size:30
Alignment explanation
Indices: 82772069--82772136 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 30
82772059 ATACATTTGT
82772069 AATACATATATATT-TACTTATTAT-TTAAAA
1 AATA-ATATATATTATA-TTATTATATTAAAA
82772099 AATAATATTATATTATATTATTATAATTAAAA
1 AATAATA-TATATTATATTATTAT-ATTAAAA
82772131 AA-AATA
1 AATAATA
82772137 AATAAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
29 3 0.09
30 17 0.50
31 6 0.18
32 8 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (30 bp):
AATAATATATATTATATTATTATATTAAAA
Found at i:82772984 original size:332 final size:332
Alignment explanation
Indices: 82772376--82773037 Score: 1288
Period size: 332 Copynumber: 2.0 Consensus size: 332
82772366 ATGTTGAATA
82772376 AATTGAAGAATTAGGCGTTAAATTGATAGAATTTCAAGTTACTAGTGAAAAAGGGATTGAATTGT
1 AATTGAAGAATTAGGCGTTAAATTGATAGAATTTCAAGTTACTAGTGAAAAAGGGATTGAATTGT
82772441 AAAATAAATCATAAAATTTAAGTAATAGGGACTAGGTTGAGAGAATTTCGAAATTAGGAATTTAT
66 AAAATAAATCATAAAATTTAAGTAATAGGGACTAGGTTGAGAGAATTTCGAAATTAGGAATTTAT
82772506 GATGAAATTAGGGAGTTAAATTTAGTTTTAAATGGGAATTAAATGAAAATATGGAATTAGTTTGG
131 GATGAAATTAGGGAGTTAAATTTAGTTTTAAATGGGAATTAAATGAAAATATGGAATTAGTTTGG
82772571 AAGAAAAAAGAGTTAGTTTTGATTTAAGGACTAATTTGGAATTTAGGCAAAAGTTATGTATAAAT
196 AAGAAAAAAGAGTTAGTTTTGATTTAAGGACTAATTTGGAATTTAGGCAAAAGTTATGTATAAAT
82772636 TGAAATATTCAATGTTAAATTGTAGTGTATTGATAAATTTTAATTGTTTGATTCCCGTAGCTAAC
261 TGAAATATTCAATGTTAAATTGTAGTGTATTGATAAATTTTAATTGTTTGATTCCCGTAGCTAAC
82772701 ATTGAAG
326 ATTGAAG
* *
82772708 AATTGAATAATTAGGTGTTAAATTGATAGAATTTCAAGTTACTAGTGAAAAAGGGATTGAATTGT
1 AATTGAAGAATTAGGCGTTAAATTGATAGAATTTCAAGTTACTAGTGAAAAAGGGATTGAATTGT
82772773 AAAATAAATCATAAAATTTAAGTAATAGGGACTAGGTTGAGAGAATTTCGAAATTAGGAATTTAT
66 AAAATAAATCATAAAATTTAAGTAATAGGGACTAGGTTGAGAGAATTTCGAAATTAGGAATTTAT
*
82772838 GTTGAAATTAGGGAGTTAAATTTAGTTTTAAATGGGAATTAAATGAAAATATGGAATTAGTTTGG
131 GATGAAATTAGGGAGTTAAATTTAGTTTTAAATGGGAATTAAATGAAAATATGGAATTAGTTTGG
82772903 AAGAAAAAAGAGTTAGTTTTGATTTAAGGACTAATTTGGAATTTAGGCAAAAGTTATGTATAAAT
196 AAGAAAAAAGAGTTAGTTTTGATTTAAGGACTAATTTGGAATTTAGGCAAAAGTTATGTATAAAT
*
82772968 TGAAATATTTAATGTTAAATTGTAGTGTATTGATAAATTTTAATTGTTTGATTCCCGTAGCTAAC
261 TGAAATATTCAATGTTAAATTGTAGTGTATTGATAAATTTTAATTGTTTGATTCCCGTAGCTAAC
82773033 ATTGA
326 ATTGA
82773038 GCCGGGGACC
Statistics
Matches: 326, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
332 326 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (332 bp):
AATTGAAGAATTAGGCGTTAAATTGATAGAATTTCAAGTTACTAGTGAAAAAGGGATTGAATTGT
AAAATAAATCATAAAATTTAAGTAATAGGGACTAGGTTGAGAGAATTTCGAAATTAGGAATTTAT
GATGAAATTAGGGAGTTAAATTTAGTTTTAAATGGGAATTAAATGAAAATATGGAATTAGTTTGG
AAGAAAAAAGAGTTAGTTTTGATTTAAGGACTAATTTGGAATTTAGGCAAAAGTTATGTATAAAT
TGAAATATTCAATGTTAAATTGTAGTGTATTGATAAATTTTAATTGTTTGATTCCCGTAGCTAAC
ATTGAAG
Found at i:82778958 original size:55 final size:53
Alignment explanation
Indices: 82778871--82779125 Score: 213
Period size: 55 Copynumber: 4.8 Consensus size: 53
82778861 ATTAGGGTTT
* *
82778871 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * *
82778926 AAGGATATCTTGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTAGAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCT--AAGGC
* * * *
82778981 AAAGG-TCCCATGTAAGACCATG-CTAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTC-AAGACATGGAATTGGTAAGTTTC-TAAGGC
* * * *
82779034 AAAGATACCATGTAAGACCATGTCGAGAGAT-GACAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGA-ATTGGTAAGTTTCTAAGGC
* * *
82779083 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAG
82779126 GTACCCGTGT
Statistics
Matches: 163, Mismatches: 26, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
49 32 0.20
50 2 0.01
51 1 0.01
52 6 0.04
53 38 0.23
54 15 0.09
55 65 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:82779077 original size:108 final size:110
Alignment explanation
Indices: 82778878--82779080 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 110
82778868 TTTAAGGATA
* * *
82778878 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCTTGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAAGATACCATGTAAGA
* *
82778943 CCATGTCAAGACATGGCATTGATAAGTTTCTAGAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTTCTAGAAGGCAAAGGTC
* * *
82778988 CCATGTAAGACCATGCTAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAAGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAAGATACCATGTAAG
* * *
82779050 ACCATGTCGAGAGATGACAATGGTAAGTTTC
65 ACCATGTCAAGACATGACAATGATAAGTTTC
82779081 AAAAGGATAC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAAGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTTCTAGAAGGCAAAGGTC
Found at i:82779339 original size:16 final size:16
Alignment explanation
Indices: 82779318--82779348 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82779308 ATAAATTTGA
82779318 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
82779334 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
82779349 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:82786738 original size:55 final size:53
Alignment explanation
Indices: 82786646--82786785 Score: 149
Period size: 55 Copynumber: 2.6 Consensus size: 53
82786636 ATTAGGGTTT
* * * *
82786646 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAATGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAG-TTC-ATAAGGC
* * *
82786701 AAAGG-TCCCATGTAAGACCATGCCAAGGA-ATGACATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAA-GACATGACATTGATAAGTTCATAAGGC
* *
82786754 AAGGATACCATGTAAGACCATGTCGAGACATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
82786786 GCAATGGTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
52 6 0.08
53 27 0.38
54 3 0.04
55 29 0.41
56 6 0.08
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTTCATAAGGC
Found at i:82790457 original size:20 final size:20
Alignment explanation
Indices: 82790432--82790473 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
82790422 CATAAAGTGC
82790432 AAAGTCCTATTTTGATAGCT
1 AAAGTCCTATTTTGATAGCT
82790452 AAAGTCCTATTTTGATAGCT
1 AAAGTCCTATTTTGATAGCT
82790472 AA
1 AA
82790474 GGATGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (20 bp):
AAAGTCCTATTTTGATAGCT
Found at i:82791562 original size:48 final size:48
Alignment explanation
Indices: 82791505--82792025 Score: 277
Period size: 49 Copynumber: 10.9 Consensus size: 48
82791495 CGGCCACATT
* *
82791505 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAG
* *
82791553 ATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAG
* * * *
82791599 ATGTA-AACCAATGTAAGA-CATGTCTGGGACAT-GCATTGGC--TACG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAG
* * * * * *
82791643 A-GATGTGTCAGTGTAAGACCATGTTTGGGACATAGCATCGACACGTATAG
1 ATGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTA-AG
* * * * *
82791693 A-G-GTGCCAGTGTAAGACCATGACTGGGAGATGGCATCGGCA-CAGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTA-AG
* * * * * * ** *
82791739 ATGTGAGAGCTAGTGTAAGAGCATGTCTGGTATATGGCGTCGGCCTCGAT
1 A--TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAG
* * * * * *
82791789 TTCGATAGTCAATGTAAGACCATGTATGGGACATGGCATCGGCACGTATAG
1 AT-GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTA-AG
* * * *
82791840 A-G-GTGCCAGTGTAAGACCATGTCTGGG-CATGGCATCAGCACGGATATG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA---TTAAG
* * * * * ** *
82791888 -TGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCTCGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAG
* * * * * *
82791935 TTCGATAGTCAGTGTAAGACCATGTCCGGAACATGGCATCGAC-TT--G
1 AT-GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAG
* * *
82791981 ATGGATGATCCAGTGTAAGATCATGTCTGGGACATGGCATTGGCA
1 AT-GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
82792026 CTATACCATA
Statistics
Matches: 357, Mismatches: 90, Indels: 52
0.72 0.18 0.10
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 12 0.03
45 13 0.04
46 58 0.16
47 56 0.16
48 76 0.21
49 93 0.26
50 45 0.13
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAG
Found at i:82791618 original size:46 final size:46
Alignment explanation
Indices: 82791470--82791634 Score: 163
Period size: 46 Copynumber: 3.5 Consensus size: 46
82791460 TGTATGCTAG
* * * ** * *
82791470 TGTAAGACATGCCTAGGACATGCATCGGCCA-CATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CATTAAGATGAGAACCAA
* * * *
82791516 TGTAAGACCATGTTTGGGACATGGCATTGGCATTAAGATGAGAGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATTAAGATGAGAACCAA
* *
82791564 TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTA-AACCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCATTAAGATG-AGAACCAA
82791610 TGTAAGACATGTCTGGGACATGCAT
1 TGTAAGACATGTCTGGGACATGCAT
82791635 TGGCTACGAG
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
46 50 0.49
47 27 0.26
48 25 0.25
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGAACCAA
Found at i:82791941 original size:146 final size:146
Alignment explanation
Indices: 82791465--82792026 Score: 561
Period size: 146 Copynumber: 3.9 Consensus size: 146
82791455 TTCTTTGTAT
* * * * * *
82791465 GCTAGTGTAAGACATGCCTAGGACAT-GCATCGGCCAC-ATTAT-GAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGGCGTC-GCCTCGATT-TCGATAGTCAGTGTAAGACCAT
* * *
82791527 GTTTGGGACATGGCATTGGCA-TTA-AGATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCA
64 GTTTGGGACATGGCATCGGCACGTATAGATG-GTGCCAGTGTAAGACCATGTCTGGGACATGGCA
* *
82791588 TCGGC-CTTGAGATGT-AAA
128 TCGGCAC-AGATATGTGAAA
* * * * * **
82791606 -CCAATGTAAGACATGTCTGGGACAT-GCATTGGCTACGAGAT-G-T-GTCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGGCGTCGCCT-CGATTTCGATAGTCAGTGTAAGACCATG
* * * *
82791666 TTTGGGACATAGCATCGACACGTATAGA-GGTGCCAGTGTAAGACCATGACTGGGAGATGGCATC
65 TTTGGGACATGGCATCGGCACGTATAGATGGTGCCAGTGTAAGACCATGTCTGGGACATGGCATC
*
82791730 GGCACAGATATGTGAGA
130 GGCACAGATATGTGAAA
* * *
82791747 GCTAGTGTAAGAGCATGTCTGGTATATGGCGTCGGCCTCGATTTCGATAGTCAATGTAAGACCAT
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCGTC-GCCTCGATTTCGATAGTCAGTGTAAGACCAT
*
82791812 GTATGGGACATGGCATCGGCACGTATAGA-GGTGCCAGTGTAAGACCATGTCTGGG-CATGGCAT
64 GTTTGGGACATGGCATCGGCACGTATAGATGGTGCCAGTGTAAGACCATGTCTGGGACATGGCAT
* *
82791875 CAGCACGGATATGTGAAA
129 CGGCACAGATATGTGAAA
82791893 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCTCGATTTCGATAGTCAGTGTAAGACCAT
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCGTCG-CCTCGATTTCGATAGTCAGTGTAAGACCAT
** * * * * *
82791958 GTCCGGAACATGGCATC-G-ACTTGATGGATGAT-CCAGTGTAAGATCATGTCTGGGACATGGCA
64 GTTTGGGACATGGCATCGGCACGT-ATAGATGGTGCCAGTGTAAGACCATGTCTGGGACATGGCA
*
82792020 TTGGCAC
128 TCGGCAC
82792027 TATACCATAT
Statistics
Matches: 350, Mismatches: 52, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
138 46 0.13
139 17 0.05
140 45 0.13
141 4 0.01
142 9 0.03
143 12 0.03
144 10 0.03
145 31 0.09
146 110 0.31
147 66 0.19
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (146 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCGTCGCCTCGATTTCGATAGTCAGTGTAAGACCATGT
TTGGGACATGGCATCGGCACGTATAGATGGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
GCACAGATATGTGAAA
Found at i:82800150 original size:24 final size:23
Alignment explanation
Indices: 82800107--82800153 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
82800097 TATTTTTATA
82800107 TATATAATTTTTTTAATAAATTTG
1 TATATAATTTTTTT-ATAAATTTG
82800131 TATATAATTGTGTTTT-TAAATTT
1 TATATAATT-T-TTTTATAAATTT
82800154 ATTACGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 16 0.76
25 1 0.05
26 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (23 bp):
TATATAATTTTTTTATAAATTTG
Found at i:82801176 original size:2 final size:2
Alignment explanation
Indices: 82801169--82801193 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
82801159 ATGAACCCTT
82801169 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
82801194 GTTTTGTTGC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82802958 original size:48 final size:50
Alignment explanation
Indices: 82802875--82803058 Score: 146
Period size: 50 Copynumber: 3.8 Consensus size: 50
82802865 GCATTGAGAC
* * * * *
82802875 GAGAGCCAATGTAA-AACATGTCTGGGACATTGCATCGGCACGAATA-GA
1 GAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCACGAATATGA
* * *
82802923 G-GTGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCACGGATATGT
1 GAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCACGAATATGA
* * * * * **
82802972 GAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCG-AT-TTT
1 GAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGG-CACGAATATGA
* * *
82803021 GATAGTCTGTGTAAGACCATATCT-GGAACATGGCATCG
1 GAGAGCCAGTGTAAGACCATATCTAGG-ACATGGCATCG
82803059 ACTTGATAGA
Statistics
Matches: 110, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
47 10 0.09
48 30 0.27
49 33 0.30
50 34 0.31
51 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
GAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCACGAATATGA
Found at i:82803005 original size:50 final size:50
Alignment explanation
Indices: 82802895--82803058 Score: 167
Period size: 50 Copynumber: 3.3 Consensus size: 50
82802885 GTAAAACATG
* * * * *
82802895 TCTGGGACATTGCATCGGCACGAATA-GAG-GTGCCAGTGTAAGACCATA
1 TCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCATA
* *
82802943 TCTAGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCATG
1 TCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCATA
* * * *
82802993 TCTGGGATATGGCATCGGC-CTCGAT-TTTGATAGTCT-GTGTAAGACCATA
1 TCTGGGACATGGCATCGGCAC-GGATATGTGAGAG-CTAGTGTAAGACCATA
*
82803042 TCTGGAACATGGCATCG
1 TCTGGGACATGGCATCG
82803059 ACTTGATAGA
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
48 23 0.24
49 36 0.37
50 38 0.39
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
TCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCATA
Found at i:82805347 original size:21 final size:21
Alignment explanation
Indices: 82805299--82805360 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
82805289 TGTGTTTACT
* * *
82805299 TTCTGTTTAGCTCTCATGATC
1 TTCTGTTTAACTCTTATGAGC
* *
82805320 TTTTGTTTAACTCTTTTGAGC
1 TTCTGTTTAACTCTTATGAGC
82805341 TTCTGTTTAACTCTTATGAG
1 TTCTGTTTAACTCTTATGAG
82805361 TTTTCATTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.52
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGAGC
Found at i:82805391 original size:21 final size:21
Alignment explanation
Indices: 82805328--82805393 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
82805318 TCTTTTGTTT
* * *
82805328 AACTCTTTTGAGCTTCTGTTT
1 AACTCTTATGAGCTTCCGTTC
* * *
82805349 AACTCTTATGAGTTTTCATTC
1 AACTCTTATGAGCTTCCGTTC
*
82805370 AGCTCTTATGAGCTTCCGTTC
1 AACTCTTATGAGCTTCCGTTC
82805391 AAC
1 AAC
82805394 CCATATGGGT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.44
Consensus pattern (21 bp):
AACTCTTATGAGCTTCCGTTC
Found at i:82816354 original size:27 final size:27
Alignment explanation
Indices: 82816324--82816501 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
82816314 ATATTGAGTC
* * * *
82816324 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
82816351 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
82816378 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
82816406 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
82816433 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
82816460 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
82816487 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82816502 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:82816463 original size:82 final size:81
Alignment explanation
Indices: 82816345--82816500 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
82816335 TGCTATATAA
* *
82816345 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
82816410 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
82816427 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
82816491 CACTTAGTGC
65 CACTTAGTGC
82816501 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:82818888 original size:16 final size:18
Alignment explanation
Indices: 82818854--82818888 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
82818844 ACCTAAATAG
82818854 TAATATATTTTTTACATT
1 TAATATATTTTTTACATT
82818872 TAATAT-TTTTTTA-ATT
1 TAATATATTTTTTACATT
82818888 T
1 T
82818889 CAAAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 7 0.41
18 6 0.35
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TAATATATTTTTTACATT
Found at i:82819024 original size:18 final size:19
Alignment explanation
Indices: 82819001--82819037 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
82818991 AAGTTAATAA
82819001 CAAATTTGATTA-GGTGGG
1 CAAATTTGATTACGGTGGG
82819019 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
82819038 TGACAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.27, C:0.08, G:0.32, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:82829214 original size:13 final size:13
Alignment explanation
Indices: 82829196--82829220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82829186 TAATGGTATA
82829196 TTGAATCCATGAC
1 TTGAATCCATGAC
82829209 TTGAATCCATGA
1 TTGAATCCATGA
82829221 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:82829801 original size:27 final size:27
Alignment explanation
Indices: 82829770--82829947 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
82829760 TAAATTGTAC
82829770 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
82829797 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82829823 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
82829851 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
82829879 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82829906 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
82829933 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
82829948 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:82829884 original size:82 final size:81
Alignment explanation
Indices: 82829771--82829926 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
82829761 AAATTGTACA
* *
82829771 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
82829835 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
82829852 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
82829917 TGCGAGTTGA
65 TGCGAATTGA
82829927 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:82829938 original size:82 final size:81
Alignment explanation
Indices: 82829767--82829947 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
82829757 GATTAAATTG
* *
82829767 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
82829832 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
82829848 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
82829912 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
82829930 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
82829948 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:82829958 original size:27 final size:27
Alignment explanation
Indices: 82829852--82829958 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
82829842 TGACCATGCG
* * * *
82829852 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
82829880 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
82829907 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
82829934 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
82829959 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:82837985 original size:27 final size:27
Alignment explanation
Indices: 82837954--82838131 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
82837944 TAAATTGTAC
82837954 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
82837981 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82838007 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
82838035 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
82838063 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82838090 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
82838117 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
82838132 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:82838068 original size:82 final size:81
Alignment explanation
Indices: 82837955--82838110 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
82837945 AAATTGTACA
* *
82837955 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
82838019 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
82838036 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
82838101 TGCGAGTTGA
65 TGCGAATTGA
82838111 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:82838122 original size:82 final size:81
Alignment explanation
Indices: 82837951--82838131 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
82837941 GATTAAATTG
* *
82837951 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
82838016 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
82838032 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
82838096 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
82838114 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
82838132 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:82841156 original size:19 final size:19
Alignment explanation
Indices: 82841132--82841170 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
82841122 GAAAGTGGAT
82841132 TTCAATCTTTTCTTTCGGA
1 TTCAATCTTTTCTTTCGGA
*
82841151 TTCAATCTTTTCTTTTGGA
1 TTCAATCTTTTCTTTCGGA
82841170 T
1 T
82841171 CTAAGTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.10, T:0.56
Consensus pattern (19 bp):
TTCAATCTTTTCTTTCGGA
Found at i:82842137 original size:24 final size:26
Alignment explanation
Indices: 82842087--82842140 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
82842077 TTAGATACCT
*
82842087 TTTATTTTAAACTATTTTACATATTA
1 TTTATTTTAAAATATTTTACATATTA
* *
82842113 TTTA-TTTAAAAT-TTTTATATGTTA
1 TTTATTTTAAAATATTTTACATATTA
82842137 TTTA
1 TTTA
82842141 GATATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
25 7 0.28
26 4 0.16
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTATTTTAAAATATTTTACATATTA
Found at i:82842235 original size:27 final size:26
Alignment explanation
Indices: 82842205--82842267 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
82842195 TGAACTTTCC
* * *
82842205 ATATATTATTTATTTTTAAGTATTTTT
1 ATATATTATTTATTTTAAACTA-CTTT
* *
82842232 ATATACTCTTTATTTTAAACTACTTT
1 ATATATTATTTATTTTAAACTACTTT
82842258 ATATATTATT
1 ATATATTATT
82842268 ATCTGTTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATATTATTTATTTTAAACTACTTT
Found at i:82842321 original size:12 final size:12
Alignment explanation
Indices: 82842306--82842331 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
82842296 TTAGTTTAAA
82842306 TTGTTTTATATG
1 TTGTTTTATATG
82842318 TTGTTTTATATG
1 TTGTTTTATATG
82842330 TT
1 TT
82842332 ATTCATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTGTTTTATATG
Found at i:82842362 original size:23 final size:24
Alignment explanation
Indices: 82842321--82842377 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
82842311 TTATATGTTG
82842321 TTTTATATGTTATTCATTTTAAA-AC
1 TTTTATA--TTATTCATTTTAAACAC
* *
82842346 TTTTATATTATTTATTTTAAACTC
1 TTTTATATTATTCATTTTAAACAC
82842370 TTTTATAT
1 TTTTATAT
82842378 GTTTTTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 13 0.45
24 9 0.31
25 7 0.24
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTATATTATTCATTTTAAACAC
Found at i:82842570 original size:25 final size:25
Alignment explanation
Indices: 82842502--82842653 Score: 105
Period size: 26 Copynumber: 6.0 Consensus size: 25
82842492 ATTTATGTCA
* *
82842502 AATCTTTTTCATATATTGTTTATTCTG
1 AATC-TTTTCATATATTATTTATT-TT
*
82842529 AATCATTTCATATATTATTTATTTT
1 AATCTTTTCATATATTATTTATTTT
* *
82842554 AATTTTTTTATATATTATTTATTTTT
1 AATCTTTTCATATATTATTTA-TTTT
* * * *
82842580 AAACTTTTTATATCTT-TTTACTTT
1 AATCTTTTCATATATTATTTATTTT
**
82842604 AAT-TGGTTTCACCTATTATTTATTTT
1 AATCT--TTTCATATATTATTTATTTT
* *
82842630 AAACCTTGT--TATATTATTTATTTT
1 -AATCTTTTCATATATTATTTATTTT
82842654 TATATTATTT
Statistics
Matches: 99, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
23 1 0.01
24 18 0.18
25 30 0.30
26 43 0.43
27 6 0.06
28 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (25 bp):
AATCTTTTCATATATTATTTATTTT
Found at i:82842604 original size:24 final size:26
Alignment explanation
Indices: 82842538--82842655 Score: 79
Period size: 25 Copynumber: 4.7 Consensus size: 26
82842528 GAATCATTTC
**
82842538 ATATATTATTTAT-TTTAATTTTTTT
1 ATATATTATTTATCTTTAAACTTTTT
*
82842563 ATATATTATTTATTTTTAAACTTTTT
1 ATATATTATTTATCTTTAAACTTTTT
*
82842589 ATATCTT-TTTA-CTTT-AA-TTGGTTT
1 ATATATTATTTATCTTTAAACTT--TTT
** * *
82842613 CACCTATTATTTAT-TTTAAACCTTGT
1 -ATATATTATTTATCTTTAAACTTTTT
*
82842639 -TATATTATTTATTTTTA
1 ATATATTATTTATCTTTA
82842656 TATTATTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 16 0.22
25 25 0.34
26 25 0.34
27 2 0.03
28 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.64
Consensus pattern (26 bp):
ATATATTATTTATCTTTAAACTTTTT
Found at i:82843260 original size:127 final size:127
Alignment explanation
Indices: 82843109--82843340 Score: 294
Period size: 127 Copynumber: 1.8 Consensus size: 127
82843099 GTAGACTTTA
* * * *
82843109 TAAAACAAAGGCGATGTTTGATGTTT-AGAAATTCGAGG-GATCGTGCCCTAACGT-ATTGGGCT
1 TAAAACAAAAGCGATGGTTGATGTTTGAG-AATTCG-GGAAATCGTACCCTAACGTGA-TGGGCT
** *
82843171 TCGATCTTTC-GTTTATTTAAATAATCAAA-TTTCCCTTTAAAATCTCGTTTGCGTTTTTTAAAC
63 TCGAT-TTTCTGTTTATCCAAATAATCAAACATT-CCTTTAAAATCTCGTTTGCGTTTTTTAAAC
82843234 TT
126 TT
* * *
82843236 TAAAACAAAAGCGATGGTTGATGTTTGAGAATTTGGGAAATCGTACCCTAATGTGATGGGTTTCG
1 TAAAACAAAAGCGATGGTTGATGTTTGAGAATTCGGGAAATCGTACCCTAACGTGATGGGCTTCG
82843301 ATTTTCTGTTTATCCAAATAATCAAACATTCCTTTAAAAT
66 ATTTTCTGTTTATCCAAATAATCAAACATTCCTTTAAAAT
82843341 TCCGTCCACA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
126 6 0.07
127 79 0.88
128 5 0.06
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (127 bp):
TAAAACAAAAGCGATGGTTGATGTTTGAGAATTCGGGAAATCGTACCCTAACGTGATGGGCTTCG
ATTTTCTGTTTATCCAAATAATCAAACATTCCTTTAAAATCTCGTTTGCGTTTTTTAAACTT
Found at i:82848411 original size:50 final size:50
Alignment explanation
Indices: 82848352--82848447 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
82848342 TGTTCTACCT
* ***
82848352 AAAAAGGGAGAGGCCAAGGTGAAAACTTGCAAAGGACGCCTTGAGAAAAA
1 AAAAAGGGAGAGGCCAAGGCGAAAACCCACAAAGGACGCCTTGAGAAAAA
* *
82848402 AAAAAGGGAGAGGCTAAGGCGAAAACCCACAAAGGACGCTTTGAGA
1 AAAAAGGGAGAGGCCAAGGCGAAAACCCACAAAGGACGCCTTGAGA
82848448 CCAAAGGGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.45, C:0.16, G:0.30, T:0.09
Consensus pattern (50 bp):
AAAAAGGGAGAGGCCAAGGCGAAAACCCACAAAGGACGCCTTGAGAAAAA
Found at i:82849665 original size:64 final size:64
Alignment explanation
Indices: 82849559--82849682 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
82849549 TCATTCATAA
* *
82849559 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACAACTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
*
82849623 CACAACTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGGCATAA
1 CACAACTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAA
82849683 ACATAGATAC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (64 bp):
CACAACTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
Found at i:82849884 original size:44 final size:44
Alignment explanation
Indices: 82849758--82849892 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
82849748 AATTACAGAT
** * *
82849758 AGTAGTGGAGCAGATCAAAGACGGTGAGGCTTAACCCCTTGAGC
1 AGTAGTGGAGCAGATCAAAGACGGTGAACCTTAACCCCCTAAGC
* * * ** * * *
82849802 AGTAG-GGTAACAGGCTGAATTAC--AG-ACCTTATCTCCCTAAGC
1 AGTAGTGG-AGCA-GATCAAAGACGGTGAACCTTAACCCCCTAAGC
82849844 AGTAGTGGAGCAGATCAAAGACGGTGAACCTTAACCCCCTAAGC
1 AGTAGTGGAGCAGATCAAAGACGGTGAACCTTAACCCCCTAAGC
82849888 AGTAG
1 AGTAG
82849893 GGTAACAGGC
Statistics
Matches: 65, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
41 6 0.09
42 19 0.29
43 6 0.09
44 28 0.43
45 6 0.09
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (44 bp):
AGTAGTGGAGCAGATCAAAGACGGTGAACCTTAACCCCCTAAGC
Found at i:82849974 original size:89 final size:86
Alignment explanation
Indices: 82849768--82849960 Score: 226
Period size: 86 Copynumber: 2.2 Consensus size: 86
82849758 AGTAGTGGAG
** * *
82849768 CAGATCAAAGACGGTGAGGCTTAACCCCTTGAGCAGTAGGGTAACAGGCTGAATTACAGACCTTA
1 CAGATCAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGACCTTA
* * *
82849833 TCTCCCTAAGCAGTAGTGGAG
66 TCTCCCTAAGCAGCAGTAGAA
* *
82849854 CAGATCAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTATAGATCT
1 CAGATCAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTACAGACCT
* * *
82849919 TGTCTCTCTGAAGTTA-CAGTAGAA
64 TATCTCCCT-AAG-CAGCAGTAGAA
*
82849943 CAGATCGAAGACGGTGAA
1 CAGATCAAAGACGGTGAA
82849961 TCTTGTCTTC
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
86 47 0.52
87 1 0.01
88 16 0.18
89 25 0.28
90 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (86 bp):
CAGATCAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGACCTTA
TCTCCCTAAGCAGCAGTAGAA
Found at i:82850047 original size:131 final size:131
Alignment explanation
Indices: 82849899--82850153 Score: 395
Period size: 131 Copynumber: 1.9 Consensus size: 131
82849889 GTAGGGTAAC
****
82849899 AGGCTGAAGATTATAGATCTTGTCT-CTCTGAAGTTACAGTAGAACAGATCGAAGACGGTGAATC
1 AGGCTGAAGATTATAGATCTTGTCTCCT-TGAAGTTACAGTAGAACAGATCGAAGACAACAAATC
* *
82849963 TTGTCTTCCTAAACCATAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGCAGA
65 TTGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAGCAGA
82850028 GT
130 GT
* * *
82850030 AGGCTGAAGATTGTAGATCTTGTCTCCTTGAAGTTGCAGTGGAACAGATCGAAGACAACAAATCT
1 AGGCTGAAGATTATAGATCTTGTCTCCTTGAAGTTACAGTAGAACAGATCGAAGACAACAAATCT
* *
82850095 TGTCTCCCTAAACCGTAGTGGAGCAGATTTAAGCCACAATCCTATCTCTCTAAGCAGTA
66 TGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTA
82850154 ATAGAGCAGG
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
131 110 0.98
132 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (131 bp):
AGGCTGAAGATTATAGATCTTGTCTCCTTGAAGTTACAGTAGAACAGATCGAAGACAACAAATCT
TGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAGCAGAG
T
Found at i:82850187 original size:131 final size:131
Alignment explanation
Indices: 82849898--82850195 Score: 350
Period size: 131 Copynumber: 2.3 Consensus size: 131
82849888 AGTAGGGTAA
* * * ****
82849898 CAGGCTGAAGATTATAGATCTTGTCT-CTCTGAAGTTACAGTAGAACAGATCGAAGACGGTGAAT
1 CAGGCTGAAGATAATAGATCATATCTCCT-TGAAGTTACAGTAGAACAGATCGAAGACAACAAAT
* * *
82849962 CTTGTCTTCCTAAACCATAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGCAG
65 CTTGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAACAG
82850027 AG
130 AG
* ** * * * *
82850029 TAGGCTGAAGATTGTAGATCTTGTCTCCTTGAAGTTGCAGTGGAACAGATCGAAGACAACAAATC
1 CAGGCTGAAGATAATAGATCATATCTCCTTGAAGTTACAGTAGAACAGATCGAAGACAACAAATC
* * *
82850094 TTGTCTCCCTAAACCGTAGTGGAGCAGATTTAAGCCACAATCCTATCTCTCTAAGCAGTAATAGA
66 TTGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAACAGA
82850159 G
131 G
* *
82850160 CAGGTTGAA-ATCAATA-ATTCATATCTCCTTGGAGTT
1 CAGGCTGAAGAT-AATAGA-TCATATCTCCTTGAAGTT
82850196 TCAGCGGAGT
Statistics
Matches: 143, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
130 3 0.02
131 138 0.97
132 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (131 bp):
CAGGCTGAAGATAATAGATCATATCTCCTTGAAGTTACAGTAGAACAGATCGAAGACAACAAATC
TTGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAACAGA
G
Found at i:82850210 original size:131 final size:130
Alignment explanation
Indices: 82849898--82850233 Score: 329
Period size: 131 Copynumber: 2.6 Consensus size: 130
82849888 AGTAGGGTAA
* * * * ** ****
82849898 CAGGCTGAAGATTATAGATCTTGTCT-CTCTGAAGTTACAGTAGAACAGATCGAAGACGGTGAAT
1 CAGGCTGAAGATAATAGATCATATCTCCT-TGAAGTTGCAGCGGAACAGATCG-AGACAACAAAT
* * *
82849962 CTTGTCTTCCTAAACCATAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGCAG
64 CTTGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAACAG
82850027 AG
129 AG
* ** * * *
82850029 TAGGCTGAAGATTGTAGATCTTGTCTCCTTGAAGTTGCAGTGGAACAGATCGAAGACAACAAATC
1 CAGGCTGAAGATAATAGATCATATCTCCTTGAAGTTGCAGCGGAACAGATCG-AGACAACAAATC
* * *
82850094 TTGTCTCCCTAAACCGTAGTGGAGCAGATTTAAGCCACAATCCTATCTCTCTAAGCAGTAATAGA
65 TTGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAACAGA
82850159 G
130 G
* * * ** * *
82850160 CAGGTTGAA-ATCAATA-ATTCATATCTCCTTGGAGTTTCAGCGGAGTAGATCGAGGCTACAAAT
1 CAGGCTGAAGAT-AATAGA-TCATATCTCCTTGAAGTTGCAGCGGAACAGATCGAGACAACAAAT
82850223 CTCT-TCTCCCT
64 CT-TGTCTCCCT
82850234 GAAATGGCAT
Statistics
Matches: 174, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
130 21 0.12
131 151 0.87
132 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (130 bp):
CAGGCTGAAGATAATAGATCATATCTCCTTGAAGTTGCAGCGGAACAGATCGAGACAACAAATCT
TGTCTCCCTAAACCATAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAACAGAG
Found at i:82850421 original size:44 final size:42
Alignment explanation
Indices: 82850288--82850421 Score: 94
Period size: 44 Copynumber: 3.1 Consensus size: 42
82850278 AGTTCCAGCA
* *
82850288 GAGTAGATCGAAGCTATAAATCTCTTCTCCCTGAAATGGCACT-
1 GAGTAGATCGAAGCTACAAATCTCTTCT-CCTGAAATGGC-GTG
** * * * **
82850331 GAG-AGGCCCGAAGCTAC-AATTTGTATCTCCTTGAAGTTCCAGTG
1 GAGTA-GATCGAAGCTACAAATCTCT-TCTCC-TGAAATGGC-GTG
82850375 GAGTAGATCGAAGCTACAAATCTCTTCTACCTGAAATGGCGTTG
1 GAGTAGATCGAAGCTACAAATCTCTTCT-CCTGAAATGGCG-TG
82850419 GAG
1 GAG
82850422 CGGCTTGAAG
Statistics
Matches: 67, Mismatches: 16, Indels: 15
0.68 0.16 0.15
Matches are distributed among these distances:
42 8 0.12
43 24 0.36
44 27 0.40
45 8 0.12
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (42 bp):
GAGTAGATCGAAGCTACAAATCTCTTCTCCTGAAATGGCGTG
Found at i:82850477 original size:88 final size:88
Alignment explanation
Indices: 82850177--82850588 Score: 490
Period size: 88 Copynumber: 4.7 Consensus size: 88
82850167 AAATCAATAA
* *
82850177 TTCATATCTCCTTGGAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
1 TTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGC
* * *
82850242 ATTGGAGCTGCTCGAAGCCACAG
66 ACTGGAGCGGCCCGAAGCCACAG
* * * * *
82850265 --CAGATCTCCTTAAAGTTCCAGCAGAGTAGATCGAAGCTATAAATCTCTTCTCCCTGAAATGGC
1 TTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGC
* * *
82850328 ACT-GAGAGGCCCGAAGCTACAA
66 ACTGGAGCGGCCCGAAGCCACAG
** * * *
82850350 TTTGTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTACCTGAAATGGC
1 TTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGC
** **
82850415 GTTGGAGCGGCTTGAAGCCACAG
66 ACTGGAGCGGCCCGAAGCCACAG
* *
82850438 TTCATATCTCCTTGAAGTTTTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATAGC
1 TTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGC
* * *
82850503 ACTGGAACGGCCTGAAGCCA-TG
66 ACTGGAGCGGCCCGAAGCCACAG
* * * ** *
82850525 ATCCGTATCCCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAGATCTCTTCTCCCTGAAATG
1 -TTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
82850589 ATATTGGAGC
Statistics
Matches: 272, Mismatches: 48, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
85 14 0.05
86 58 0.21
87 57 0.21
88 143 0.53
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (88 bp):
TTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGC
ACTGGAGCGGCCCGAAGCCACAG
Found at i:82850598 original size:176 final size:173
Alignment explanation
Indices: 82850181--82850610 Score: 565
Period size: 176 Copynumber: 2.5 Consensus size: 173
82850171 CAATAATTCA
* * *
82850181 TATCTCCTTGGAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* * *
82850246 GAGCTGCTCGAAGCCACAGCAGATCTCCTTAAAGTTCCAGCAGAGTAGATCGAAGCTATAAATCT
66 GAGCAGCTTGAAGCCACAGCAGATCTCCTTAAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCT
* * **
82850311 CTTCTCCCTGAAATGGCACTGAGAGGCCCGAAGCTACAATTTG
131 CTTCTCCCTGAAATAGCACTGAGAGGCCCGAAGCCACAATCCG
* * *
82850354 TATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTACCTGAAATGGCGTTG
1 TATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* * * ** *
82850419 GAGCGGCTTGAAGCCACAGTTCATATCTCCTTGAAGTTTTAGCGGAGTAGATCGAAGCTACAAAT
66 GAGCAGCTTGAAGCCACAG--CAGATCTCCTTAAAGTTCCAGCAGAGTAGATCGAAGCTACAAAT
* **
82850484 CTCTTCTCCCTGAAATAGCACTG-GAACGGCCTGAAGCCATGATCCG
129 CTCTTCTCCCTGAAATAGCACTGAG-A-GGCCCGAAGCCACAATCCG
* * * **
82850530 TATCCCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAGATCTCTTCTCCCTGAAATGATATTG
1 TATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
82850595 GAGCAGATTGAAGCCA
66 GAGCAGCTTGAAGCCA
82850611 TTACACCTTA
Statistics
Matches: 222, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
173 76 0.34
174 1 0.00
175 61 0.27
176 84 0.38
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (173 bp):
TATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTG
GAGCAGCTTGAAGCCACAGCAGATCTCCTTAAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCT
CTTCTCCCTGAAATAGCACTGAGAGGCCCGAAGCCACAATCCG
Found at i:82850763 original size:45 final size:45
Alignment explanation
Indices: 82850657--82850909 Score: 203
Period size: 44 Copynumber: 5.6 Consensus size: 45
82850647 TTGAAGTTAA
* ** * *
82850657 AATCTTATCTCCCTAAAGTTGCAGT-GAAGCAGGTTGAAATTA--A
1 AATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGACTGAAAATAGTG
*
82850700 AAGTCTTATCTCCCTGAAGCTGCAGTAGAGCAGACTGAAAATAGTG
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAGTG
* * * * * *
82850746 AATCTTATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGCTACAGATCACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAA--AATAG-T---G
* * ** * *
82850797 AACCTTATCTCCTTGAAGTTGCAGTAGAGCAGGTTGAAATTA--C
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAGTG
*
82850840 AAGTCTTATCTCCCTGAAGTT-TAGTAGAGCAGACTGAAAATAGTG
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAGTG
*
82850885 AATCTTATCTCTCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
82850910 GGGGCAGATT
Statistics
Matches: 165, Mismatches: 31, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
43 21 0.13
44 66 0.40
45 38 0.23
46 2 0.01
47 3 0.02
48 1 0.01
49 1 0.01
51 33 0.20
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAGTG
Found at i:82850915 original size:139 final size:138
Alignment explanation
Indices: 82850660--82851058 Score: 526
Period size: 139 Copynumber: 2.9 Consensus size: 138
82850650 AAGTTAAAAT
* * * *
82850660 CTTATCTCCCTAAAGTTGCAGTGAAGCAGGTTGAAATTAAAAGTCTTATCTCCCTGAAGCTGCAG
1 CTTATCTCCTTGAAGTTGCAGTG-AGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAG-TTCAG
*
82850725 TAGAGCAGACTGAAAATAGTGAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGCTACA
64 TAGAGCAGACTGAAAATAGTGAATCTTATCTCTCTGAAGTTGCAGTGGGGCAGATTGAAGCTACA
82850790 GATCACAAAC
129 GATCACAAAC
*
82850800 CTTATCTCCTTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTTAGT
1 CTTATCTCCTTGAAGTTGCAGT-GAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTCAGT
82850865 AGAGCAGACTGAAAATAGTGAATCTTATCTCTCTGAAGTTGCAGTGGGGCAGATTGAAGCTACAG
65 AGAGCAGACTGAAAATAGTGAATCTTATCTCTCTGAAGTTGCAGTGGGGCAGATTGAAGCTACAG
82850930 ATCACAAAC
130 ATCACAAAC
* * * *
82850939 CTTATCT--TTGTAG-TG--G-G-GCAGGTTGAAGTTACGAGTCTTATAC-ACCTGAAGTTACAG
1 CTTATCTCCTTGAAGTTGCAGTGAGCAGGTTGAAATTACAAGTCTTAT-CTCCCTGAAGTT-CAG
* * * ** * * * *
82850996 TGGAACAGACTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTA
64 TAGAGCAGACTGAAAATAGTGAATCTTATCTCTCTGAAGTTGCAGTGGGGCAGATTGAAGCTA
82851059 TAAATCCTAT
Statistics
Matches: 236, Mismatches: 20, Indels: 14
0.87 0.07 0.05
Matches are distributed among these distances:
131 31 0.13
132 58 0.25
134 1 0.00
136 2 0.01
137 5 0.02
139 84 0.36
140 54 0.23
141 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (138 bp):
CTTATCTCCTTGAAGTTGCAGTGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTCAGTA
GAGCAGACTGAAAATAGTGAATCTTATCTCTCTGAAGTTGCAGTGGGGCAGATTGAAGCTACAGA
TCACAAAC
Found at i:82851264 original size:45 final size:45
Alignment explanation
Indices: 82850530--82851277 Score: 197
Period size: 44 Copynumber: 16.6 Consensus size: 45
82850520 CCATGATCCG
* * * *
82850530 TATC-CCCTTGAAGTTTCAATGGAGTAGATCGAAGCTAC-AGATCT
1 TATCTCCC-TGAAGTTGCAATGGAGCAGATTGAAGATACAAGATCT
* ** ** * *
82850574 CT-TCTCCCTGAA-ATG-ATATTGGAGCAGATTGAAGCCATTACACCT
1 -TATCTCCCTGAAGTTGCA-A-TGGAGCAGATTGAAGATACAAGATCT
* *** * *
82850619 TATCTCCTTGAAACGGCAATGGAACA-AGTTGAAGTTA-AA-ATCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGA-TTGAAGATACAAGATCT
* * * * *
82850662 TATCTCCCTAAAGTTGCAGTGAAGCAGGTTGAA-ATTAAAAG-TCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA-TACAAGATCT
* * * * * **
82850706 TATCTCCCTGAAGCTGCAGTAGAGCAGACTGAAAATA-GTGAATCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATACAAG-ATCT
* * *
82850751 TATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGCTACAGATCACAA-ACCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATT---G--A-AGAT-ACAAGATCT
* * * *
82850802 TATCTCCTTGAAGTTGCAGTAGAGCAGGTTGAA-ATTACAAG-TCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA-TACAAGATCT
* * * * * **
82850846 TATCTCCCTGAAGTT-TAGTAGAGCAGACTGAAAATA-GTGAATCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATACAAG-ATCT
* * * *
82850890 TATCTCTCTGAAGTTGCAGTGGGGCAGATTGAAGCTAC-AGATC-
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATACAAGATCT
** * ** * * * * * *
82850933 -A-CAAACCTTATCTTTGTAGTGGGGCAGGTTGAAGTTACGAG-TCT
1 TATC-TCCCTGA-AGTTGCAATGGAGCAGATTGAAGATACAAGATCT
* * * * *
82850977 TATAC-ACCTGAAGTTACAGTGGAACAGACTGAAGATAGCAA-ATCT
1 TAT-CTCCCTGAAGTTGCAATGGAGCAGATTGAAGATA-CAAGATCT
* * * * * * * *
82851022 TATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAA-ATCC
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATACAAGATCT
* * * ** ***
82851066 TATACT-TCTGAAGTTGCAGTAGGTTGGATCAAACTT-ACTAT-GGTGAATCT
1 TAT-CTCCCTGAAGTTGCA--A---TGGAGCAGA-TTGAAGATACAAG-ATCT
** * * * *
82851116 TATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGCTACAA-ACCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATACAAGATCT
* * * *
82851160 TATCCCCCTGAAGTTGCAGTGGGGCA-AGTTGAAGTTACAAG-TCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGA-TTGAAGATACAAGATCT
* *
82851204 TATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGAAGATCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATACAAGATCT
*
82851249 TATCTCCTTGAAGTTGCAATGGAGCAGAT
1 TATCTCCCTGAAGTTGCAATGGAGCAGAT
82851278 CAAGCTACAA
Statistics
Matches: 514, Mismatches: 133, Indels: 112
0.68 0.18 0.15
Matches are distributed among these distances:
41 1 0.00
42 6 0.01
43 72 0.14
44 211 0.41
45 156 0.30
46 3 0.01
47 2 0.00
48 2 0.00
49 10 0.02
50 18 0.04
51 32 0.06
52 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATACAAGATCT
Found at i:82851417 original size:44 final size:45
Alignment explanation
Indices: 82851320--82851521 Score: 148
Period size: 44 Copynumber: 4.6 Consensus size: 45
82851310 CACAAACCTC
* * *
82851320 ATCTCCCTGAAATTGCAGTAGAGCTGAGTTAAAGCTATAAGCCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAGTTAAAGCTATAAGCCTT
* * * *
82851365 ATCCCCCTGAAGTTGCAGTGGGGCAG-GTTAAAGTTATGAGTCC-T
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAGTTAAAGCTATAAG-CCTT
* ** ** *
82851409 ATCTCCCTGAAGTTGCAGTGGAGC-GAATCGAATATAGTAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAGTTAAAGCTA-TAAGCCTT
* * * * **
82851454 ATCT--C-GAAGTTTCAGCGAAGCAGA-TTGAAGCTACCAGCCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAGTTAAAGCTATAAGCCTT
* *
82851495 ATCTCCTTGAAGTTGCAGTGGGGCAGA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA
82851522 ATGAAGATAG
Statistics
Matches: 119, Mismatches: 30, Indels: 17
0.72 0.18 0.10
Matches are distributed among these distances:
41 9 0.08
42 19 0.16
43 4 0.03
44 57 0.48
45 30 0.25
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGAGTTAAAGCTATAAGCCTT
Found at i:82851432 original size:159 final size:159
Alignment explanation
Indices: 82851140--82851432 Score: 356
Period size: 159 Copynumber: 1.8 Consensus size: 159
82851130 TATAGTGGAG
* * * * * * * * *
82851140 TAGATTGAAGCTACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTT
1 TAGATTAAAGCCACAAACCTCATCCCCCTGAAATTGCAGTAGAGCAAGTTAAAGCTACAAGCCTT
* * * *
82851205 ATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGAAGATCTTATCTCCTTGAAGTTGCAATG
66 ATCCCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGAAGATCCTATCTCCCTGAAGTTGCAATG
82851270 GAGCAGATCAAGCTACAATTGCAGAAGAA
131 GAGCAGATCAAGCTACAATTGCAGAAGAA
* * *
82851299 TAGATTAAAGCCACAAACCTCATCTCCCTGAAATTGCAGTAGAGCTGAGTTAAAGCTATAAGCCT
1 TAGATTAAAGCCACAAACCTCATCCCCCTGAAATTGCAGTAGAGC-AAGTTAAAGCTACAAGCCT
* * ** * *
82851364 TATCCCCCTGAAGTTGCAGTGGGGCAGGTTAAAGTTATG-AG-TCCTATCTCCCTGAAGTTGCAG
65 TATCCCCCTGAAGTTGCAATGGAGCAGACTAAAGATA-GAAGATCCTATCTCCCTGAAGTTGCAA
82851427 TGGAGC
129 TGGAGC
82851433 GAATCGAATA
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
159 63 0.57
160 46 0.42
161 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (159 bp):
TAGATTAAAGCCACAAACCTCATCCCCCTGAAATTGCAGTAGAGCAAGTTAAAGCTACAAGCCTT
ATCCCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGAAGATCCTATCTCCCTGAAGTTGCAATG
GAGCAGATCAAGCTACAATTGCAGAAGAA
Found at i:82852206 original size:18 final size:19
Alignment explanation
Indices: 82852156--82852194 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
82852146 GAAAGTGGAT
82852156 TTCAATCTTTTCTTTCGGA
1 TTCAATCTTTTCTTTCGGA
82852175 TTCAATCTTTTCTTTCGGA
1 TTCAATCTTTTCTTTCGGA
82852194 T
1 T
82852195 CTAAGTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.10, T:0.54
Consensus pattern (19 bp):
TTCAATCTTTTCTTTCGGA
Found at i:82853161 original size:24 final size:26
Alignment explanation
Indices: 82853111--82853164 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
82853101 TTAGATACCT
*
82853111 TTTATTTTAAACTATTTTACATATTA
1 TTTATTTTAAAATATTTTACATATTA
* *
82853137 TTTA-TTTAAAAT-TTTTATATGTTA
1 TTTATTTTAAAATATTTTACATATTA
82853161 TTTA
1 TTTA
82853165 GATATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
25 7 0.28
26 4 0.16
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTATTTTAAAATATTTTACATATTA
Found at i:82853259 original size:27 final size:26
Alignment explanation
Indices: 82853229--82853291 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
82853219 TGAACTTTCC
* * *
82853229 ATATATTATTTATTTTTAAGTATTTTT
1 ATATATTATTTATTTTAAACTA-CTTT
* *
82853256 ATATACTCTTTATTTTAAACTACTTT
1 ATATATTATTTATTTTAAACTACTTT
82853282 ATATATTATT
1 ATATATTATT
82853292 ATCTGTTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATATTATTTATTTTAAACTACTTT
Found at i:82853345 original size:12 final size:12
Alignment explanation
Indices: 82853330--82853355 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
82853320 TTAGTTTAAA
82853330 TTGTTTTATATG
1 TTGTTTTATATG
82853342 TTGTTTTATATG
1 TTGTTTTATATG
82853354 TT
1 TT
82853356 ATTCATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTGTTTTATATG
Found at i:82853386 original size:23 final size:24
Alignment explanation
Indices: 82853345--82853401 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
82853335 TTATATGTTG
82853345 TTTTATATGTTATTCATTTTAAA-AC
1 TTTTATA--TTATTCATTTTAAACAC
* *
82853370 TTTTATATTATTTATTTTAAACTC
1 TTTTATATTATTCATTTTAAACAC
82853394 TTTTATAT
1 TTTTATAT
82853402 GTTTTTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 13 0.45
24 9 0.31
25 7 0.24
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTATATTATTCATTTTAAACAC
Found at i:82853490 original size:27 final size:27
Alignment explanation
Indices: 82853460--82853600 Score: 83
Period size: 27 Copynumber: 5.6 Consensus size: 27
82853450 AATTTATTAC
82853460 ATATATT-TATGTATT-TGAAATTGTTTT
1 ATATATTAT-TGTATTCT-AAATTGTTTT
*
82853487 ATATATTATTTTATTCTAAATTGTTTT
1 ATATATTATTGTATTCTAAATTGTTTT
82853514 ATAT-TTA-TG---TC-AAATCT-TTTT
1 ATATATTATTGTATTCTAAAT-TGTTTT
* * ** *
82853535 CATATATTGTT-TATTCTGAATCATTTC
1 -ATATATTATTGTATTCTAAATTGTTTT
* *
82853562 ATATATTATT-TATT-TTAATTTTTTT
1 ATATATTATTGTATTCTAAATTGTTTT
82853587 ATATATTATT-TATT
1 ATATATTATTGTATT
82853601 TTTAAACTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
21 8 0.09
22 7 0.08
23 2 0.02
24 1 0.01
25 22 0.24
26 18 0.20
27 32 0.35
28 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (27 bp):
ATATATTATTGTATTCTAAATTGTTTT
Found at i:82853611 original size:26 final size:25
Alignment explanation
Indices: 82853460--82853677 Score: 110
Period size: 26 Copynumber: 8.6 Consensus size: 25
82853450 AATTTATTAC
* * *
82853460 ATATATTTATGTATTTGAAATTGTTTT
1 ATATA-TTATTTATTTTAAACT-TTTT
* *
82853487 ATATATTATTTTATTCTAAA-TTGTT
1 ATATATTA-TTTATTTTAAACTTTTT
* *
82853512 -T-TA-TATTTATGTCAAATCTTTTT
1 ATATATTATTTATTTTAAA-CTTTTT
* * * * *
82853535 CATATATTGTTTATTCTGAATCATTTC
1 -ATATATTATTTATT-TTAAACTTTTT
**
82853562 ATATATTATTTATTTTAATTTTTTT
1 ATATATTATTTATTTTAAACTTTTT
82853587 ATATATTATTTATTTTTAAACTTTTT
1 ATATATTATTTA-TTTTAAACTTTTT
* *
82853613 ATATCTT-TTTACTTT-AA-TTGGTTT
1 ATATATTATTTATTTTAAACTT--TTT
** * *
82853637 CACCTATTATTTATTTTAAACCTTGT
1 -ATATATTATTTATTTTAAACTTTTT
82853663 -TATATTATTTATTTT
1 ATATATTATTTATTTT
82853678 TATATTATTT
Statistics
Matches: 145, Mismatches: 31, Indels: 33
0.69 0.15 0.16
Matches are distributed among these distances:
21 8 0.06
22 4 0.03
23 8 0.06
24 20 0.14
25 31 0.21
26 45 0.31
27 25 0.17
28 4 0.03
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.61
Consensus pattern (25 bp):
ATATATTATTTATTTTAAACTTTTT
Found at i:82853628 original size:24 final size:26
Alignment explanation
Indices: 82853562--82853679 Score: 79
Period size: 25 Copynumber: 4.7 Consensus size: 26
82853552 GAATCATTTC
**
82853562 ATATATTATTTAT-TTTAATTTTTTT
1 ATATATTATTTATCTTTAAACTTTTT
*
82853587 ATATATTATTTATTTTTAAACTTTTT
1 ATATATTATTTATCTTTAAACTTTTT
*
82853613 ATATCTT-TTTA-CTTT-AA-TTGGTTT
1 ATATATTATTTATCTTTAAACTT--TTT
** * *
82853637 CACCTATTATTTAT-TTTAAACCTTGT
1 -ATATATTATTTATCTTTAAACTTTTT
*
82853663 -TATATTATTTATTTTTA
1 ATATATTATTTATCTTTA
82853680 TATTATTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 16 0.22
25 25 0.34
26 25 0.34
27 2 0.03
28 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.64
Consensus pattern (26 bp):
ATATATTATTTATCTTTAAACTTTTT
Found at i:82857618 original size:15 final size:15
Alignment explanation
Indices: 82857594--82857625 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
82857584 TATACATGCA
*
82857594 AAATATAAAAGACAT
1 AAATACAAAAGACAT
82857609 AAATACAAAAGACAT
1 AAATACAAAAGACAT
82857624 AA
1 AA
82857626 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:82860671 original size:41 final size:41
Alignment explanation
Indices: 82860585--82860737 Score: 213
Period size: 41 Copynumber: 3.8 Consensus size: 41
82860575 AATTATACAT
82860585 TAGCGGCGTTTTTGGCAAAGCGCTA-CT-AAAAACAGAGCAA
1 TAGCGGCGTTTTTGGCAAAGCGC-AGCTAAAAAACAGAGCAA
82860625 TAGCGGCGTTTTTGGCAAAGCGCAGCTAAAAAACAGAGCAA
1 TAGCGGCGTTTTTGGCAAAGCGCAGCTAAAAAACAGAGCAA
* * *
82860666 AAGCGGCG-TTTTGGTCAAAGCACCGCTAAAAAACAGAGCAA
1 TAGCGGCGTTTTTGG-CAAAGCGCAGCTAAAAAACAGAGCAA
* * *
82860707 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAA
1 TAGCGGCGTTTTTGGCAAAGCGCAGCTAAAA
82860738 GTCATATAAC
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.01
40 31 0.30
41 64 0.63
42 6 0.06
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (41 bp):
TAGCGGCGTTTTTGGCAAAGCGCAGCTAAAAAACAGAGCAA
Found at i:82860868 original size:48 final size:47
Alignment explanation
Indices: 82860739--82860876 Score: 127
Period size: 48 Copynumber: 2.8 Consensus size: 47
82860729 CCGCTAAAAG
* * * *
82860739 TCATATAACCCCTAAAACCTTAAACCCCAAAAAAAATCATAGACATTAG
1 TCATATAACCCCTAAAACCCTAAA--CCAAAAAAAATCATAAACACTAA
* * * *
82860788 TCTATATAACCTCTAAACCCCTAAACCCAAAAAAA-CTTTAAACACTAA
1 TC-ATATAACCCCTAAAACCCTAAACCAAAAAAAATC-ATAAACACTAA
82860836 TC-TATAACCCCTAAAACCCTAAACCTTAAAAAAACATCATA
1 TCATATAACCCCTAAAACCCTAAACC--AAAAAAA-ATCATA
82860877 TGGATATTGA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
46 21 0.30
47 1 0.01
48 24 0.34
49 5 0.07
50 20 0.28
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (47 bp):
TCATATAACCCCTAAAACCCTAAACCAAAAAAAATCATAAACACTAA
Found at i:82861723 original size:6 final size:6
Alignment explanation
Indices: 82861707--82861737 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
82861697 ACCCATACGA
*
82861707 TCCCTT CCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
82861738 GGTTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
TCCCTT
Found at i:82862389 original size:7 final size:7
Alignment explanation
Indices: 82862377--82862415 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
82862367 AATCTTTAAA
82862377 AAAATTG
1 AAAATTG
82862384 AAAATTG
1 AAAATTG
82862391 AAAATTG
1 AAAATTG
82862398 AAAATTG
1 AAAATTG
82862405 AAAATTG
1 AAAATTG
82862412 AAAA
1 AAAA
82862416 ATAAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (7 bp):
AAAATTG
Found at i:82862422 original size:14 final size:14
Alignment explanation
Indices: 82862376--82862436 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
82862366 AAATCTTTAA
82862376 AAAAATTGAAAATT
1 AAAAATTGAAAATT
*
82862390 GAAAATTGAAAATT
1 AAAAATTGAAAATT
* *
82862404 GAAAATTGAAAAATAA
1 AAAAATTG-AAAAT-T
82862420 AAAAATT-AAAATT
1 AAAAATTGAAAATT
82862433 AAAA
1 AAAA
82862437 CCTTAAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 4 0.10
14 26 0.63
15 5 0.12
16 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (14 bp):
AAAAATTGAAAATT
Found at i:82862430 original size:7 final size:7
Alignment explanation
Indices: 82862376--82862452 Score: 57
Period size: 7 Copynumber: 10.6 Consensus size: 7
82862366 AAATCTTTAA
82862376 AAAAATT
1 AAAAATT
*
82862383 GAAAATT
1 AAAAATT
*
82862390 GAAAATT
1 AAAAATT
*
82862397 GAAAATT
1 AAAAATT
*
82862404 GAAAATT
1 AAAAATT
*
82862411 GAAAAATAA
1 -AAAAAT-T
82862420 AAAAATT
1 AAAAATT
82862427 -AAAATT
1 AAAAATT
*
82862433 AAAACCTT
1 AAAA-ATT
82862441 AAAAACTT
1 AAAAA-TT
82862449 AAAA
1 AAAA
82862453 TTTTAATATT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
6 6 0.10
7 30 0.51
8 23 0.39
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:82862436 original size:21 final size:22
Alignment explanation
Indices: 82862373--82862436 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
82862363 TAAAAATCTT
*
82862373 TAAAAAAATTGAAAATTGAAAA
1 TAAAAAAATTGAAAATTAAAAA
**
82862395 T-TGAAAATTGAAAATTGAAAAA
1 TAAAAAAATTGAAAATT-AAAAA
82862417 TAAAAAAATT-AAAATTAAAA
1 TAAAAAAATTGAAAATTAAAA
82862437 CCTTAAAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 17 0.49
22 12 0.34
23 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (22 bp):
TAAAAAAATTGAAAATTAAAAA
Found at i:82862526 original size:17 final size:18
Alignment explanation
Indices: 82862504--82862539 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
82862494 ATCAATATTT
82862504 AAAATTT-AAAAAAAATA
1 AAAATTTCAAAAAAAATA
*
82862521 AAAATTTCAAAAAATATA
1 AAAATTTCAAAAAAAATA
82862539 A
1 A
82862540 TCTCAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAATTTCAAAAAAAATA
Found at i:82867899 original size:44 final size:43
Alignment explanation
Indices: 82867721--82867901 Score: 104
Period size: 43 Copynumber: 4.2 Consensus size: 43
82867711 TTGGGTAAAG
* * * * * *
82867721 CGCCGCTAAAGGTCATTAGCTTTAGCGGCCTTTTTTTAAAAAAA
1 CGCCGCTAAAAGTCATGATCTTTAGTGG-CGTTTTTTAAACAAA
* * * * * * *
82867765 TGCCGCTAAAAGTCTTGGTTTTTAATGGCGTTTTCTAAA-ACAG
1 CGCCGCTAAAAGTCATGATCTTTAGTGGCGTTTTTTAAACA-AA
* * * * *
82867808 CGCCACT-AAAGACCAGGCT-TTTAGCT-GCGCATTTTTAAA-AAA
1 CGCCGCTAAAAG-TCATGATCTTTAG-TGGCG-TTTTTTAAACAAA
82867850 -GCCGCTAAAAGTCATGATCTTTAGTGGCGTTTTTTCAAACAAA
1 CGCCGCTAAAAGTCATGATCTTTAGTGGCGTTTTTT-AAACAAA
82867893 CGCCGCTAA
1 CGCCGCTAA
82867902 TTTTAGCGGC
Statistics
Matches: 100, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
41 15 0.15
42 28 0.28
43 30 0.30
44 27 0.27
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (43 bp):
CGCCGCTAAAAGTCATGATCTTTAGTGGCGTTTTTTAAACAAA
Found at i:82869747 original size:24 final size:24
Alignment explanation
Indices: 82869713--82869780 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
82869703 TCCCAAAGCC
*
82869713 TAAAACAACCATTCAATATACTTG
1 TAAAACGACCATTCAATATACTTG
82869737 TAAAACGACCATTCAATATACTTG
1 TAAAACGACCATTCAATATACTTG
82869761 TAAAACGACCATTCAATATA
1 TAAAACGACCATTCAATATA
82869781 TTGGCTGCTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.28
Consensus pattern (24 bp):
TAAAACGACCATTCAATATACTTG
Found at i:82871752 original size:28 final size:28
Alignment explanation
Indices: 82871703--82871758 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
82871693 TATTTTGTTT
* *
82871703 TAATTTAAAATATATTTAAAATTAATAA
1 TAATTTAAAATATATTAAAAATAAATAA
*
82871731 TAATTTATAA-ATATTAATAAATAAATAA
1 TAATTTAAAATATATTAA-AAATAAATAA
82871759 ATAAAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
TAATTTAAAATATATTAAAAATAAATAA
Found at i:82872246 original size:10 final size:9
Alignment explanation
Indices: 82872227--82872265 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
82872217 CTACTTTTAG
82872227 TTTTATATT
1 TTTTATATT
82872236 TTTTCATATT
1 TTTT-ATATT
82872246 TTTTATATT
1 TTTTATATT
* *
82872255 ATTAATATT
1 TTTTATATT
82872264 TT
1 TT
82872266 AATGATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTATATT
Found at i:82883995 original size:40 final size:40
Alignment explanation
Indices: 82883912--82884174 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
82883902 TTGAATGCTG
* * * * * *
82883912 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
82883952 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
82883992 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
82884032 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
82884072 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
82884112 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
82884151 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
82884175 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:82884194 original size:79 final size:80
Alignment explanation
Indices: 82883951--82884209 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
82883941 AAGTGAATAT
* * * * * *
82883951 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
82884015 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
82884031 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
82884096 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
82884111 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
82884175 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
82884190 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
82884210 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:82891946 original size:40 final size:40
Alignment explanation
Indices: 82891915--82892206 Score: 412
Period size: 40 Copynumber: 7.3 Consensus size: 40
82891905 GGACTAAGAT
82891915 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
82891955 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
82891995 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
82892035 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
82892075 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * * * *
82892115 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
* * * * * *
82892155 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
82892194 CCGAAGGCATTTG
1 CCGAAGGCATTTG
82892207 AACGAGGAGC
Statistics
Matches: 236, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 33 0.14
40 200 0.85
41 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:82892224 original size:79 final size:80
Alignment explanation
Indices: 82891863--82892239 Score: 238
Period size: 80 Copynumber: 4.7 Consensus size: 80
82891853 TGAATGCTGT
* ** * * * ** **
82891863 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCCAT
*
82891926 TGTGCGAGATAC-AAATT
64 TGTGCGAGATACTAAA-A
* * * ** *
82891943 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-AC-AAATTCCGGGTTAAGCCCCGAAGG-CAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAA-TCCGGGTTAAGTCCCGAAGGCCA-
*
82892005 TTGTGCGAGATAC-AAATT
63 TTGTGCGAGATACTAAA-A
* * * ** * *
82892023 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-AC-AAATTCCGGGTTAAGCCCCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAA-TCCGGGTTAAGTCCCGAAGGCCAT
*
82892086 TGTGCGAGATACTAAAT
64 TGTGCGAGATACTAAAA
* ** * * *
82892103 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGG-CATTG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCCATTG
* *
82892167 TGTGAGTTACTAAAA
66 TGCGAGATACTAAAA
* * * *
82892182 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
82892240 TACGTGATTT
Statistics
Matches: 257, Mismatches: 30, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
78 15 0.06
79 51 0.20
80 176 0.68
81 15 0.06
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCCATTG
TGCGAGATACTAAAA
Found at i:82894160 original size:5 final size:5
Alignment explanation
Indices: 82894150--82894216 Score: 57
Period size: 5 Copynumber: 12.6 Consensus size: 5
82894140 GTAACCCAAT
82894150 TTTTA TTTTA TTTT- TTTCT- TTTTA TTTTAA TTTTAA TTTTA TTATTTA
1 TTTTA TTTTA TTTTA TTT-TA TTTTA TTTT-A TTTT-A TTTTA -T-TTTA
*
82894198 TTATTA CTTTA TTTTA TTT
1 TT-TTA TTTTA TTTTA TTT
82894217 GGATATTAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
4 4 0.07
5 29 0.54
6 17 0.31
7 4 0.07
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:82894183 original size:12 final size:11
Alignment explanation
Indices: 82894148--82894216 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
82894138 AGGTAACCCA
82894148 ATTTTTATTTT
1 ATTTTTATTTT
82894159 A--TTT-TTTT
1 ATTTTTATTTT
*
82894167 CTTTTTATTTT
1 ATTTTTATTTT
*
82894178 AATTTTAATTTT
1 -ATTTTTATTTT
82894190 ATTATTTATTATT
1 ATT-TTTATT-TT
*
82894203 A-CTTTATTTT
1 ATTTTTATTTT
82894213 ATTT
1 ATTT
82894217 GGATATTAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 6 0.13
11 15 0.33
12 14 0.31
13 3 0.07
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:82899363 original size:25 final size:26
Alignment explanation
Indices: 82899310--82899360 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
82899300 ACTTGAAGTA
82899310 AAAATATGAAAAAACCAGCTTAAGGG
1 AAAATATGAAAAAACCAGCTTAAGGG
82899336 AAAATATGAAAAAACCAGCTTAAGG
1 AAAATATGAAAAAACCAGCTTAAGG
82899361 AAACTCTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.18, T:0.16
Consensus pattern (26 bp):
AAAATATGAAAAAACCAGCTTAAGGG
Found at i:82899800 original size:173 final size:173
Alignment explanation
Indices: 82899511--82899857 Score: 694
Period size: 173 Copynumber: 2.0 Consensus size: 173
82899501 CATTGCCGTA
82899511 TAGCCCAAAGAGACCTTGTGTATTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTA
1 TAGCCCAAAGAGACCTTGTGTATTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTA
82899576 ATCATTTCCCACAATTTTGCATTTAATACAATTTAGTCCTTTTTTGTTCAATGAACTATCAGAAC
66 ATCATTTCCCACAATTTTGCATTTAATACAATTTAGTCCTTTTTTGTTCAATGAACTATCAGAAC
82899641 TTTAAAATTTCTTGACGAAACTTTAATACTGACTTATTAACAC
131 TTTAAAATTTCTTGACGAAACTTTAATACTGACTTATTAACAC
82899684 TAGCCCAAAGAGACCTTGTGTATTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTA
1 TAGCCCAAAGAGACCTTGTGTATTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTA
82899749 ATCATTTCCCACAATTTTGCATTTAATACAATTTAGTCCTTTTTTGTTCAATGAACTATCAGAAC
66 ATCATTTCCCACAATTTTGCATTTAATACAATTTAGTCCTTTTTTGTTCAATGAACTATCAGAAC
82899814 TTTAAAATTTCTTGACGAAACTTTAATACTGACTTATTAACAC
131 TTTAAAATTTCTTGACGAAACTTTAATACTGACTTATTAACAC
82899857 T
1 T
82899858 CCATAAATAT
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 174 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (173 bp):
TAGCCCAAAGAGACCTTGTGTATTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTA
ATCATTTCCCACAATTTTGCATTTAATACAATTTAGTCCTTTTTTGTTCAATGAACTATCAGAAC
TTTAAAATTTCTTGACGAAACTTTAATACTGACTTATTAACAC
Found at i:82900531 original size:99 final size:99
Alignment explanation
Indices: 82900355--82900556 Score: 280
Period size: 99 Copynumber: 2.0 Consensus size: 99
82900345 GTTAAAATAC
* * *
82900355 TTAAGAATGTGTTGGGCTGAGTAACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGTGTCAAG
1 TTAAGAATATGTTGGGCTGAGTAACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAA
**
82900420 AGGTTCGGTATATTCTTAAG-AAAAATATAATAAA
66 AGGTTCAATATATTCTTAAGCAAAAATA-AATAAA
* ** * * *
82900454 TTAAGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTGTTATCTCTCTTCGCGTCAAA
1 TTAAGAATATGTTGGGCTGAGTAACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAA
*
82900519 AGGTTCAATATATTCTTAAGCAAAAATAAATAAT
66 AGGTTCAATATATTCTTAAGCAAAAATAAATAAA
82900553 TTAA
1 TTAA
82900557 AAAATTTAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
99 83 0.92
100 7 0.08
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (99 bp):
TTAAGAATATGTTGGGCTGAGTAACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAA
AGGTTCAATATATTCTTAAGCAAAAATAAATAAA
Found at i:82901237 original size:10 final size:10
Alignment explanation
Indices: 82901221--82901259 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
82901211 ATTTTAGCTT
82901221 TTTATCTTTA
1 TTTATCTTTA
*
82901231 ATTATCTTTA
1 TTTATCTTTA
82901241 TTTAT-TTGTA
1 TTTATCTT-TA
82901251 TTTATCTTT
1 TTTATCTTT
82901260 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:82902271 original size:38 final size:38
Alignment explanation
Indices: 82902220--82902297 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
82902210 CAACTGCATC
*
82902220 ACCCTTGTATAACTAAATAAATTAAAACTCTTATCCTT
1 ACCCTTGTATAACTAAATAAATTAAAACTCTCATCCTT
82902258 ACCCTTGTATAACTAAATAAATTAAAACTCTCATCCTT
1 ACCCTTGTATAACTAAATAAATTAAAACTCTCATCCTT
82902296 AC
1 AC
82902298 TCCAATTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (38 bp):
ACCCTTGTATAACTAAATAAATTAAAACTCTCATCCTT
Found at i:82905773 original size:28 final size:28
Alignment explanation
Indices: 82905741--82905798 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
82905731 AGGGCAAGTG
82905741 TATGTTAATCCATTCTCTCACCCCACTT
1 TATGTTAATCCATTCTCTCACCCCACTT
82905769 TATGTTAATCCATTCTCTCACCCCACTT
1 TATGTTAATCCATTCTCTCACCCCACTT
82905797 TA
1 TA
82905799 GCTTGTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.34, G:0.03, T:0.40
Consensus pattern (28 bp):
TATGTTAATCCATTCTCTCACCCCACTT
Found at i:82907524 original size:172 final size:172
Alignment explanation
Indices: 82907238--82907581 Score: 688
Period size: 172 Copynumber: 2.0 Consensus size: 172
82907228 ATGAAGGGGA
82907238 CAAAGAGCACAATAATAGCATGGCCTGATCTTCATCGTCAATATGAACCTCAACATTTTTTAAAT
1 CAAAGAGCACAATAATAGCATGGCCTGATCTTCATCGTCAATATGAACCTCAACATTTTTTAAAT
82907303 CATTTAAAAGAGTAATAAATTGACTAATGTGATCTCTAAGAACCTCACCTTCGTTCATGCGAAAC
66 CATTTAAAAGAGTAATAAATTGACTAATGTGATCTCTAAGAACCTCACCTTCGTTCATGCGAAAC
82907368 GTAAATAGATGTTGTTTCAACACTAAACGGTTAGCCAAAGAC
131 GTAAATAGATGTTGTTTCAACACTAAACGGTTAGCCAAAGAC
82907410 CAAAGAGCACAATAATAGCATGGCCTGATCTTCATCGTCAATATGAACCTCAACATTTTTTAAAT
1 CAAAGAGCACAATAATAGCATGGCCTGATCTTCATCGTCAATATGAACCTCAACATTTTTTAAAT
82907475 CATTTAAAAGAGTAATAAATTGACTAATGTGATCTCTAAGAACCTCACCTTCGTTCATGCGAAAC
66 CATTTAAAAGAGTAATAAATTGACTAATGTGATCTCTAAGAACCTCACCTTCGTTCATGCGAAAC
82907540 GTAAATAGATGTTGTTTCAACACTAAACGGTTAGCCAAAGAC
131 GTAAATAGATGTTGTTTCAACACTAAACGGTTAGCCAAAGAC
82907582 TTAGTCGCAT
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (172 bp):
CAAAGAGCACAATAATAGCATGGCCTGATCTTCATCGTCAATATGAACCTCAACATTTTTTAAAT
CATTTAAAAGAGTAATAAATTGACTAATGTGATCTCTAAGAACCTCACCTTCGTTCATGCGAAAC
GTAAATAGATGTTGTTTCAACACTAAACGGTTAGCCAAAGAC
Found at i:82908247 original size:24 final size:24
Alignment explanation
Indices: 82908220--82908271 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
82908210 TTAGTAAGTC
*
82908220 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
82908244 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
82908268 AAAT
1 AAAT
82908272 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Done.