Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 95 of 193
Found at i:30643270 original size:18 final size:18
Alignment explanation
Indices: 30643247--30643294 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
30643237 ATCCCTAGCA
*
30643247 CAATTCCCATTGCCACAT
1 CAATTCCCATCGCCACAT
* *
30643265 CAATTCTCATCGCCACCT
1 CAATTCCCATCGCCACAT
30643283 CAATTCCCATCG
1 CAATTCCCATCG
30643295 TCTTATGGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.25, C:0.42, G:0.06, T:0.27
Consensus pattern (18 bp):
CAATTCCCATCGCCACAT
Found at i:30646883 original size:22 final size:19
Alignment explanation
Indices: 30646850--30646889 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
30646840 CACTTATACT
30646850 AAATTTTAATTCAATAATTA
1 AAATTTTAATTCAA-AATTA
30646870 AAATTCTTCAATTCAAAATT
1 AAATT-TT-AATTCAAAATT
30646890 CCATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTTAATTCAAAATTA
Found at i:30647517 original size:19 final size:19
Alignment explanation
Indices: 30647493--30647530 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30647483 ATTCATCATA
30647493 TTCATAAATCAACAGAGAC
1 TTCATAAATCAACAGAGAC
30647512 TTCATAAATCAACAGAGAC
1 TTCATAAATCAACAGAGAC
30647531 ATTAGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (19 bp):
TTCATAAATCAACAGAGAC
Found at i:30651103 original size:29 final size:29
Alignment explanation
Indices: 30651055--30651377 Score: 209
Period size: 29 Copynumber: 11.2 Consensus size: 29
30651045 AGTTTTGGAG
* * *
30651055 AGTTT-GGGGTTAAAATATAATTTTAAAA
1 AGTTTAGGGGTAAAAATGTAATTTTAAGA
* * *
30651083 AGTTTATGGGTAAAAATATAATTTTAGGAA
1 AGTTTAGGGGTAAAAATGTAATTTTAAG-A
* * * *
30651113 AG-TTCGTGGTAAAAATGTGATTTTCGAGA
1 AGTTTAGGGGTAAAAATGTAATTTT-AAGA
* **
30651142 AGTTT-GAGGGTAAAAATGTGATTTTTGGA
1 AGTTTAG-GGGTAAAAATGTAATTTTAAGA
* * **
30651171 AGTTCA-AGG-ACAAAATACAATTTTTAAGA
1 AGTTTAGGGGTA-AAAATGTAA-TTTTAAGA
**
30651200 AGTTTAGGGGTAAAAATGTAATTTTTGGA
1 AGTTTAGGGGTAAAAATGTAATTTTAAGA
* * * **
30651229 AGTTCAAGGGTAAAAATGTGATTTTTTGA
1 AGTTTAGGGGTAAAAATGTAATTTTAAGA
30651258 AGTTTAGGGGT-AAAATGTAATTTTTAAGA
1 AGTTTAGGGGTAAAAATGTAA-TTTTAAGA
* *
30651287 AGTTTGGGGGT-AAAATGTAATTTT-GGA
1 AGTTTAGGGGTAAAAATGTAATTTTAAGA
* * * *
30651314 AGTTTGGGGGTAAAAATATGATTTTTGAGA
1 AGTTTAGGGGTAAAAATGT-AATTTTAAGA
*
30651344 AGTTT-GGGG--GAAATGTAATTTTTAAGAA
1 AGTTTAGGGGTAAAAATGTAA-TTTTAAG-A
30651372 AGTTTA
1 AGTTTA
30651378 AGGATCAAAA
Statistics
Matches: 233, Mismatches: 45, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
26 1 0.00
27 25 0.11
28 37 0.16
29 130 0.56
30 39 0.17
31 1 0.00
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (29 bp):
AGTTTAGGGGTAAAAATGTAATTTTAAGA
Found at i:30651186 original size:87 final size:86
Alignment explanation
Indices: 30651095--30651347 Score: 296
Period size: 87 Copynumber: 2.9 Consensus size: 86
30651085 TTTATGGGTA
* * * *
30651095 AAAATATAA-TTTTAGGAAAG-TTCGTGGTAAAAATGTGATTTTCGAGAAGTTTGAGGGTAAAAA
1 AAAATATAATTTTTAAG-AAGTTTAGGGGTAAAAATGTAATTTT-G-GAAGTTTGAGGGTAAAAA
30651158 TGTGATTTTTGGAAGTTCAAGGAC
63 TGTGATTTTTGGAAGTTCAAGGAC
* **
30651182 AAAATACAATTTTTAAGAAGTTTAGGGGTAAAAATGTAATTTTTGGAAGTTCAAGGGTAAAAATG
1 AAAATATAATTTTTAAGAAGTTTAGGGGTAAAAATGTAA-TTTTGGAAGTTTGAGGGTAAAAATG
* * * **
30651247 TGATTTTTTGAAGTTTAGGGGT
65 TGATTTTTGGAAGTTCAAGGAC
* * * *
30651269 AAAATGTAATTTTTAAGAAGTTTGGGGGT-AAAATGTAATTTTGGAAGTTTGGGGGTAAAAATAT
1 AAAATATAATTTTTAAGAAGTTTAGGGGTAAAAATGTAATTTTGGAAGTTTGAGGGTAAAAATGT
30651333 GATTTTTGAGAAGTT
66 GATTTTTG-GAAGTT
30651348 TGGGGGAAAT
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 29 0.20
86 15 0.11
87 72 0.51
88 22 0.15
89 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (86 bp):
AAAATATAATTTTTAAGAAGTTTAGGGGTAAAAATGTAATTTTGGAAGTTTGAGGGTAAAAATGT
GATTTTTGGAAGTTCAAGGAC
Found at i:30651647 original size:82 final size:81
Alignment explanation
Indices: 30651496--30651645 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 81
30651486 AAAATAATTT
* * * *
30651496 TAAAATGCTGGGCAAATTTATAATAAAAGAAAACTTGATTTAAGGATGAAATTAAAACAAATCAA
1 TAAAATGCTGGGCAAATTTAAAATAAAAGAAAAATGGATTTAAGGACGAAATTAAAACAAATCAA
30651561 AAAATTGAAAATGATC
66 AAAATTGAAAATGATC
* ** *
30651577 TAAAATTGTTGGGCAAATTTAAAATAAATTAAAAATGGCA-TTAAGGACGAAATTGAAAC-AATC
1 TAAAA-TGCTGGGCAAATTTAAAATAAAAGAAAAATGG-ATTTAAGGACGAAATTAAAACAAATC
30651640 AAAAAA
64 AAAAAA
30651646 ATGGAAGGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
81 15 0.25
82 43 0.73
83 1 0.02
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.25
Consensus pattern (81 bp):
TAAAATGCTGGGCAAATTTAAAATAAAAGAAAAATGGATTTAAGGACGAAATTAAAACAAATCAA
AAAATTGAAAATGATC
Found at i:30653622 original size:99 final size:99
Alignment explanation
Indices: 30653503--30654565 Score: 676
Period size: 99 Copynumber: 10.7 Consensus size: 99
30653493 GCTTCAATCT
* * ** * * **
30653503 TTTCCCATCACGT-TTCTAAGGTGTTAGGTTCGCCATTGTAGCCTCAACCTTTCCCTTCATATCT
1 TTTCCCATCACATCTTTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
* **
30653567 TCATGGTATCGGATTCGCTATTGCGACCTCAATCC
66 TCATGGTATCGGGTTCGCCGTTGCGACCTCAA-CC
* * *
30653602 -TTCCCATCACATCTTTTAAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTATATCT
1 TTTCCCATCACATCTTTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
* * *
30653666 CCATGGTA-CTGGGTTCGTCGTTGC-AGCCTTAACC
66 TCATGGTATC-GGGTTCGCCGTTGCGA-CCTCAACC
* * * ***
30653700 TTTCCCCTCGCATCTTTTTAGGTACTGGGTTCGTTATTGCGGCCTCAACCTTTCCCTTCATATCT
1 TTTCCCATCACATCTTTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
* * * * * * *
30653765 TCATGGTACCGGGGTTCGTCATTACGGCCTTAACT
66 TCATGGTATC-GGGTTCGCCGTTGCGACCTCAACC
* * ** * * * * *
30653800 TTTCCCATCACATCTTTTAAGGTA-TCGGATTCGCCGTCGTAGCTTTAATCTTTTCCTTTATATA
1 TTTCCCATCACATCTTTTAAGGTACT-GGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTT-CATA
* * * * *
30653864 TATTCGTGGTATTGGGTTCGCCGTTGC-AGCTTTAACC
63 TCTTCATGGTATCGGGTTCGCCGTTGCGA-CCTCAACC
* * ** **
30653901 TTTCCCATCGCATCTTCTT-AGGTA-TCGGGTTCGCCATTATGGCCTCAACCTTTCCCTTTGTAT
1 TTTCCCATCACATCTT-TTAAGGTACT-GGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATAT
* * * * *
30653964 CTTC-GGGTATCGGATTCACCGTCGCGACTTCAATCC
64 CTTCATGGTATCGGGTTCGCCGTTGCGACCTCAA-CC
* * * * **
30654000 -TTCCCAT--CATCTCTTCATGGTAC-GGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACGTC
1 TTTCCCATCACATCT-TTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATC
* * * *
30654061 TTCTTAGGTACCGGGTTCACCGTTGC-AGTCTCAACC
65 TTCAT-GGTATCGGGTTCGCCGTTGCGA-CCTCAACC
* ** * * * * * * * * *
30654097 TTTCCCTTCGTA-GTTTT-GGGTACTAGATTCACCGTCGTGGCCTCAATCC-TTCCCTTCATCTT
1 TTTCCCATCACATCTTTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCATATC
* * * ** * *
30654159 TTCATGGTACCAGGTTTGCTATTGCGGCCTTAACC
65 TTCATGGTATCGGGTTCGCCGTTGCGACCTCAACC
* * *
30654194 TTTCCCATCACATCTTTTTAGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCT
1 TTTCCCATCACATCTTTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
* * * ** *
30654259 TCTAAGGTACCGGATTTACCGTCGCGACCTCAATCC
66 TC-ATGGTATCGGGTTCGCCGTTGCGACCTCAA-CC
* * * * * ** * * *
30654295 -TTCCCTTCAAATC-TTCATGGTACCGGGTTCGCTATTGTGGCCTCAACCTTTCCCATCACATCT
1 TTTCCCATCACATCTTTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
* * * * *
30654358 TCTAAGGTATTGGGTTTGCCGTTACGGCCTCAACC
66 TC-ATGGTATCGGGTTCGCCGTTGCGACCTCAACC
* ** * * * *
30654393 TTTCCCTTCACATCTTTTAAGGTACCAGATCCGCCGTTGAGGCCTCAATCC-TTCCCTTCAAATC
1 TTTCCCATCACATCTTTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCATATC
*** * *
30654457 TTCATGGTATCGGGTTCGTTATTAC-AGCTTCAACC
65 TTCATGGTATCGGGTTCGCCGTTGCGA-CCTCAACC
*
30654492 TTTCCCATCACAT-TTTCTAAGGTACTGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATC
1 TTTCCCATCACATCTTT-TAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATC
* *
30654556 TCCAGGGTAT
65 TTCATGGTAT
30654566 TAGATTTACA
Statistics
Matches: 744, Mismatches: 184, Indels: 72
0.74 0.18 0.07
Matches are distributed among these distances:
96 38 0.05
97 43 0.06
98 116 0.16
99 333 0.45
100 134 0.18
101 66 0.09
102 14 0.02
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.36
Consensus pattern (99 bp):
TTTCCCATCACATCTTTTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
TCATGGTATCGGGTTCGCCGTTGCGACCTCAACC
Found at i:30653647 original size:50 final size:50
Alignment explanation
Indices: 30653529--30654556 Score: 534
Period size: 50 Copynumber: 20.8 Consensus size: 50
30653519 TAAGGTGTTA
* ** * * * *
30653529 GGTTCGCCATTGTAGCCTCAACCTTTCCCTTCATATC-TTCATGGTATCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* ** * *
30653578 GATTCGCTATTGCGACCTCAATCC-TTCCCATCACATCTTTTAAGGTACCG
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTTTAAGGTACCG
* * * ** * *
30653628 AGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTATATC-TCCATGGTACTG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* * * * * * *
30653677 GGTTCGTCGTTGCAGCCTTAACCTTTCCCCTCGCATCTTTTTAGGTACTG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
*** * * *
30653727 GGTTCGTTATTGCGGCCTCAACCTTTCCCTTCATATC-TTCATGGTACCGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACC-G
* * * * * * *
30653777 GGTTCGTCATTACGGCCTTAACTTTTCCCATCACATCTTTTAAGGTATCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* * ** * * * * * * * *** **
30653827 GATTCGCCGTCGTAGCTTTAATCTTTTCCTTTATATATATTCGTGGTATTG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCT-TTTAAGGTACCG
* * * * * *
30653878 GGTTCGCCGTTGCAGCTTTAACCTTTCCCATCGCATCTTCTT-AGGTATCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTT-TTAAGGTACCG
* ** *** ** *
30653928 GGTTCGCCATTATGGCCTCAACCTTTCCCTTTGTATC--TTCGGGTATCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* * * * * * * *
30653976 GATTCACCGTCGCGACTTCAATCC-TTCCCAT--CATCTCTTCATGGTA-CG
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATCT-TTTAAGGTACCG
* * *
30654024 GGTTCACCGTTGCGGCCTCAACCTTTCCCATCACGTCTTCTT-AGGTACCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTT-TTAAGGTACCG
* * * ** * * **
30654074 GGTTCACCGTTGCAGTCTCAACCTTTCCCTTCGTA-GTTTT-GGGTACTA
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* * * * * *
30654122 GATTCACCGTCGTGGCCTCAATCC-TTCCCTT--CATCTTTTCATGGTACCA
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTTT-AAGGTACCG
* ** * * *
30654171 GGTTTGCTATTGCGGCCTTAACCTTTCCCATCACATCTTTTTAGGTACCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* * *
30654221 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* ** * * * * *
30654271 GATTTACCGTCGCGACCTCAATCC-TTCCCTTCAAATC-TTCATGGTACCG
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTTTAAGGTACCG
** * * * **
30654320 GGTTCGCTATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATTG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* * *
30654370 GGTTTGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCA
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
* * * * * * *
30654420 GATCCGCCGTTGAGGCCTCAATCC-TTCCCTTCAAATC-TTCATGGTATCG
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTTTAAGGTACCG
*** * * * * *
30654469 GGTTCGTTATTACAGCTTCAACCTTTCCCATCACAT-TTTCTAAGGTACTG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTT-TAAGGTACCG
* *
30654519 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCT
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCT
30654557 CCAGGGTATT
Statistics
Matches: 723, Mismatches: 223, Indels: 64
0.72 0.22 0.06
Matches are distributed among these distances:
46 4 0.01
47 8 0.01
48 88 0.12
49 179 0.25
50 386 0.53
51 58 0.08
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (50 bp):
GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
Found at i:30653924 original size:201 final size:198
Alignment explanation
Indices: 30653529--30654556 Score: 565
Period size: 199 Copynumber: 5.2 Consensus size: 198
30653519 TAAGGTGTTA
*** * *
30653529 GGTTCGCCATTGTAGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGATTCGCTATTGCGAC
1 GGTTCGCCATTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCTATTACGAC
* *
30653594 CTCAATCCTTCCCATCACATCTTTTAAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTT
66 CTCAATCCTTCCCATCACATCTTTTAAGGTACCGAGTTCGCCGTCGCAGCCTCAACCTTTCCCTT
* * * *
30653659 TATATCTCCATGGTACTGGGTTCGTCGTTGCAGCCTTAACCTTTCCCCTCGCATCTTTTTAGGTA
131 TATATATCCATGGTACTGGGTTCGCCGTTGCAGCCTTAACCTTTCCCATCGCATCTTCTTAGGTA
30653724 -CTG
196 TC-G
** * *
30653727 GGTTCGTTATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGGTTCG-TCATTACG
1 GGTTCGCCATTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACC-GGATTCGCT-ATTACG
* * * * * * * *
30653791 GCCTTAA-CTTTTCCCATCACATCTTTTAAGGTATCG-GATTCGCCGTCGTAGCTTTAATCTTTT
64 ACCTCAATC-CTTCCCATCACATCTTTTAAGGTACCGAG-TTCGCCGTCGCAGCCTCAA-CCTTT
* * * * *
30653854 CCTTTATATATATTCGTGGTATTGGGTTCGCCGTTGCAGCTTTAACCTTTCCCATCGCATCTTCT
126 CCCTT-TATATATCCATGGTACTGGGTTCGCCGTTGCAGCCTTAACCTTTCCCATCGCATCTTCT
30653919 TAGGTATCG
190 TAGGTATCG
* ** * * * ** **
30653928 GGTTCGCCATTATGGCCTCAACCTTTCCCTTTGTATCTTC-GGGTATCGGATTCACCGTCGCGAC
1 GGTTCGCCATTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCTATTACGAC
* * * * * * * *
30653992 TTCAATCCTTCCCAT--CATCTCTTCATGGTA-CGGGTTCACCGTTGCGGCCTCAACCTTTCCCA
66 CTCAATCCTTCCCATCACATCT-TTTAAGGTACCGAGTTCGCCGTCGCAGCCTCAACCTTTCCCT
* ** * * * * * * * * * * *
30654054 TCACGTCTTCTTAGGTACCGGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCGTA-GTT-TTGGG
130 TTATATATCCAT-GGTACTGGGTTCGCCGTTGCAGCCTTAACCTTTCCCATCGCATCTTCTTAGG
*
30654117 TA-CTA
194 TATC-G
* * * *** * * * *
30654122 GATTCACCGTCGTGGCCTCAATCC-TTCCCTTCATCTTTTCATGGTACCAGG-TTTGCTATTGCG
1 GGTTCGCCATTACGGCCTCAA-CCTTTCCCTTCATATCTTCATGGTACC-GGATTCGCTATTACG
* * * * * * *
30654185 GCCTTAA-CCTTTCCCATCACATCTTTTTAGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCC
64 ACCTCAATCC-TTCCCATCACATCTTTTAAGGTACCGAGTTCGCCGTCGCAGCCTCAACCTTTCC
* * * * * * ** * * * ** *
30654249 CTTCATATCTTCTAAGGTACCGGATTTACCGTCGC-GACCTCAATCC-TTCCCTTCAAATCTTCA
128 CTTTATAT-ATCCATGGTACTGGGTTCGCCGTTGCAG-CCTTAA-CCTTTCCCATCGCATCTTCT
*
30654312 T-GGTACCG
190 TAGGTATCG
* ** * * * ** * * ** *
30654320 GGTTCGCTATTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATTGGGTTTGCCGTTACGG
1 GGTTCGCCATTACGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGATTCGCTATTACGA
* * *
30654385 CCTCAA-CCTTTCCCTTCACATCTTTTAAGGTACC-AGATCCGCCGTTG-AGGCCTCAATCC-TT
65 CCTCAATCC-TTCCCATCACATCTTTTAAGGTACCGAG-TTCGCCGTCGCA-GCCTCAA-CCTTT
* * * * *** * * *
30654446 CCCTTCAAATCTTCATGGTA-TCGGGTTCGTTATTACAG-CTTCAACCTTTCCCATCACATTTTC
126 CCCTTTATATATCCATGGTACT-GGGTTCGCCGTTGCAGCCTT-AACCTTTCCCATCGCATCTTC
*
30654509 TAAGGTA-CTG
189 TTAGGTATC-G
* * *
30654519 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCT
1 GGTTCGCCATTACGGCCTCAACCTTTCCCTTCATATCT
30654557 CCAGGGTATT
Statistics
Matches: 632, Mismatches: 160, Indels: 75
0.73 0.18 0.09
Matches are distributed among these distances:
193 1 0.00
194 36 0.06
195 33 0.05
196 50 0.08
197 95 0.15
198 122 0.19
199 186 0.29
200 16 0.03
201 92 0.15
202 1 0.00
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (198 bp):
GGTTCGCCATTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCTATTACGAC
CTCAATCCTTCCCATCACATCTTTTAAGGTACCGAGTTCGCCGTCGCAGCCTCAACCTTTCCCTT
TATATATCCATGGTACTGGGTTCGCCGTTGCAGCCTTAACCTTTCCCATCGCATCTTCTTAGGTA
TCG
Found at i:30654015 original size:48 final size:48
Alignment explanation
Indices: 30653943--30654296 Score: 116
Period size: 48 Copynumber: 7.2 Consensus size: 48
30653933 GCCATTATGG
* ** *
30653943 CCTCAACCTTTCCCTTTGTATCTTC-GGGTATCGGATTCACCGTCGCGA
1 CCTCAACCTTTCCCATCATCTCTTCAGGGTA-CGGATTCACCGTCGCGA
* * * * *
30653991 CTTCAATCC-TTCCCATCATCTCTTCATGGTACGGGTTCACCGTTGCGG
1 CCTCAA-CCTTTCCCATCATCTCTTCAGGGTACGGATTCACCGTCGCGA
* *
30654039 CCTCAACCTTTCCCATCA-CGTCTTCTTA-GGTACCGGGTTCACCGTTGC-A
1 CCTCAACCTTTCCCATCATC-TCTTC--AGGGTA-CGGATTCACCGTCGCGA
* * * * * * * *
30654088 GTCTCAACCTTTCCCTTCGTAGT-TT-TGGGTACTAGATTCACCGTCGTGG
1 -CCTCAACCTTTCCCATCAT-CTCTTCAGGGTAC-GGATTCACCGTCGCGA
* * * ** ** * *
30654137 CCTCAATCC-TTCCCTTCATCTTTTCATGGTACCAGG-TTTGCTATTGCGG
1 CCTCAA-CCTTTCCCATCATCTCTTCAGGGTA-C-GGATTCACCGTCGCGA
* * * * ** * *
30654186 CCTTAACCTTTCCCATCACATCTTTTTA-GGTACCGGGTTCGTCGTTGCGG
1 CCTCAACCTTTCCCAT--CATCTCTTCAGGGTA-CGGATTCACCGTCGCGA
* * * *
30654236 CCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGATTTACCGTCGCGA
1 CCTCAACCTTTCCCATCATCTCTTC-AGGGTA-CGGATTCACCGTCGCGA
30654286 CCTCAATCCTT
1 CCTCAA-CCTT
30654297 CCCTTCAAAT
Statistics
Matches: 230, Mismatches: 52, Indels: 45
0.70 0.16 0.14
Matches are distributed among these distances:
47 5 0.02
48 88 0.38
49 37 0.16
50 86 0.37
51 14 0.06
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.34
Consensus pattern (48 bp):
CCTCAACCTTTCCCATCATCTCTTCAGGGTACGGATTCACCGTCGCGA
Found at i:30654337 original size:149 final size:149
Alignment explanation
Indices: 30653544--30654556 Score: 866
Period size: 149 Copynumber: 6.8 Consensus size: 149
30653534 GCCATTGTAG
* * * *
30653544 CCTCAA-CCTTTCCCTTCATATCTTCATGGTATCGGATTCGCTATTGCGACCTCAATCC-TTCCC
1 CCTCAATCC-TTCCCTTCAAATCTTCATGGTACCGGGTTCGCTATTGCGGCCTCAA-CCTTTCCC
* * * *
30653607 ATCACATCTT-TTAAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTATATC-TCCAT
64 ATCACATCTTCTT-AGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAA
* * ** *
30653670 GGTACTGGGTTCGTCGTTGC-A
128 GGTACCGGATTCACCGTCGCGA
* * ** ** * *
30653691 GCCTTAA-CCTTTCCCCTCGCATCTTTTTAGGTACTGGGTTCGTTATTGCGGCCTCAACCTTTCC
1 -CCTCAATCC-TTCCCTTCAAATCTTCAT-GGTACCGGGTTCGCTATTGCGGCCTCAACCTTTCC
* * * * * * * * * * *
30653755 CTTCATATCTTCAT-GGTACCGGGGTTCGTCATTACGGCCTTAACTTTTCCCATCACATCTTTTA
63 CATCACATCTTCTTAGGTACC-GGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTA
* * *
30653819 AGGTATCGGATTCGCCGTCG-TA
127 AGGTACCGGATTCACCGTCGCGA
* * * * * * * ** ** * * *
30653841 GCTTTAATCTTTTCCTTTATATATATTCGTGGTATTGGGTTCGCCGTTGCAGCTTTAACCTTTCC
1 -CCTCAATCCTTCCCTTCA-A-ATCTTCATGGTACCGGGTTCGCTATTGCGGCCTCAACCTTTCC
* * * ** ** *
30653906 CATCGCATCTTCTTAGGTATCGGGTTCGCCATTATGGCCTCAACCTTTCCCTTTGTATCTTC--G
63 CATCACATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAA
*
30653969 GGTATCGGATTCACCGTCGCGA
128 GGTACCGGATTCACCGTCGCGA
* * ** * **
30653991 CTTCAATCCTTCCCATCATCTCTTCATGGTA-CGGGTTCACCGTTGCGGCCTCAACCTTTCCCAT
1 CCTCAATCCTTCCCTTCAAATCTTCATGGTACCGGGTTCGCTATTGCGGCCTCAACCTTTCCCAT
* * * * * *
30654055 CACGTCTTCTTAGGTACCGGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCGTAGT-TT-T-GGG
66 CACATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATA-TCTTCTAAGG
** * *
30654117 TACTAGATTCACCGTCGTGG
130 TACCGGATTCACCGTCGCGA
** * * * *
30654137 CCTCAATCCTTCCCTTCATCTTTTCATGGTACCAGGTTTGCTATTGCGGCCTTAACCTTTCCCAT
1 CCTCAATCCTTCCCTTCAAATCTTCATGGTACCGGGTTCGCTATTGCGGCCTCAACCTTTCCCAT
* *
30654202 CACATCTTTTTAGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGT
66 CACATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGT
*
30654267 ACCGGATTTACCGTCGCGA
131 ACCGGATTCACCGTCGCGA
*
30654286 CCTCAATCCTTCCCTTCAAATCTTCATGGTACCGGGTTCGCTATTGTGGCCTCAACCTTTCCCAT
1 CCTCAATCCTTCCCTTCAAATCTTCATGGTACCGGGTTCGCTATTGCGGCCTCAACCTTTCCCAT
* ** * * * *
30654351 CACATCTTCTAAGGTATTGGGTTTGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTTTAAGGT
66 CACATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGT
* * * * * *
30654416 ACCAGATCCGCCGTTGAGG
131 ACCGGATTCACCGTCGCGA
* * * * *
30654435 CCTCAATCCTTCCCTTCAAATCTTCATGGTATCGGGTTCGTTATTACAGCTTCAACCTTTCCCAT
1 CCTCAATCCTTCCCTTCAAATCTTCATGGTACCGGGTTCGCTATTGCGGCCTCAACCTTTCCCAT
* * * *
30654500 CACATTTTCTAAGGTACTGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCT
66 CACATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
30654557 CCAGGGTATT
Statistics
Matches: 697, Mismatches: 151, Indels: 33
0.79 0.17 0.04
Matches are distributed among these distances:
146 121 0.17
147 86 0.12
148 30 0.04
149 349 0.50
150 30 0.04
151 71 0.10
152 10 0.01
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (149 bp):
CCTCAATCCTTCCCTTCAAATCTTCATGGTACCGGGTTCGCTATTGCGGCCTCAACCTTTCCCAT
CACATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGT
ACCGGATTCACCGTCGCGA
Found at i:30662569 original size:16 final size:15
Alignment explanation
Indices: 30662548--30662602 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 15
30662538 AAGCACGAAC
*
30662548 AAATATACGAATGAAT
1 AAATATACGAA-AAAT
30662564 AAATATAC-AAAAAT
1 AAATATACGAAAAAT
*
30662578 AAATATAAGAAAAAT
1 AAATATACGAAAAAT
30662593 AAA-ATACGAA
1 AAATATACGAA
30662603 TCATGAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 16 0.46
15 11 0.31
16 8 0.23
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.20
Consensus pattern (15 bp):
AAATATACGAAAAAT
Found at i:30662757 original size:29 final size:28
Alignment explanation
Indices: 30662703--30662937 Score: 132
Period size: 29 Copynumber: 8.0 Consensus size: 28
30662693 AATGAGGTCG
* * *
30662703 AAAATG-AAGTTTCGGAGAGTTCGGGGTA
1 AAAATGTAA-TTTTGGAAAGTTTGGGGTA
30662731 AAAATGTAATTTTAGGAAAGTTTGGGGTA
1 AAAATGTAATTTT-GGAAAGTTTGGGGTA
* * * *
30662760 AAAATGTGATTTTTGAGAAGTTTGAGGTT
1 AAAATGTAATTTTGGA-AAGTTTGGGGTA
* * *
30662789 AAAATTTGATTTTTGAAAGTTTGGGGGTA
1 AAAATGTAATTTTGGAAAGTTT-GGGGTA
* * *
30662818 AAAGTGTGATGTTTTTGG-AAGTTTGAGAGTA
1 AAAATGT-A--ATTTTGGAAAGTTTG-GGGTA
** *
30662849 AAAATGTAATTTTTTAAGAAGTTTATGGGTA
1 AAAATGTAA-TTTTGGA-AAGTTT-GGGGTA
* ** *
30662880 AAAATATAATTTTTAAGAAGTTTATGGGTA
1 AAAATGTAATTTTGGA-AAGTTT-GGGGTA
* *
30662910 AAAATGTGATTTTTGAGAAGTTTGGGGT
1 AAAATGTAATTTTGGA-AAGTTTGGGGT
30662938 GTGAAAATAT
Statistics
Matches: 168, Mismatches: 27, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
28 17 0.10
29 69 0.41
30 43 0.26
31 34 0.20
32 5 0.03
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.38
Consensus pattern (28 bp):
AAAATGTAATTTTGGAAAGTTTGGGGTA
Found at i:30662895 original size:30 final size:30
Alignment explanation
Indices: 30662725--30662983 Score: 215
Period size: 31 Copynumber: 8.6 Consensus size: 30
30662715 CGGAGAGTTC
* *
30662725 GGGGTAAAAATGTAATTTTAG-GAAAGTTT-
1 GGGGTAAAAATGTGATTTTTGAG-AAGTTTA
30662754 GGGGTAAAAATGTGATTTTTGAGAAGTTT-
1 GGGGTAAAAATGTGATTTTTGAGAAGTTTA
* * * *
30662783 GAGGTTAAAATTTGATTTTTGA-AAGTTTG
1 GGGGTAAAAATGTGATTTTTGAGAAGTTTA
*
30662812 GGGGTAAAAGTGTGATGTTTTTG-GAAGTTT-
1 GGGGTAAAAATGTGA--TTTTTGAGAAGTTTA
* * *
30662842 GAGAGTAAAAATGTAATTTTTTAAGAAGTTTA
1 G-GGGTAAAAATGTGA-TTTTTGAGAAGTTTA
* * * *
30662874 TGGGTAAAAATATAATTTTTAAGAAGTTTA
1 GGGGTAAAAATGTGATTTTTGAGAAGTTTA
* *
30662904 TGGGTAAAAATGTGATTTTTGAGAAGTTTG
1 GGGGTAAAAATGTGATTTTTGAGAAGTTTA
* * *
30662934 GGGTGTGAAAATATGATTTTGGAGAAGTTTA
1 GGG-GTAAAAATGTGATTTTTGAGAAGTTTA
* * * *
30662965 AGAGTCAAAATGGGATTTT
1 GGGGTAAAAATGTGATTTT
30662984 AAAAAGAAAA
Statistics
Matches: 190, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
28 6 0.03
29 55 0.29
30 63 0.33
31 66 0.35
ACGTcount: A:0.34, C:0.00, G:0.27, T:0.38
Consensus pattern (30 bp):
GGGGTAAAAATGTGATTTTTGAGAAGTTTA
Found at i:30662975 original size:61 final size:60
Alignment explanation
Indices: 30662728--30662983 Score: 243
Period size: 61 Copynumber: 4.3 Consensus size: 60
30662718 AGAGTTCGGG
* * * *
30662728 GTAAAAATGTAATTTTAG-GAAAGTTT-GGGGTAAAAATGTGATTTTTGAGAAGTTTGAG-
1 GTAAAAATGTGATTTTTGAG-AAGTTTGGGGGTAAAAATATGATTTTTGAGAAGTTTAAGA
* * * * *
30662786 GTTAAAATTTGATTTTTGA-AAGTTTGGGGGTAAAAGTGTGATGTTTTTG-GAAGTTTGAGA
1 GTAAAAATGTGATTTTTGAGAAGTTTGGGGGTAAAAATATGA--TTTTTGAGAAGTTTAAGA
* * ** * * * *
30662846 GTAAAAATGTAATTTTTTAAGAAGTTTATGGGTAAAAATATAATTTTTAAGAAGTTTATGG
1 GTAAAAATGTGA-TTTTTGAGAAGTTTGGGGGTAAAAATATGATTTTTGAGAAGTTTAAGA
* *
30662907 GTAAAAATGTGATTTTTGAGAAGTTTGGGGTGTGAAAATATGATTTTGGAGAAGTTTAAGA
1 GTAAAAATGTGATTTTTGAGAAGTTTGGGG-GTAAAAATATGATTTTTGAGAAGTTTAAGA
* *
30662968 GTCAAAATGGGATTTT
1 GTAAAAATGTGATTTT
30662984 AAAAAGAAAA
Statistics
Matches: 159, Mismatches: 30, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
57 6 0.04
58 28 0.18
59 10 0.06
60 35 0.22
61 63 0.40
62 17 0.11
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (60 bp):
GTAAAAATGTGATTTTTGAGAAGTTTGGGGGTAAAAATATGATTTTTGAGAAGTTTAAGA
Found at i:30666751 original size:62 final size:61
Alignment explanation
Indices: 30666637--30666806 Score: 184
Period size: 62 Copynumber: 2.8 Consensus size: 61
30666627 GTATTGATTT
* * *
30666637 ATTTCGAATATTTTTGTAAACATTATTTT--TATATTGTTTCATTTAATAAAATATAAGTTC
1 ATTT-GAATATTTTTGTACACATTATTTTGGCATATTGTTTCATTTAATAAAATAGAAGTTC
* * *
30666697 ATTTGAATATTTTTGTACACATTAGTTTTGGCATATTATATCATTTAATGAAATAGAAGTTC
1 ATTTGAATATTTTTGTACACATTA-TTTTGGCATATTGTTTCATTTAATAAAATAGAAGTTC
* * ** * *
30666759 TTTTAAATA-TTTTCAACGCATTATTTTTGGCATCTTGTTTCATTTAAT
1 ATTTGAATATTTTTGTACACATTA-TTTTGGCATATTGTTTCATTTAAT
30666807 TGAGAACCAA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
59 19 0.21
60 8 0.09
61 32 0.35
62 33 0.36
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (61 bp):
ATTTGAATATTTTTGTACACATTATTTTGGCATATTGTTTCATTTAATAAAATAGAAGTTC
Found at i:30676563 original size:24 final size:24
Alignment explanation
Indices: 30676531--30676590 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
30676521 TTGTATTACA
*
30676531 AGTATCGGTAGTTTTGTTCATAAG
1 AGTATCGGTAGTTCTGTTCATAAG
*
30676555 AGTATCGGTAGTTCTGTTCATAGG
1 AGTATCGGTAGTTCTGTTCATAAG
30676579 AGTATCGGTAGT
1 AGTATCGGTAGT
30676591 CTATGTACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.38
Consensus pattern (24 bp):
AGTATCGGTAGTTCTGTTCATAAG
Found at i:30678266 original size:23 final size:25
Alignment explanation
Indices: 30678224--30678277 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
30678214 TAAATAAAAT
**
30678224 TAAACCTTAAAT-AATTAAAAA-CC
1 TAAACCTTAAATAAACAAAAAACCC
*
30678247 TAAACCTTAATTAAACAAAAAACCC
1 TAAACCTTAAATAAACAAAAAACCC
30678272 TAAACC
1 TAAACC
30678278 CTAAGCCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.42
24 7 0.27
25 8 0.31
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (25 bp):
TAAACCTTAAATAAACAAAAAACCC
Found at i:30680230 original size:2 final size:2
Alignment explanation
Indices: 30680225--30680250 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30680215 TATATATATA
30680225 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
30680251 ATCCATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:30681999 original size:19 final size:19
Alignment explanation
Indices: 30681977--30682021 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
30681967 TTTTATTAAG
30681977 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
30681996 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
30682015 ATTTAAT
1 ATTTAAT
30682022 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:30688120 original size:4 final size:4
Alignment explanation
Indices: 30688111--30688136 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
30688101 TTTTATTATT
30688111 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
30688137 ATATGTCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:30689668 original size:19 final size:19
Alignment explanation
Indices: 30689646--30689690 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
30689636 TTTTATTAGG
30689646 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
30689665 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
30689684 ATTTAAT
1 ATTTAAT
30689691 TTATGCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:30692052 original size:20 final size:21
Alignment explanation
Indices: 30692029--30692074 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
30692019 TTTTTTAGTT
*
30692029 TTTTATATAT-AATTTTAATA
1 TTTTATATATAAATTATAATA
* *
30692049 TTTT-TTTATAAATTATCATA
1 TTTTATATATAAATTATAATA
30692069 TTTTAT
1 TTTTAT
30692075 TATTATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.19
20 16 0.76
21 1 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATATATAAATTATAATA
Found at i:30693555 original size:20 final size:20
Alignment explanation
Indices: 30693526--30693579 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
30693516 AGTTGGCAAG
*
30693526 GTATCGGTAG-AGCTAAAGTT
1 GTATCAGTAGAAG-TAAAGTT
30693546 GTATCAGTAGAAGTAAAGTT
1 GTATCAGTAGAAGTAAAGTT
* * *
30693566 CTACCGGTAGAAGT
1 GTATCAGTAGAAGT
30693580 TTCACTAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (20 bp):
GTATCAGTAGAAGTAAAGTT
Found at i:30696663 original size:20 final size:20
Alignment explanation
Indices: 30696625--30696664 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30696615 AGTTTGCAAG
*
30696625 GTATCGGTAGAACTAAAGTT
1 GTATCGGTAGAAATAAAGTT
*
30696645 GTATCGGTAGAAATGAAGTT
1 GTATCGGTAGAAATAAAGTT
30696665 CTACCGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (20 bp):
GTATCGGTAGAAATAAAGTT
Found at i:30696672 original size:20 final size:20
Alignment explanation
Indices: 30696629--30696673 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30696619 TGCAAGGTAT
* * *
30696629 CGGTAGAACTAAAGTTGTAT
1 CGGTAGAAATAAAGTTCTAC
*
30696649 CGGTAGAAATGAAGTTCTAC
1 CGGTAGAAATAAAGTTCTAC
30696669 CGGTA
1 CGGTA
30696674 AAAGTTTCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (20 bp):
CGGTAGAAATAAAGTTCTAC
Found at i:30696914 original size:31 final size:29
Alignment explanation
Indices: 30696853--30696948 Score: 102
Period size: 31 Copynumber: 3.2 Consensus size: 29
30696843 AATTGTGCAT
* * *
30696853 AATTAAATCAAAATTAAAATTAAAATTATAC
1 AATTAAA-CCAAATTAAAATTTATA-TATAC
*
30696884 ATTTAAACCACAATTAAAATTTTATATATAC
1 AATTAAACCA-AATTAAAA-TTTATATATAC
* *
30696915 AATTACACTAAATTAAAATTTATATATAC
1 AATTAAACCAAATTAAAATTTATATATAC
30696944 AATTA
1 AATTA
30696949 TAAATTAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
29 16 0.29
30 10 0.18
31 26 0.46
32 4 0.07
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.36
Consensus pattern (29 bp):
AATTAAACCAAATTAAAATTTATATATAC
Found at i:30696965 original size:31 final size:29
Alignment explanation
Indices: 30696853--30696973 Score: 82
Period size: 31 Copynumber: 4.0 Consensus size: 29
30696843 AATTGTGCAT
* *
30696853 AATTAAA-TCAAAATTAAAATTAAAATTATAC
1 AATTAAACT-AAAA-TAAAATTTATA-TATAC
* * *
30696884 ATTTAAACCACAATTAAAATTTTATATATAC
1 AATTAAACTA-AAATAAAA-TTTATATATAC
* *
30696915 AATTACACTAAATTAAAATTTATATATAC
1 AATTAAACTAAAATAAAATTTATATATAC
* * *
30696944 AATTATAAATTAAAATCAAATTAATATATA
1 AA-T-TAAACTAAAATAAAATTTATATATA
30696974 ATTTTAAGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
29 13 0.18
30 9 0.12
31 44 0.61
32 6 0.08
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.36
Consensus pattern (29 bp):
AATTAAACTAAAATAAAATTTATATATAC
Found at i:30698770 original size:22 final size:21
Alignment explanation
Indices: 30698737--30698777 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
30698727 GCATTTAATA
* *
30698737 AATTTTTTTTATTTTTTTATG
1 AATTTTTATTATTTATTTATG
30698758 AATTTTTAATTATTTATTTA
1 AATTTTT-ATTATTTATTTA
30698778 AAGTTGTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
AATTTTTATTATTTATTTATG
Found at i:30700542 original size:3 final size:3
Alignment explanation
Indices: 30700534--30700573 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
30700524 AAAGTGCAGC
* *
30700534 TCA TCA TCA TCA TCA TCA TCCA TCA GCA TCA GCA TCA TCA
1 TCA TCA TCA TCA TCA TCA T-CA TCA TCA TCA TCA TCA TCA
30700574 CCAAAAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.28
Consensus pattern (3 bp):
TCA
Found at i:30700563 original size:19 final size:19
Alignment explanation
Indices: 30700535--30700572 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30700525 AAGTGCAGCT
* *
30700535 CATCATCATCATCATCATC
1 CATCAGCATCAGCATCATC
30700554 CATCAGCATCAGCATCATC
1 CATCAGCATCAGCATCATC
30700573 ACCAAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (19 bp):
CATCAGCATCAGCATCATC
Found at i:30701872 original size:46 final size:46
Alignment explanation
Indices: 30701806--30701910 Score: 176
Period size: 46 Copynumber: 2.3 Consensus size: 46
30701796 CTTTTACCTT
*
30701806 ACCC-AATTTTTTCTCTTAAAAGGTTAAAACCCATCCATAAACTAA
1 ACCCAAATTTTTTCCCTTAAAAGGTTAAAACCCATCCATAAACTAA
*
30701851 ACCCAAATTTTTTCCCTTAAAAGGTTAAAACTCATCCATAAACTAA
1 ACCCAAATTTTTTCCCTTAAAAGGTTAAAACCCATCCATAAACTAA
30701897 ACCCAAATATTTTT
1 ACCCAAAT-TTTTT
30701911 AATTTTTTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
45 4 0.07
46 47 0.84
47 5 0.09
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (46 bp):
ACCCAAATTTTTTCCCTTAAAAGGTTAAAACCCATCCATAAACTAA
Found at i:30701941 original size:34 final size:34
Alignment explanation
Indices: 30701897--30701972 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
30701887 CATAAACTAA
*
30701897 ACCCAAATATTTTTAATTTTTTACATTTTATCTT
1 ACCCAAATATTTTTAATTTTTTACATTTTACCTT
* *
30701931 ACCCATATATTTTTAATTTTTTACCTTTTACCTT
1 ACCCAAATATTTTTAATTTTTTACATTTTACCTT
30701965 ACCCAAAT
1 ACCCAAAT
30701973 GTTGTTTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (34 bp):
ACCCAAATATTTTTAATTTTTTACATTTTACCTT
Found at i:30708270 original size:4 final size:4
Alignment explanation
Indices: 30708261--30708293 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
30708251 CCTATTCTGA
30708261 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
30708294 TATATTATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:30710473 original size:23 final size:24
Alignment explanation
Indices: 30710426--30710474 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
30710416 AGTTCGTAAA
* *
30710426 TTTATTATATGTTGATAATTTATG
1 TTTAGTATATATTGATAATTTATG
30710450 TTTAGTATATATTGAT-ATTTATG
1 TTTAGTATATATTGATAATTTATG
30710473 TT
1 TT
30710475 GTTAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (24 bp):
TTTAGTATATATTGATAATTTATG
Found at i:30718386 original size:5 final size:5
Alignment explanation
Indices: 30718376--30718410 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
30718366 AACTCATTAA
30718376 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
30718411 GAACTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:30718567 original size:3 final size:3
Alignment explanation
Indices: 30718561--30718610 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
30718551 CAAAAAAAAA
*
30718561 AAT AAT AAT AAA AAT AAT AAT AAT -AT AAT -AT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30718605 -AT AAT A
1 AAT AAT A
30718611 TAAATGTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 10 0.25
3 30 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:30718579 original size:15 final size:16
Alignment explanation
Indices: 30718556--30718610 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 16
30718546 ATATTCAAAA
*
30718556 AAAAAAATAATAATA-
1 AAAATAATAATAATAT
30718571 AAAATAATAATAATAT
1 AAAATAATAATAATAT
*
30718587 AATATAAT-ATAATAT
1 AAAATAATAATAATAT
*
30718602 AATATAATA
1 AAAATAATA
30718611 TAAATGTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 29 0.81
16 7 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATAATAATAATAT
Found at i:30718590 original size:5 final size:5
Alignment explanation
Indices: 30718565--30718613 Score: 73
Period size: 5 Copynumber: 9.8 Consensus size: 5
30718555 AAAAAAAATA
*
30718565 ATAAT A-AAA ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
30718614 ATGTATGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 3 0.08
5 32 0.80
6 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:30718846 original size:39 final size:40
Alignment explanation
Indices: 30718802--30718913 Score: 109
Period size: 48 Copynumber: 2.6 Consensus size: 40
30718792 ATTTGTCCCT
*
30718802 TTAATTTAAATTAAAAGTTTCAAATATTT-TATAAGTTAA
1 TTAATTTAAATTAAAATTTTCAAATATTTATATAAGTTAA
30718841 TTAATTTAATTTATTTACTGTAAATTTTCAAATATTTATATAAGTTAA
1 TTAATTTAA---A-TTA----AAATTTTCAAATATTTATATAAGTTAA
* * *
30718889 TTTATTTTAATAAAAATTTTCAAAT
1 TTAATTTAAATTAAAATTTTCAAAT
30718914 TTATATTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
39 9 0.15
40 12 0.20
42 1 0.02
43 3 0.05
44 2 0.03
45 1 0.02
47 15 0.25
48 17 0.28
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (40 bp):
TTAATTTAAATTAAAATTTTCAAATATTTATATAAGTTAA
Found at i:30723559 original size:24 final size:24
Alignment explanation
Indices: 30723532--30723746 Score: 232
Period size: 24 Copynumber: 8.8 Consensus size: 24
30723522 AAACGTATAT
30723532 AAGCTGACGAGCGTAAACGTGTGC
1 AAGCTGACGAGCGTAAACGTGTGC
* * **
30723556 AAGCTAATGAGCGTAAACGTGTAT
1 AAGCTGACGAGCGTAAACGTGTGC
* *
30723580 AAGTTGACGAGTGTAAACGTAAAGTGC
1 AAGCTGACGAGCGTAAACGT---GTGC
* **
30723607 AAGCTGACGAGCGTAAACGTATAT
1 AAGCTGACGAGCGTAAACGTGTGC
*
30723631 AAGCTGACGAGCGTAAACATGTGC
1 AAGCTGACGAGCGTAAACGTGTGC
*
30723655 AAGCTGACGAGCATAAACGTGTGC
1 AAGCTGACGAGCGTAAACGTGTGC
* * * **
30723679 AAGCTGACAAGTGTAAACGTATAT
1 AAGCTGACGAGCGTAAACGTGTGC
* *
30723703 AAGCTGACGAGAGTAAACATGTGC
1 AAGCTGACGAGCGTAAACGTGTGC
*
30723727 AAGCTGATGAGCGTAAACGT
1 AAGCTGACGAGCGTAAACGT
30723747 TTATAAGTTG
Statistics
Matches: 152, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
24 132 0.87
27 20 0.13
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (24 bp):
AAGCTGACGAGCGTAAACGTGTGC
Found at i:30727208 original size:21 final size:21
Alignment explanation
Indices: 30727184--30727235 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30727174 CGAGATGATT
*
30727184 CTACCGATAC-ATGTGACACAA
1 CTACCGATACAAT-TCACACAA
* *
30727205 CTACCGAAACAATTCATACAA
1 CTACCGATACAATTCACACAA
30727226 CTACCGATAC
1 CTACCGATAC
30727236 CAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.19
Consensus pattern (21 bp):
CTACCGATACAATTCACACAA
Found at i:30728024 original size:52 final size:52
Alignment explanation
Indices: 30727946--30728346 Score: 707
Period size: 52 Copynumber: 7.7 Consensus size: 52
30727936 ATTTCATTTC
* *
30727946 ATTCATATACTCACGATGACACATAGCCA-CTAGACCTCATAATCCATAAAGG
1 ATTCATATACTCACGATGACACATAGCCATC-GGACCTCATAATCCGTAAAGG
*
30727998 ATTCATATACTCACGATGACACATAGCCATCAGACCTCATAA-CTCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATC-CGTAAAGG
*
30728050 ATTCATATACTCATGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
30728102 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
*
30728154 ATTCATATACTCACGATGACATATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
*
30728206 ATTCATATACTCACGATGACACATAACCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
*
30728258 ATTCATATACTCACGATGACACAAAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
30728310 ATTCATATACTCACGATGACACATAGCCATCGGACCT
1 ATTCATATACTCACGATGACACATAGCCATCGGACCT
30728347 TTTTCATTTA
Statistics
Matches: 336, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
51 1 0.00
52 333 0.99
53 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
Found at i:30748534 original size:13 final size:13
Alignment explanation
Indices: 30748513--30748546 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30748503 TAAATAATAT
30748513 AATAATAATCCTA
1 AATAATAATCCTA
*
30748526 AATATTAATCCTA
1 AATAATAATCCTA
*
30748539 AAAAATAA
1 AATAATAA
30748547 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:30750790 original size:17 final size:17
Alignment explanation
Indices: 30750768--30750806 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30750758 AAAATGAAAG
*
30750768 TAAAATAAATAA-ATAAA
1 TAAAATAAA-AACACAAA
30750785 TAAAATAAAAACACAAA
1 TAAAATAAAAACACAAA
30750802 TAAAA
1 TAAAA
30750807 ACACTCGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAATAAAAACACAAA
Found at i:30755447 original size:16 final size:16
Alignment explanation
Indices: 30755420--30755463 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
30755410 ATTTTGTTAG
30755420 TTATTATTATTATTAT-T
1 TTATT-TTATTATT-TGT
30755437 TTATTTTATTATTTGT
1 TTATTTTATTATTTGT
30755453 TTATTTTATTA
1 TTATTTTATTA
30755464 ATTTTAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.04
16 20 0.77
17 5 0.19
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTATTTTATTATTTGT
Found at i:30765667 original size:26 final size:26
Alignment explanation
Indices: 30765629--30765749 Score: 127
Period size: 26 Copynumber: 4.7 Consensus size: 26
30765619 AGAATTACTA
*
30765629 TACTGGCTTGTAAGAGCGATACACTG
1 TACTGGCTCGTAAGAGCGATACACTG
* *
30765655 TACTGGCTCGTAAGAGCGATATACTA
1 TACTGGCTCGTAAGAGCGATACACTG
* * *
30765681 TACTGGATCATAAGGGCGATACACTG
1 TACTGGCTCGTAAGAGCGATACACTG
* * **
30765707 TACTTGCTCGTAAGAGTGATGTACTG
1 TACTGGCTCGTAAGAGCGATACACTG
*
30765733 -ACTGAGCTCGTATGAGC
1 TACTG-GCTCGTAAGAGC
30765750 TAAATTTACT
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (26 bp):
TACTGGCTCGTAAGAGCGATACACTG
Found at i:30765700 original size:52 final size:52
Alignment explanation
Indices: 30765624--30765731 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
30765614 TCTGAAGAAT
* **
30765624 TACTATACTGGCTTGTAAGAGCGATACACTGTACTGGCTCGTAAGAGCGATA
1 TACTATACTGGATCATAAGAGCGATACACTGTACTGGCTCGTAAGAGCGATA
* * * *
30765676 TACTATACTGGATCATAAGGGCGATACACTGTACTTGCTCGTAAGAGTGATG
1 TACTATACTGGATCATAAGAGCGATACACTGTACTGGCTCGTAAGAGCGATA
30765728 TACT
1 TACT
30765732 GACTGAGCTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (52 bp):
TACTATACTGGATCATAAGAGCGATACACTGTACTGGCTCGTAAGAGCGATA
Found at i:30765813 original size:26 final size:26
Alignment explanation
Indices: 30765775--30765851 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
30765765 ACTTGAAGAT
*
30765775 ACTGTACTAGCTCGGAAGAGCGATAA
1 ACTGAACTAGCTCGGAAGAGCGATAA
* * *
30765801 ACTGAACTGGCTCAGG-AGAGCAATAT
1 ACTGAACTAGCTC-GGAAGAGCGATAA
* *
30765827 ACTGAACTAGATCGTAAGAGCGATA
1 ACTGAACTAGCTCGGAAGAGCGATA
30765852 TATTGTATTG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 38 0.93
27 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.19
Consensus pattern (26 bp):
ACTGAACTAGCTCGGAAGAGCGATAA
Found at i:30766339 original size:26 final size:27
Alignment explanation
Indices: 30766289--30766339 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30766279 GAACACTAGC
30766289 ATGCTCTCCGTTAATTTAGCACGTATT
1 ATGCTCTCCGTTAATTTAGCACGTATT
30766316 ATGCTCTCCGATT-A-TTAGCACGTA
1 ATGCTCTCCG-TTAATTTAGCACGTA
30766340 AAGTGCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 10 0.43
27 11 0.48
28 2 0.09
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (27 bp):
ATGCTCTCCGTTAATTTAGCACGTATT
Found at i:30766346 original size:26 final size:27
Alignment explanation
Indices: 30766289--30766349 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
30766279 GAACACTAGC
*
30766289 ATGCTCTCCGTTAATTTAGCACGTATT
1 ATGCTCTCCGTTAATTTAGCACGTATA
30766316 ATGCTCTCCGATT-A-TTAGCACGTA-A
1 ATGCTCTCCG-TTAATTTAGCACGTATA
30766341 AGTGCTCTC
1 A-TGCTCTC
30766350 TGTTTAGCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 1 0.03
26 17 0.55
27 11 0.35
28 2 0.06
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (27 bp):
ATGCTCTCCGTTAATTTAGCACGTATA
Found at i:30769148 original size:107 final size:107
Alignment explanation
Indices: 30768962--30769203 Score: 405
Period size: 107 Copynumber: 2.3 Consensus size: 107
30768952 GTTCTCAAAC
* *
30768962 GATGCTGCTCACACAAGCTGTAGAGAATATACGAATCAAGCATAAATCTCAGCCATCGTAGGGCC
1 GATGCTGCTCACACAAGCTGTAGAGAATATACGAATCAAGCATAAATCTCAACCATCATAGGGCC
*
30769027 TATAATTCATTCTTGGATTCATTTCACATTTTCTC-GACTCAT
66 TATAATCCATTCTTGGATTCATTTCACATTTTC-CAGACTCAT
* * *
30769069 GATGCTGCTCATACAAGCTGTAAAGAATATGCGAATCAAGCATAAATCTCAACCATCATAGGGCC
1 GATGCTGCTCACACAAGCTGTAGAGAATATACGAATCAAGCATAAATCTCAACCATCATAGGGCC
30769134 TATAATCCATTCTTGGATTCATTTCACATTTTCCAGACTCAT
66 TATAATCCATTCTTGGATTCATTTCACATTTTCCAGACTCAT
*
30769176 GATGCTGGTCACACAAGCTGTAGAGAAT
1 GATGCTGCTCACACAAGCTGTAGAGAAT
30769204 CCGCAACAAA
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
106 1 0.01
107 124 0.99
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (107 bp):
GATGCTGCTCACACAAGCTGTAGAGAATATACGAATCAAGCATAAATCTCAACCATCATAGGGCC
TATAATCCATTCTTGGATTCATTTCACATTTTCCAGACTCAT
Found at i:30778582 original size:21 final size:19
Alignment explanation
Indices: 30778536--30778588 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
30778526 CCTGACTAGT
30778536 TCTACCGATACAAGTATAA
1 TCTACCGATACAAGTATAA
*
30778555 TCCCTACCGATACATGTCATACA
1 T--CTACCGATACAAGT-ATA-A
*
30778578 TCTACTGATAC
1 TCTACCGATAC
30778589 TAAAAACTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
21 22 0.79
22 3 0.11
23 2 0.07
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.28
Consensus pattern (19 bp):
TCTACCGATACAAGTATAA
Found at i:30779388 original size:51 final size:51
Alignment explanation
Indices: 30779263--30779497 Score: 247
Period size: 51 Copynumber: 4.6 Consensus size: 51
30779253 TTTCGTTTAA
** * *
30779263 TACTCACGATGACA-TATAGTCATCAGACCTCTTGTTCCATATAGGAATTCATA
1 TACTCACGATGACACT-TAGTCATCAGACCT-TTAATCCATAAAGG-ATTCATT
* * * *
30779316 TACTCACGATGACACTAAGTCATCAGACCTTTAATCCATCATGGATTCATG
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATT
* * *
30779367 TACTCACGATGAAACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATT
* * * * * * *
30779418 TACTCATGATGACACTTACTTATCAAAACTTTAATCCGTAAAGGATTCTTT
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATT
* * *
30779469 TACTCACGATAACATTTAGTCATCGGACC
1 TACTCACGATGACACTTAGTCATCAGACC
30779498 ATTTCGTTTA
Statistics
Matches: 151, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
51 114 0.75
52 9 0.06
53 27 0.18
54 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATT
Found at i:30785585 original size:26 final size:26
Alignment explanation
Indices: 30785521--30785585 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
30785511 AGAATTATTA
* * *
30785521 TACTAGCTCATAAGAGTGATATAATG
1 TACTAGCTCGTAAAAGCGATATAATG
* * *
30785547 TACTGGCTTGTAAAAGCGATATATTG
1 TACTAGCTCGTAAAAGCGATATAATG
*
30785573 TATTAGCTCGTAA
1 TACTAGCTCGTAA
30785586 GAGCAATTTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (26 bp):
TACTAGCTCGTAAAAGCGATATAATG
Found at i:30785677 original size:26 final size:27
Alignment explanation
Indices: 30785646--30785731 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 27
30785636 AAGATATTGT
30785646 ACTGGCTCAGAAGAGCGATAA-ACTGA
1 ACTGGCTCAGAAGAGCGATAATACTGA
* * * *
30785672 ATTGGCTCGGGAGAGC-AAAATACTGA
1 ACTGGCTCAGAAGAGCGATAATACTGA
* * *
30785698 ACTGGCTCATAAGAGCGAT-ATATTGT
1 ACTGGCTCAGAAGAGCGATAATACTGA
30785724 ACTGGCTC
1 ACTGGCTC
30785732 GTAAGACTGA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
25 3 0.06
26 43 0.91
27 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (27 bp):
ACTGGCTCAGAAGAGCGATAATACTGA
Found at i:30787331 original size:71 final size:71
Alignment explanation
Indices: 30787239--30787372 Score: 173
Period size: 71 Copynumber: 1.9 Consensus size: 71
30787229 AGCTGGGAAA
* * * *
30787239 ATATTACTTTGGACATTCTGATGAGTGCTTGG-GACATATTACTTCAGTTTATGCTGATAAGCGT
1 ATATTACTTTGGACATTCTGATAAGTG-TTGGACACATATTACTTCAGTTTATACCGATAAGCGT
30787303 TAGGCAC
65 TAGGCAC
* * *
30787310 ATATTACTTCT-GACGTTCTGATAAGTGTTGGACACATATTTCTTTAGTTTATACCGATAAGCG
1 ATATTACTT-TGGACATTCTGATAAGTGTTGGACACATATTACTTCAGTTTATACCGATAAGCG
30787373 CATATTACTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 4 0.07
71 49 0.91
72 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (71 bp):
ATATTACTTTGGACATTCTGATAAGTGTTGGACACATATTACTTCAGTTTATACCGATAAGCGTT
AGGCAC
Found at i:30787413 original size:64 final size:64
Alignment explanation
Indices: 30787309--30787431 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 64
30787299 GCGTTAGGCA
* * *
30787309 CATATTACTTCTGACGTTCTGATAAGTGTTGGACACATATT-TCTTTAGTTTATACCGATAAGCG
1 CATATTACTTCAGACATTCTGATAAGTGTTGGACAAATATTAT-TTTAGTTTATACCGATAAGCG
* * *
30787373 CATATTACTTCAGACATTCTGATGAGTGTTGGGA-AAATATTATTTTGGTTTATATCGAT
1 CATATTACTTCAGACATTCTGATAAGTGTT-GGACAAATATTATTTTAGTTTATACCGAT
30787432 GAGTACTAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
64 47 0.92
65 4 0.08
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.41
Consensus pattern (64 bp):
CATATTACTTCAGACATTCTGATAAGTGTTGGACAAATATTATTTTAGTTTATACCGATAAGCG
Found at i:30789682 original size:109 final size:109
Alignment explanation
Indices: 30789550--30789757 Score: 287
Period size: 107 Copynumber: 1.9 Consensus size: 109
30789540 AAATAAAGAA
* * *
30789550 CATTTATTGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAAAATCATACCCAGC-A
1 CATTTATTGATTTTAAATAGGATACTCAATTACTTAGGTTCAAAG--AAAAATCACACCCAACTA
*
30789614 CGTAAGGGCACAATTTCTTGA-GCCCCTAAAATAAAAAAACATCGAG
64 -GTAAGGGCACAATTTCTCGAGGCCCCTAAAATAAAAAAACATCGAG
* * *
30789660 CATTTATTGA-TTTAAATAGGATACTCAATTATTTAGGTTCGAAGAAAAATCACACTCAACTAGT
1 CATTTATTGATTTTAAATAGGATACTCAATTACTTAGGTTCAAAGAAAAATCACACCCAACTAGT
* *
30789724 TAGGGCACAATTTCTCGAGGTCCCTAAAATAAAA
66 AAGGGCACAATTTCTCGAGGCCCCTAAAATAAAA
30789758 GGACATTGCC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
107 31 0.36
108 15 0.17
109 31 0.36
110 10 0.11
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (109 bp):
CATTTATTGATTTTAAATAGGATACTCAATTACTTAGGTTCAAAGAAAAATCACACCCAACTAGT
AAGGGCACAATTTCTCGAGGCCCCTAAAATAAAAAAACATCGAG
Found at i:30800237 original size:41 final size:41
Alignment explanation
Indices: 30800175--30800270 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
30800165 GAATTTTATT
30800175 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
30800216 TTAAAAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
30800257 TTGACAAGAATTCT
1 TTAACAAGAATTCT
30800271 CTACGAATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:30803733 original size:4 final size:4
Alignment explanation
Indices: 30803726--30803762 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
30803716 ACGTACGTAC
30803726 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
30803763 AACATGCACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:30806208 original size:27 final size:27
Alignment explanation
Indices: 30806174--30806229 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
30806164 CGCCAAAATG
*
30806174 TTTACAAAAGATAGGAATGGAAAACTA
1 TTTACAAAAGAAAGGAATGGAAAACTA
* *
30806201 TTTACAAAATAAAGGAATGGCAAACTA
1 TTTACAAAAGAAAGGAATGGAAAACTA
30806228 TT
1 TT
30806230 GCCAAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (27 bp):
TTTACAAAAGAAAGGAATGGAAAACTA
Found at i:30811692 original size:15 final size:16
Alignment explanation
Indices: 30811672--30811718 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
30811662 AAAAAAAACA
30811672 TAAAAATAAAATATTT
1 TAAAAATAAAATATTT
30811688 TAAAAATAAAATATTT
1 TAAAAATAAAATATTT
*
30811704 T-TAAATAAAATATTT
1 TAAAAATAAAATATTT
30811719 GCATGATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAAATAAAATATTT
Found at i:30833220 original size:14 final size:14
Alignment explanation
Indices: 30833201--30833231 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30833191 AGAATAGATT
30833201 TTTAATTAAATAAA
1 TTTAATTAAATAAA
*
30833215 TTTAATTAATTAAA
1 TTTAATTAAATAAA
30833229 TTT
1 TTT
30833232 TTAAACCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:30837134 original size:17 final size:18
Alignment explanation
Indices: 30837099--30837146 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
30837089 AATTTAAACA
*
30837099 AATAAAAATATATATAAATT
1 AATATAAATAT-TATAAA-T
30837119 AAT-TAAATATTA-AAAT
1 AATATAAATATTATAAAT
30837135 AATATAAATATT
1 AATATAAATATT
30837147 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 2 0.08
19 6 0.23
20 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATAAATATTATAAAT
Found at i:30837432 original size:25 final size:26
Alignment explanation
Indices: 30837386--30837434 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
30837376 AATTTAAAGT
*
30837386 TTTTTAAAATAAAAAATTAAAGGATA
1 TTTTTAAAATAAAAAATGAAAGGATA
30837412 TTTTTAGAAA-AAAAAA-GAAAGGA
1 TTTTTA-AAATAAAAAATGAAAGGA
30837435 GTGTAGTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 12 0.57
27 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (26 bp):
TTTTTAAAATAAAAAATGAAAGGATA
Found at i:30837900 original size:2 final size:2
Alignment explanation
Indices: 30837893--30837917 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30837883 CAAAAAGAAC
30837893 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
30837918 ATTTCAGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30846137 original size:26 final size:26
Alignment explanation
Indices: 30846065--30846139 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
30846055 TTATTTTCAA
* * *
30846065 TAAAAATATAAACAATT-AAATATTT
1 TAAAAATAAAAACTATTGAAAAATTT
* * *
30846090 TAAAATTAAAAACTCTTTAAAAATTT
1 TAAAAATAAAAACTATTGAAAAATTT
30846116 TAAAAATAAAAA-TATATGAAAAAT
1 TAAAAATAAAAACTAT-TGAAAAAT
30846140 ATATTTTTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
25 15 0.38
26 25 0.62
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (26 bp):
TAAAAATAAAAACTATTGAAAAATTT
Found at i:30846307 original size:13 final size:13
Alignment explanation
Indices: 30846289--30846315 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30846279 TCATTGTTCC
30846289 AAAAATATATATT
1 AAAAATATATATT
30846302 AAAAATATATATT
1 AAAAATATATATT
30846315 A
1 A
30846316 TATTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAATATATATT
Found at i:30846901 original size:27 final size:27
Alignment explanation
Indices: 30846871--30846933 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
30846861 TAAATAAATA
* *
30846871 AAAATATTTTTATTTTTTAAAATTTTT
1 AAAATATTTTAATTTTTCAAAATTTTT
* *
30846898 AAAAAATTTTAATTTTTCACAATTTTT
1 AAAATATTTTAATTTTTCAAAATTTTT
30846925 -AAATATTTT
1 AAAATATTTT
30846934 CTAATATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (27 bp):
AAAATATTTTAATTTTTCAAAATTTTT
Found at i:30847399 original size:2 final size:2
Alignment explanation
Indices: 30847392--30847418 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30847382 CATTATAAGA
30847392 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
30847419 ATTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30856896 original size:49 final size:48
Alignment explanation
Indices: 30856803--30857174 Score: 295
Period size: 50 Copynumber: 7.5 Consensus size: 48
30856793 TGGTTCTAGA
** * * *
30856803 TTCGCCATTGTGGCTTAAATCTTTTCCTTCA-T-GCTTCTGAGGTACAAGG
1 TTCGCCATTACGGCTTAAATCTTTCCCTT-ATTATCTTC-GTGGTAC-AGG
* * * *
30856852 TTCGCCATTACGACTTAAAACTTTCCCTT-TGTGTCTTCGTGGTACTGG
1 TTCGCCATTACGGCTTAAATCTTTCCCTTAT-TATCTTCGTGGTACAGG
* ** * *
30856900 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCT-TTTGAGGTACAAGG
1 -TTCGCCATTACGGCTTAAATCTTTCCCTT-ATTATCTTCGTGGTAC-AGG
* ** * * *
30856950 TTCACCATTGTGACTTAAACCTTT-CCTTCATTATCTTCGTGGTACTGG
1 TTCGCCATTACGGCTTAAATCTTTCCCTT-ATTATCTTCGTGGTACAGG
* *
30856998 ATTCGCCATTACGGCTTAAATCTTTCCCTCTATTATCTTCATGGTACTAGA
1 -TTCGCCATTACGGCTTAAATCTTTCCCT-TATTATCTTCGTGGTAC-AGG
* * * *
30857049 TTCGCCGTTACGGCTTAAATCTTTCCTTTCATTATCTTTGTGGTACTAGA
1 TTCGCCATTACGGCTTAAATCTTTCCCTT-ATTATCTTCGTGGTAC-AGG
* *
30857099 TTCGCCATTGCGGCTTAAATCTTTCCCTCTATTATCTTCGTGGTACTGG
1 TTCGCCATTACGGCTTAAATCTTTCCCT-TATTATCTTCGTGGTACAGG
* * *
30857148 ATTCACCGTTGCGGCTTAAATCTTTCC
1 -TTCGCCATTACGGCTTAAATCTTTCC
30857175 TTCATGCTTT
Statistics
Matches: 263, Mismatches: 45, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
48 12 0.05
49 114 0.43
50 133 0.51
51 4 0.02
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.40
Consensus pattern (48 bp):
TTCGCCATTACGGCTTAAATCTTTCCCTTATTATCTTCGTGGTACAGG
Found at i:30857051 original size:50 final size:50
Alignment explanation
Indices: 30856793--30857271 Score: 352
Period size: 49 Copynumber: 9.7 Consensus size: 50
30856783 AATGTCATTG
* * * *
30856793 TGGTTCTAGATTCGCCATTGTGGCTTAAATCTTTTCCT-TCA-T-GCTTC-
1 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCT-ATTATCTTCA
* * * * * * *
30856840 TGAGGTACAAGGTTCGCCATTACGACTTAAAACTTTCCCT-T-TGTGTCTTCG
1 T--GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCTAT-TATCTTCA
* ** * *
30856891 TGGTACTGGATTCGCCATTGCGGCTTAAATCTTTCCCT-TCATGCTTTTGA
1 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCT-ATTATCTTCA
* * * * * * * *
30856941 -GGTACAAGGTTCACCATTGTGACTTAAACCTTTCCTTC-ATTATCTTCG
1 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCTATTATCTTCA
* *
30856989 TGGTACTGGATTCGCCATTACGGCTTAAATCTTTCCCTCTATTATCTTCA
1 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCTATTATCTTCA
* * * **
30857039 TGGTACTAGATTCGCCGTTACGGCTTAAATCTTT-CCTTTCATTATCTTTG
1 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCT-ATTATCTTCA
*
30857089 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCTATTATCTTCG
1 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCTATTATCTTCA
* * * * ** * *
30857139 TGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCTTC-ATGCTTTTGA
1 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCTATTATCTTCA
* * * * ** * *
30857188 -GGTACAAGGTTCGTCGTTGCAACTTAAACCTTTCCCTCCATTATCTTCA
1 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCTATTATCTTCA
***
30857237 CTGGTACTAGATTCGTTGTTGCGGCTTAAATCTTT
1 -TGGTACTAGATTCGCCATTGCGGCTTAAATCTTT
30857272 TCCTTCGTGG
Statistics
Matches: 336, Mismatches: 80, Indels: 28
0.76 0.18 0.06
Matches are distributed among these distances:
47 1 0.00
48 34 0.10
49 136 0.40
50 132 0.39
51 33 0.10
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (50 bp):
TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTCTATTATCTTCA
Found at i:30857233 original size:198 final size:200
Alignment explanation
Indices: 30856885--30857276 Score: 472
Period size: 198 Copynumber: 2.0 Consensus size: 200
30856875 TCCCTTTGTG
* * *
30856885 TCTTCGTGGTACTGGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGG
1 TCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGATTTCGAGGTACAAGG
* * * * **
30856950 TTCACCATTGTGACTTAAACCTTTCCTTCATTATCTTCGTGGTACTGGATTCGCCATTACGGCTT
66 TTCACCATTGCGACTTAAACCTTTCCTTCATGATCTTCGAGGTACAGGATTCGCCATTACAACTT
* *
30857015 AAATCTTTCCCTCTATTATCTTCA-TGGTACTAGATTCGCCGTTACGGCTTAAATC-TTTCCTTT
131 AAACCTTTCCCTCCATTATCTTCACTGGTACTAGATTCGCCGTTACGGCTTAAATCTTTTCCTTT
30857078 CATTA
196 CATTA
* * * *
30857083 TCTTTGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCC-TCTATTATCTTCGTGGTAC-T
1 TCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTC-ATGAT-TTCGAGGTACAA
* * * * * * * *
30857146 GGATTCACCGTTGCGGCTTAAATCTTTCCTTCATGCT-TTTGAGGTACAAGG-TTCGTCGTTGCA
64 GG-TTCACCATTGCGACTTAAACCTTTCCTTCATGATCTTCGAGGTAC-AGGATTCGCCATTACA
** *
30857209 ACTTAAACCTTTCCCTCCATTATCTTCACTGGTACTAGATTCGTTGTTGCGGCTTAAATCTTTTC
127 ACTTAAACCTTTCCCTCCATTATCTTCACTGGTACTAGATTCGCCGTTACGGCTTAAATCTTTTC
30857274 CTT
192 CTT
30857277 CGTGGTAATG
Statistics
Matches: 162, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
197 2 0.01
198 87 0.54
199 66 0.41
200 7 0.04
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (200 bp):
TCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGATTTCGAGGTACAAGG
TTCACCATTGCGACTTAAACCTTTCCTTCATGATCTTCGAGGTACAGGATTCGCCATTACAACTT
AAACCTTTCCCTCCATTATCTTCACTGGTACTAGATTCGCCGTTACGGCTTAAATCTTTTCCTTT
CATTA
Found at i:30857735 original size:18 final size:18
Alignment explanation
Indices: 30857708--30857744 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30857698 AAAAATTGCC
*
30857708 AAATATTTACAAGGAACA
1 AAATAATTACAAGGAACA
30857726 AAATAATTACAAGGAACA
1 AAATAATTACAAGGAACA
30857744 A
1 A
30857745 TATTAGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (18 bp):
AAATAATTACAAGGAACA
Found at i:30870558 original size:6 final size:6
Alignment explanation
Indices: 30870547--30870586 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
30870537 TCAAATTAAA
* *
30870547 TTTTAT TTTTAT TTTTAT TTATTAT TATTAT TATTAT TTT
1 TTTTAT TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT TTT
30870587 GGTTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:30870569 original size:16 final size:16
Alignment explanation
Indices: 30870548--30870586 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
30870538 CAAATTAAAT
*
30870548 TTTATTTTTATTTTTA
1 TTTATTTTTATTATTA
*
30870564 TTTATTATTATTATTA
1 TTTATTTTTATTATTA
30870580 -TTATTTT
1 TTTATTTT
30870587 GGTTTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTTTTATTATTA
Found at i:30870577 original size:19 final size:19
Alignment explanation
Indices: 30870549--30870585 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30870539 AAATTAAATT
* *
30870549 TTATTTTTATTTTTATTTA
1 TTATTATTATTATTATTTA
30870568 TTATTATTATTATTATTT
1 TTATTATTATTATTATTT
30870586 TGGTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTATTATTATTATTATTTA
Found at i:30875988 original size:13 final size:13
Alignment explanation
Indices: 30875970--30875996 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30875960 TAGATCAAAT
30875970 TCATACTAGATGG
1 TCATACTAGATGG
30875983 TCATACTAGATGG
1 TCATACTAGATGG
30875996 T
1 T
30875997 TTTTGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TCATACTAGATGG
Found at i:30882386 original size:25 final size:24
Alignment explanation
Indices: 30882341--30882388 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
30882331 ATACTAACTG
* *
30882341 TAAAAATATTTTTCATAATTAATC
1 TAAAAATATGTTTAATAATTAATC
*
30882365 TAAAACATATGTTTAATTATTAAT
1 TAAAA-ATATGTTTAATAATTAAT
30882389 TAATTAGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (24 bp):
TAAAAATATGTTTAATAATTAATC
Found at i:30893115 original size:11 final size:9
Alignment explanation
Indices: 30893089--30893130 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
30893079 AAAGAAACAC
*
30893089 ATTTTTTGA
1 ATTTTTTTA
*
30893098 ATTTTTATA
1 ATTTTTTTA
30893107 ATTTTTTTA
1 ATTTTTTTA
30893116 ATTTTTTTGA
1 ATTTTTTT-A
30893126 ATTTT
1 ATTTT
30893131 AAAAAGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 23 0.79
10 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:30893149 original size:28 final size:28
Alignment explanation
Indices: 30893090--30893151 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
30893080 AAGAAACACA
* **
30893090 TTTTTTGAATTTTTATAATTTTTTTAAT
1 TTTTTTGAATTTTTAAAAAGTTTTTAAT
*
30893118 TTTTTTGAA-TTTTAAAAAGTTTTTATT
1 TTTTTTGAATTTTTAAAAAGTTTTTAAT
30893145 CTTTTTT
1 -TTTTTT
30893152 CATAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (28 bp):
TTTTTTGAATTTTTAAAAAGTTTTTAAT
Found at i:30895912 original size:13 final size:14
Alignment explanation
Indices: 30895894--30895923 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30895884 GTCAATGCAA
30895894 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
30895907 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
30895921 TCA
1 TCA
30895924 ATGTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:30900438 original size:21 final size:20
Alignment explanation
Indices: 30900400--30900438 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30900390 GCAAGGAATT
*
30900400 TGAAACAACAAAAGTAAAAG
1 TGAAACAACAAAACTAAAAG
*
30900420 TGAAACAAATAAAACTAAA
1 TGAAAC-AACAAAACTAAA
30900439 TAAAAAAGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (20 bp):
TGAAACAACAAAACTAAAAG
Found at i:30908887 original size:11 final size:12
Alignment explanation
Indices: 30908873--30908941 Score: 63
Period size: 11 Copynumber: 5.8 Consensus size: 12
30908863 TATTTCTAAG
30908873 TTTAAATTT-AA
1 TTTAAATTTAAA
30908884 TTTAAATTTAAA
1 TTTAAATTTAAA
* **
30908896 TTTAAAATTCATT
1 TTT-AAATTTAAA
30908909 TTTAAATTTAAA
1 TTTAAATTTAAA
*
30908921 TTT--GTTCTAAA
1 TTTAAATT-TAAA
30908932 TTTAAATTTA
1 TTTAAATTTA
30908942 GCTTAAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
10 2 0.04
11 16 0.36
12 16 0.36
13 11 0.24
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:30908891 original size:6 final size:6
Alignment explanation
Indices: 30908873--30908941 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
30908863 TATTTCTAAG
* **
30908873 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAAA TTCATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
*
30908921 TTT--G TTCTAAA TTTAAA TTTA
1 TTTAAA TT-TAAA TTTAAA TTTA
30908942 GCTTAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 35 0.70
7 7 0.14
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:30908895 original size:17 final size:17
Alignment explanation
Indices: 30908873--30908941 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
30908863 TATTTCTAAG
30908873 TTTAAATTT-AATTTAAA
1 TTTAAATTTAAATTT-AA
* *
30908890 TTTAAATTTAAAATTCATT
1 TTTAAATTT-AAATTTA-A
*
30908909 TTTAAATTTAAATTT-G
1 TTTAAATTTAAATTTAA
30908925 TTCTAAATTTAAATTTA
1 TT-TAAATTTAAATTTA
30908942 GCTTAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 2 0.05
17 22 0.51
18 6 0.14
19 13 0.30
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:30908920 original size:42 final size:42
Alignment explanation
Indices: 30908858--30908941 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
30908848 ATTTGGTTTC
* *
30908858 AAATTTATTTCTAAGTTTAAATTTAATT-TAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTT-ATTCTAAATTTAAATTTA
* *
30908900 AAATTCATTTTTAAATTTAAATTTGTTCTAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
30908942 GCTTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
Found at i:30908948 original size:17 final size:16
Alignment explanation
Indices: 30908910--30908949 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
30908900 AAATTCATTT
*
30908910 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGC
30908926 TCTAAATTTAAATTTAGC
1 T-TAAATTTAAATTT-GC
30908944 TTAAAT
1 TTAAAT
30908950 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTGC
Found at i:30910908 original size:29 final size:29
Alignment explanation
Indices: 30910876--30910968 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
30910866 GATTTCACCA
30910876 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCCTAAACTTTCC
* * * *
30910905 AAAA-TCCCTTTTTTAACCCT-AATTTTACC
1 AAAATTACC-ATTTTACCCCTAAACTTT-CC
* * *
30910934 AAAAATTGCCATTTTACCCCCAAACTTTCT
1 -AAAATTACCATTTTACCCCTAAACTTTCC
30910964 AAAAT
1 AAAAT
30910969 CTTATTTTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
28 8 0.16
29 20 0.41
30 13 0.27
31 8 0.16
ACGTcount: A:0.35, C:0.28, G:0.01, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTAAACTTTCC
Found at i:30910908 original size:59 final size:59
Alignment explanation
Indices: 30910816--30911100 Score: 267
Period size: 59 Copynumber: 4.8 Consensus size: 59
30910806 TGAAACTTCA
* *
30910816 AAAAATTACCATTTTACCTCCGAAA-TTTTCAAAATCCCATTATTAACCCCGATTTCACC
1 AAAAATTACCATTTTACC-CCGAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * ** *
30910875 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCTTTTTTAACCCTAATTTTACC
1 AAAAATTACCATTTTACCCCGAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * ** *
30910934 AAAAATTGCCATTTTACCCCCAAACTTTCTAAAATCTTATTTTTAA-CCCTAGTTTCACC
1 AAAAATTACCATTTTACCCCGAAACTTTCCAAAATCCCATTTTTAACCCCGA-TTTCACC
* * * * * * * *
30910993 AAAAATTACCATTTTTCCCTCG-ACCCTTCCAAAATTCCATTTTGAACCTCGAAACTT--CT
1 AAAAATTACCATTTTACCC-CGAAACTTTCCAAAATCCCATTTTTAACCCCG--ATTTCACC
* *
30911052 AAAAATTACCATTTTACCTCCGAATC-TTCCAAAATCCCATTTTTTACCC
1 AAAAATTACCATTTTACC-CCGAAACTTTCCAAAATCCCATTTTTAACCC
30911101 TCGAAAGTCA
Statistics
Matches: 182, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
58 8 0.04
59 165 0.91
60 6 0.03
61 2 0.01
62 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCGAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
Found at i:30911042 original size:29 final size:27
Alignment explanation
Indices: 30910994--30911094 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 27
30910984 AGTTTCACCA
* **
30910994 AAAATTACCATTTTTCCCTCGACCCTTCC
1 AAAATT-CCA-TTTTACCTCGAAACTTCC
*
30911023 AAAATTCCATTTTGAACCTCGAAACTTCTA
1 AAAATTCCATTTT--ACCTCGAAACTTC-C
*
30911053 AAAATTACCATTTTACCTCCGAATCTTCC
1 AAAATT-CCATTTTACCT-CGAAACTTCC
*
30911082 AAAATCCCATTTT
1 AAAATTCCATTTT
30911095 TTACCCTCGA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.07
28 10 0.17
29 25 0.42
30 14 0.23
31 7 0.12
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAATTCCATTTTACCTCGAAACTTCC
Found at i:30911094 original size:118 final size:119
Alignment explanation
Indices: 30910780--30911101 Score: 325
Period size: 118 Copynumber: 2.7 Consensus size: 119
30910770 TAGTCCCCAG
* *
30910780 CCTTTCAAAATTCCATTTTTTGACCCT-GAAACTTCAAAAAATTACCATTTTACCTCCGAAAT-T
1 CCTTCCAAAATTCCA--TTTTGAACCTCGAAACTTCAAAAAATTACCATTTTACCTCCG-AATCT
* * *
30910843 TTCAAAATCCCATTATTAACCC-CGATTTCACCAAAAATTACCATTTTACCCCTAAA
63 TCCAAAATCCCATTTTTAACCCTAGATTTCACCAAAAATTACCATTTTACCCCTAAA
* * * * * ** * * * *
30910899 CTTTCCAAAATCCCTTTTTTAACC-CTAATTTTACCAAAAATTGCCATTTTACC-CCCAAACTTT
1 CCTTCCAAAATTCCATTTTGAACCTCGAAACTT-CAAAAAATTACCATTTTACCTCCGAATC-TT
* ** * * *
30910962 CTAAAATCTTATTTTTAACCCTAG-TTTCACCAAAAATTACCATTTT-TCCCTCGAC
64 CCAAAATCCCATTTTTAACCCTAGATTTCACCAAAAATTACCATTTTACCCCT-AAA
*
30911017 CCTTCCAAAATTCCATTTTGAACCTCGAAACTTCTAAAAATTACCATTTTACCTCCGAATCTTCC
1 CCTTCCAAAATTCCATTTTGAACCTCGAAACTTCAAAAAATTACCATTTTACCTCCGAATCTTCC
*
30911082 AAAATCCCATTTTTTACCCT
66 AAAATCCCATTTTTAACCCT
30911102 CGAAAGTCAA
Statistics
Matches: 158, Mismatches: 37, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
116 2 0.01
117 17 0.11
118 117 0.74
119 22 0.14
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (119 bp):
CCTTCCAAAATTCCATTTTGAACCTCGAAACTTCAAAAAATTACCATTTTACCTCCGAATCTTCC
AAAATCCCATTTTTAACCCTAGATTTCACCAAAAATTACCATTTTACCCCTAAA
Found at i:30911095 original size:29 final size:28
Alignment explanation
Indices: 30910994--30911123 Score: 84
Period size: 29 Copynumber: 4.4 Consensus size: 28
30910984 AGTTTCACCA
* **
30910994 AAAATTACCATTTTTCCCTCGACCCTTCC
1 AAAA-TACCATTTTTACCTCGAAACTTCC
* * *
30911023 AAAATTCCATTTTGAACCTCGAAACTTCTA
1 AAAATACCATTTT-TACCTCGAAACTTC-C
*
30911053 AAAATTACCA-TTTTACCTCCGAATCTTCC
1 AAAA-TACCATTTTTACCT-CGAAACTTCC
* * *
30911082 AAAATCCCATTTTTTACCCTCGAAA-GTCA
1 AAAATACCA-TTTTTA-CCTCGAAACTTCC
30911111 AAAATTACCATTT
1 AAAA-TACCATTT
30911124 CGCCCCCAGG
Statistics
Matches: 78, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
28 12 0.15
29 31 0.40
30 28 0.36
31 7 0.09
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (28 bp):
AAAATACCATTTTTACCTCGAAACTTCC
Found at i:30923956 original size:199 final size:200
Alignment explanation
Indices: 30923311--30924154 Score: 1325
Period size: 200 Copynumber: 4.2 Consensus size: 200
30923301 CAAAATGGTA
* *
30923311 AGGCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAAACACGAGCAAAT
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTC-AACACGAGCAAAT
* * *
30923376 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCATCT
65 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTCC
* *
30923441 TGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGATAAGAGAATCAAAA
130 TGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAA
*
30923506 CAAGTG
195 CAAGCG
* * *
30923512 AGGCGGTCATCTTCCTGATGAGATACAGGGAAGAACACCAACTCAGTGCTCAACATGAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACGAGCAAATC
*
30923577 TTTGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTCCT
66 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTCCT
* *
30923642 GATGAGACATAGAGAAGTGGACTAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
131 GATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
30923707 AAGCG
196 AAGCG
* *
30923712 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAACTCAGTGCTCAACACGAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACGAGCAAATC
* * *
30923777 TTCGAACTCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCTT
66 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTCCT
*
30923842 GATGAGACACAAAG-AGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
131 GATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
30923906 AAGCG
196 AAGCG
* *
30923911 AGGTGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACAAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACGAGCAAATC
*
30923976 TTCGAACGAACC-TCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTT
66 TTCGAAC---CCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTT
* *
30924040 CCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAATTAA
128 CCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAA
*
30924105 AAC-AGATG
193 AACAAG-CG
* * * * * *
30924113 ATTGCAGTCATTTTCCTGATGAGACACAGGGAAGAAGACCAA
1 A-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAA
30924155 GTCAAGGAAA
Statistics
Matches: 594, Mismatches: 43, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
199 122 0.21
200 274 0.46
201 114 0.19
202 51 0.09
203 33 0.06
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (200 bp):
AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACGAGCAAATC
TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTCCT
GATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
AAGCG
Found at i:30924059 original size:401 final size:401
Alignment explanation
Indices: 30923311--30924159 Score: 1364
Period size: 401 Copynumber: 2.1 Consensus size: 401
30923301 CAAAATGGTA
*
30923311 AGGCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAAACACGAGCAAAT
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAAACACGAGCAAAT
30923376 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCATCT
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCATCT
* *
30923441 TGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGATAAGAGAATCAAAA
131 TGATGAGACACAAAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGAGAATCAAAA
* * * **
30923506 CAAGTGAGGCGGTCATCTTCCTGATGAGATACAGGGAAGAACACCAACTCAGTGCTCAACATGAG
196 CAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACAAG
*
30923571 CAAATCTTTGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAG
261 CAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAG
* *
30923636 CTTCCTGATGAGACATAGAGAAGTGGACTAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
326 CTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
30923701 CAAAACA-AGCG
391 CAAAACAGA-CG
* **
30923712 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAACTCAGTGCTC-AACACGAGCAAAT
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAAACACGAGCAAAT
* *
30923776 CTTCGAACTCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCT
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCATCT
*
30923841 TGATGAGACACAAAG-AGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAA
131 TGATGAGACACAAAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGAGAATCAAAA
*
30923905 CAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACAAG
196 CAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACAAG
*
30923970 CAAATCTTCGAACGAACC-TCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
261 CAAATCTTCGAAC---CCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
*
30924034 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCTAGAGAAGCG
323 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
* *
30924099 AATTAAAACAGATG
388 AATCAAAACAGACG
* * * * * * *
30924113 ATTGCAGTCATTTTCCTGATGAGACACAGGGAAGAAGACCAAGTCAA
1 A-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAA
30924160 GGAAATCAAA
Statistics
Matches: 412, Mismatches: 31, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
399 118 0.29
400 90 0.22
401 165 0.40
402 39 0.09
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (401 bp):
AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAAACACGAGCAAAT
CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCATCT
TGATGAGACACAAAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGAGAATCAAAA
CAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACAAG
CAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAG
CTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
CAAAACAGACG
Found at i:30924551 original size:11 final size:11
Alignment explanation
Indices: 30924537--30924583 Score: 58
Period size: 11 Copynumber: 4.0 Consensus size: 11
30924527 TATTTCTAAG
30924537 TTTAAATTTAA
1 TTTAAATTTAA
30924548 TTTAAATTTAAA
1 TTTAAATTT-AA
*
30924560 TTTAAAATTAA
1 TTTAAATTTAA
30924571 TTTTTAAATTTAA
1 --TTTAAATTTAA
30924584 ATTTGTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 11 0.35
12 10 0.32
13 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:30924555 original size:6 final size:6
Alignment explanation
Indices: 30924537--30924605 Score: 72
Period size: 6 Copynumber: 11.7 Consensus size: 6
30924527 TATTTCTAAG
* *
30924537 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAA ATTAATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
*
30924585 TTT--G TTCTAAA TTTAAA TTTA
1 TTTAAA TT-TAAA TTTAAA TTTA
30924606 GCTTAAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 38 0.73
7 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:30924559 original size:17 final size:17
Alignment explanation
Indices: 30924537--30924605 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 17
30924527 TATTTCTAAG
30924537 TTTAAATTT-AATTTAAA
1 TTTAAATTTAAATTT-AA
*
30924554 TTTAAATTTAAAATTAA
1 TTTAAATTTAAATTTAA
*
30924571 TTTTTAAATTTAAATTT-G
1 --TTTAAATTTAAATTTAA
30924589 TTCTAAATTTAAATTTA
1 TT-TAAATTTAAATTTA
30924606 GCTTAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
16 2 0.05
17 24 0.55
18 4 0.09
19 14 0.32
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:30924583 original size:42 final size:42
Alignment explanation
Indices: 30924522--30924605 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
30924512 ATTAGGTTTC
* *
30924522 AAATTTATTTCTAAGTTTAAATTTAATT-TAAATTTAAATTTA
1 AAATTAATTTCTAAATTTAAATTT-ATTCTAAATTTAAATTTA
* *
30924564 AAATTAATTTTTAAATTTAAATTTGTTCTAAATTTAAATTTA
1 AAATTAATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
30924606 GCTTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (42 bp):
AAATTAATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
Found at i:30924612 original size:17 final size:16
Alignment explanation
Indices: 30924574--30924613 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
30924564 AAATTAATTT
*
30924574 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGC
30924590 TCTAAATTTAAATTTAGC
1 T-TAAATTTAAATTT-GC
30924608 TTAAAT
1 TTAAAT
30924614 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTGC
Found at i:30926522 original size:29 final size:28
Alignment explanation
Indices: 30926490--30926794 Score: 132
Period size: 29 Copynumber: 10.5 Consensus size: 28
30926480 CAAGCCCTCC
30926490 AAAATTCCATTTTTGACCCCGAAACTTT-CA
1 AAAATTCCA-TTTT-ACCCCG-AACTTTCCA
*
30926520 AAAATTACCATTTTACCCCCGAA-TTTTCA
1 AAAATT-CCATTTTA-CCCCGAACTTTCCA
* *
30926549 AAAATCCCATTTTAACCCG-A-TTTCACCA
1 AAAATTCCATTTTACCCCGAACTTT--CCA
* **
30926577 AAAATTACCGTTTTACCCTTAAACTTTCC-
1 AAAATT-CCATTTTACCC-CGAACTTTCCA
*
30926606 AAAATTCCATTTTTGACCCCAAAAC-TTCCA
1 AAAATTCCA-TTTT-ACCCC-GAACTTTCCA
*
30926636 AAAATTACCAATTTACCCCTGAACTTTCC-
1 AAAATT-CCATTTTACCCC-GAACTTTCCA
* * *
30926665 AAAATCCCATTTTTAACCCTAA-TTTCACCA
1 AAAATTCCA-TTTTACCCCGAACTTT--CCA
* * *
30926695 AAAATTACTATTTTCCCCCGACCCTTT-C-
1 AAAATT-CCATTTTACCCCGA-ACTTTCCA
* *
30926723 AAAATTCCATTTTTAACCCCAAAAC-TTCTA
1 AAAATTCCA-TTTT-ACCCC-GAACTTTCCA
*
30926753 AAAATAACCATTTTACCCCCGAA-TCTTCC-
1 AAAAT-TCCATTTTA-CCCCGAACT-TTCCA
*
30926782 AAAATCCCATTTT
1 AAAATTCCATTTT
30926795 TTACCCTCGA
Statistics
Matches: 212, Mismatches: 32, Indels: 64
0.69 0.10 0.21
Matches are distributed among these distances:
26 4 0.02
27 9 0.04
28 44 0.21
29 69 0.33
30 68 0.32
31 12 0.06
32 6 0.03
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCGAACTTTCCA
Found at i:30926560 original size:28 final size:30
Alignment explanation
Indices: 30926490--30926829 Score: 134
Period size: 30 Copynumber: 11.6 Consensus size: 30
30926480 CAAGCCCTCC
30926490 AAAATT-CCATTTTTGA-CCCCGAAACTTTCA
1 AAAATTACCA-TTTT-ACCCCCGAAACTTTCA
*
30926520 AAAATTACCATTTTACCCCCG-AATTTTCA
1 AAAATTACCATTTTACCCCCGAAACTTTCA
* *
30926549 AAAA-TCCCATTTTA-ACCCG--A-TTTCACCA
1 AAAATTACCATTTTACCCCCGAAACTTT---CA
* ** *
30926577 AAAATTACCGTTTTA-CCCTTAAACTTTCC
1 AAAATTACCATTTTACCCCCGAAACTTTCA
* *
30926606 AAAATT-CCATTTTTGA-CCCCAAAACTTCCA
1 AAAATTACCA-TTTT-ACCCCCGAAACTTTCA
* * *
30926636 AAAATTACCAATTTACCCCTG-AACTTTCC
1 AAAATTACCATTTTACCCCCGAAACTTTCA
* * *
30926665 AAAA-TCCCATTTTTA-ACCC-TAA-TTTCACCA
1 AAAATTACCA-TTTTACCCCCGAAACTTT---CA
* **
30926695 AAAATTACTATTTT-CCCCCGACCCTTTC-
1 AAAATTACCATTTTACCCCCGAAACTTTCA
* *
30926723 AAAATT-CCATTTTTAACCCCAAAAC-TTCTA
1 AAAATTACCA-TTTTACCCCCGAAACTTTC-A
* * *
30926753 AAAATAACCATTTTACCCCCGAATC-TTCC
1 AAAATTACCATTTTACCCCCGAAACTTTCA
* * *
30926782 AAAA-TCCCATTTTTTACCCTCGAAA--GTCA
1 AAAATTACCA--TTTTACCCCCGAAACTTTCA
*
30926811 AAAATTACCATTTCACCCC
1 AAAATTACCATTTTACCCC
30926830 GAGCATCCAA
Statistics
Matches: 231, Mismatches: 49, Indels: 62
0.68 0.14 0.18
Matches are distributed among these distances:
25 3 0.01
26 1 0.00
27 9 0.04
28 48 0.21
29 65 0.28
30 86 0.37
31 13 0.06
32 6 0.03
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAATTACCATTTTACCCCCGAAACTTTCA
Found at i:30926747 original size:117 final size:117
Alignment explanation
Indices: 30926487--30926801 Score: 429
Period size: 117 Copynumber: 2.7 Consensus size: 117
30926477 CCCCAAGCCC
* * *
30926487 TCCAAAATTCCATTTTTGACCCCGAAACTTTCAAAAATTACCATTTTACCCCCGAATTTTCAAAA
1 TCCAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCCCGAA-TTTCCAAA
* * **
30926552 ATCCCA-TTTTAACCC-GATTTCACCAAAAATTACCGTTTTACCCTTAAACTT
65 ATCCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCCGAAACTT
* *
30926603 TCCAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACCAATTTACCCCTGAACTTTCCAAA
1 TCCAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCCCGAA-TTTCCAAA
* * **
30926668 ATCCCATTTTTAACCCTAATTTCACCAAAAATTACTATTTTCCCCCGACCCTT
65 ATCCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCCGAAACTT
* * *
30926721 T-CAAAATTCCATTTTTAACCCCAAAACTTCTAAAAATAACCATTTTACCCCCGAATCTTCCAAA
1 TCCAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCCCGAAT-TTCCAAA
*
30926785 ATCCCATTTTTTACCCT
65 ATCCCATTTTTAACCCT
30926802 CGAAAGTCAA
Statistics
Matches: 176, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
116 66 0.38
117 81 0.46
118 29 0.16
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (117 bp):
TCCAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCCCGAATTTCCAAAA
TCCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCCGAAACTT
Found at i:30926823 original size:58 final size:58
Alignment explanation
Indices: 30926487--30926829 Score: 279
Period size: 59 Copynumber: 5.9 Consensus size: 58
30926477 CCCCAAGCCC
* * *
30926487 TCCAAAATTCCATTTTTGACCCCGAAACTTTCAAAAATTACCATTTTACCCCCGAATTT
1 TCCAAAATCCCATTTTTAACCCCGAAAC-TTCAAAAATTACCATTTTACCCCCGAATCT
* ** ** * ** *
30926546 TCAAAAATCCCA-TTTTAA-CCCGATTTCACCAAAAATTACCGTTTTA-CCCTTAAACTT
1 TCCAAAATCCCATTTTTAACCCCGA-AACTTCAAAAATTACCATTTTACCCCCGAATC-T
* * * * *
30926603 TCCAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACCAATTTACCCCTGAA-CTT
1 TCCAAAATCCCATTTTTAACCCCGAAACTT-CAAAAATTACCATTTTACCCCCGAATC-T
* * * **
30926662 TCCAAAATCCCATTTTTAA-CCC-TAATTTCACCAAAAATTACTATTTT-CCCCCGACCCT
1 TCCAAAATCCCATTTTTAACCCCGAAACTT---CAAAAATTACCATTTTACCCCCGAATCT
* * * *
30926720 TTCAAAATTCCATTTTTAACCCCAAAACTTCTAAAAATAACCATTTTACCCCCGAATCT
1 TCCAAAATCCCATTTTTAACCCCGAAACTTC-AAAAATTACCATTTTACCCCCGAATCT
* * *
30926779 TCCAAAATCCCATTTTTTACCCTCGAAA-GTCAAAAATTACCATTTCACCCC
1 TCCAAAATCCCATTTTTAACCC-CGAAACTTCAAAAATTACCATTTTACCCC
30926830 GAGCATCCAA
Statistics
Matches: 224, Mismatches: 46, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
56 5 0.02
57 37 0.17
58 70 0.31
59 98 0.44
60 14 0.06
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (58 bp):
TCCAAAATCCCATTTTTAACCCCGAAACTTCAAAAATTACCATTTTACCCCCGAATCT
Found at i:30931191 original size:11 final size:11
Alignment explanation
Indices: 30931167--30931207 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
30931157 TTTTAAAAAA
30931167 TAAAATTA--T
1 TAAAATTATTT
30931176 TAAAATTATTT
1 TAAAATTATTT
*
30931187 TAAAATTAATT
1 TAAAATTATTT
30931198 TAAAATTATT
1 TAAAATTATT
30931208 AGATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 8 0.29
11 20 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:30931244 original size:26 final size:26
Alignment explanation
Indices: 30931151--30931245 Score: 100
Period size: 26 Copynumber: 3.5 Consensus size: 26
30931141 CCACGTCAAC
* *
30931151 AAATGATTTTAAAAAATAAAATTATT
1 AAATTATTTTAAATAATAAAATTATT
30931177 AAAATTATTTTAAAATTAATTTAAAATTATT
1 -AAATTATTTT-AAA-TAA--TAAAATTATT
* *
30931208 AGATTTTTTTAAATAATAAAATTATT
1 AAATTATTTTAAATAATAAAATTATT
*
30931234 AAATAATTTTAA
1 AAATTATTTTAA
30931246 TTTCCAATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
26 19 0.33
27 9 0.16
28 6 0.11
29 5 0.09
30 8 0.14
31 10 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AAATTATTTTAAATAATAAAATTATT
Found at i:30932206 original size:9 final size:9
Alignment explanation
Indices: 30932192--30932287 Score: 82
Period size: 9 Copynumber: 11.2 Consensus size: 9
30932182 ATTTTAAAAA
30932192 AATAATTTT
1 AATAATTTT
30932201 AATAATTTT
1 AATAATTTT
*
30932210 -ATTATTTT
1 AATAATTTT
* *
30932218 AAAAAAATTT
1 -AATAATTTT
30932228 AATAATTTT
1 AATAATTTT
30932237 AAAATAATTTT
1 --AATAATTTT
30932248 AATAATTTT
1 AATAATTTT
30932257 -AT-ATTTT
1 AATAATTTT
30932264 AA-AA----
1 AATAATTTT
30932268 AATAATTTT
1 AATAATTTT
30932277 AATAATTTT
1 AATAATTTT
30932286 AA
1 AA
30932288 AATCATTTGC
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
7 5 0.07
8 11 0.16
9 36 0.51
10 5 0.07
11 9 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
AATAATTTT
Found at i:30932218 original size:31 final size:29
Alignment explanation
Indices: 30932169--30932285 Score: 109
Period size: 29 Copynumber: 4.4 Consensus size: 29
30932159 ATTAAAATTA
30932169 TTTAATAATTTTTATTTTAAAAAAATAAT
1 TTTAATAATTTTTATTTTAAAAAAATAAT
30932198 TTTAATAATTTTATTATTTT--AAAAA-AA-
1 TTTAATAA-TTT-TTATTTTAAAAAAATAAT
30932225 TTTAATAA----T-TTT----AAAATAAT
1 TTTAATAATTTTTATTTTAAAAAAATAAT
30932245 TTTAATAATTTTATATTTT-AAAAAATAAT
1 TTTAATAATTTT-TATTTTAAAAAAATAAT
30932274 TTTAATAATTTT
1 TTTAATAATTTT
30932286 AAAATCATTT
Statistics
Matches: 75, Mismatches: 0, Indels: 26
0.74 0.00 0.26
Matches are distributed among these distances:
18 4 0.05
19 2 0.03
20 11 0.15
21 1 0.01
25 1 0.01
26 3 0.04
27 8 0.11
28 2 0.03
29 33 0.44
30 3 0.04
31 7 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTAATAATTTTTATTTTAAAAAAATAAT
Found at i:30932235 original size:19 final size:19
Alignment explanation
Indices: 30932192--30932257 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
30932182 ATTTTAAAAA
*
30932192 AATAATTTT--AATAATTT
1 AATAATTTTAAAAAAATTT
* *
30932209 TATTATTTTAAAAAAATTT
1 AATAATTTTAAAAAAATTT
*
30932228 AATAATTTTAAAATAATTTT
1 AATAATTTTAAAA-AAATTT
30932248 AATAATTTTA
1 AATAATTTTA
30932258 TATTTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
17 7 0.17
19 18 0.45
20 15 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATAATTTTAAAAAAATTT
Found at i:30932236 original size:27 final size:29
Alignment explanation
Indices: 30932162--30932237 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 29
30932152 ATTGGAAATT
*
30932162 AAAATTATTTAATAA-TTT-TTATTTTAAA
1 AAAATAATTTAATAATTTTATTATTTT-AA
30932190 AAAATAATTTTAATAATTTTATTATTTT-A
1 AAAATAA-TTTAATAATTTTATTATTTTAA
30932219 AAAA-AATTTAATAATTTTA
1 AAAATAATTTAATAATTTTA
30932238 AAATAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
27 13 0.30
28 8 0.18
29 13 0.30
30 3 0.07
31 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
AAAATAATTTAATAATTTTATTATTTTAA
Found at i:30932245 original size:47 final size:49
Alignment explanation
Indices: 30932190--30932295 Score: 173
Period size: 47 Copynumber: 2.2 Consensus size: 49
30932180 TTATTTTAAA
30932190 AAAATAATTTTAATAATTTTATTATTTT-AAAAA-AA-TTTAATAATTTT
1 AAAATAATTTTAATAATTTTA-TATTTTAAAAAATAATTTTAATAATTTT
30932237 AAAATAATTTTAATAATTTTATATTTTAAAAAATAATTTTAATAATTTT
1 AAAATAATTTTAATAATTTTATATTTTAAAAAATAATTTTAATAATTTT
*
30932286 AAAATCATTT
1 AAAATAATTT
30932296 GCTGACGTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
46 6 0.11
47 26 0.47
48 2 0.04
49 21 0.38
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (49 bp):
AAAATAATTTTAATAATTTTATATTTTAAAAAATAATTTTAATAATTTT
Found at i:30932271 original size:20 final size:22
Alignment explanation
Indices: 30932248--30932289 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
30932238 AAATAATTTT
30932248 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
30932268 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
30932290 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:30932934 original size:29 final size:28
Alignment explanation
Indices: 30932856--30932961 Score: 126
Period size: 29 Copynumber: 3.7 Consensus size: 28
30932846 CAAATATTTT
30932856 AAAATTATTAAAATTATTTTTTAAAATATA
1 AAAATTATT-AAATTATTTTTTAAAA-ATA
*
30932886 AAAATTTTCTAAATTA-TTTTTAAAAATA
1 AAAATTAT-TAAATTATTTTTTAAAAATA
*
30932914 AAAATTATTAAATTATTTTTTTGAATAAT-
1 AAAATTATTAAATTA-TTTTTT-AAAAATA
*
30932943 AAAATTATTAAATAATTTT
1 AAAATTATTAAATTATTTT
30932962 AATTTCTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
27 7 0.10
28 14 0.21
29 28 0.41
30 18 0.26
31 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AAAATTATTAAATTATTTTTTAAAAATA
Found at i:30933735 original size:17 final size:18
Alignment explanation
Indices: 30933699--30933733 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30933689 AATTTTATAT
*
30933699 TTTTATCTTTTAAAAAAA
1 TTTTATATTTTAAAAAAA
30933717 TTTTATATTTTAAAAAA
1 TTTTATATTTTAAAAAA
30933734 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTATATTTTAAAAAAA
Found at i:30938768 original size:16 final size:16
Alignment explanation
Indices: 30938749--30938795 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
30938739 AATTTTTAAT
30938749 AAATAAAAAATATATA
1 AAATAAAAAATATATA
**
30938765 AAATTATTAAATAT-TA
1 AAA-TAAAAAATATATA
30938781 AAATAAAACAATATA
1 AAATAAAA-AATATA
30938796 AATGTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.12
16 13 0.54
17 8 0.33
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAAAAAATATATA
Found at i:30940847 original size:21 final size:21
Alignment explanation
Indices: 30940783--30940847 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
30940773 CAAACAAGAT
*
30940783 AATAACAAT-AAATGCAAATTA
1 AATAACAATAAAATG-AAATGA
* *
30940804 AATAATAATAATAAT-AAAAGA
1 AATAACAATAA-AATGAAATGA
*
30940825 AATAACAATAAAATGATATGA
1 AATAACAATAAAATGAAATGA
30940846 AA
1 AA
30940848 ATAAATAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 3 0.09
21 28 0.80
22 1 0.03
23 3 0.09
ACGTcount: A:0.66, C:0.05, G:0.06, T:0.23
Consensus pattern (21 bp):
AATAACAATAAAATGAAATGA
Found at i:30940902 original size:17 final size:17
Alignment explanation
Indices: 30940846--30940888 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
30940836 AATGATATGA
*
30940846 AAATAAATAACAACAAGAT
1 AAATAAATAA-AATAA-AT
30940865 AAATAAATAAAATAAAT
1 AAATAAATAAAATAAAT
30940882 AAATAAA
1 AAATAAA
30940889 AATAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 4 0.17
19 10 0.43
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAATAAAATAAAT
Found at i:30941489 original size:19 final size:20
Alignment explanation
Indices: 30941453--30941493 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
30941443 AGGTAGTTTG
*
30941453 TTAGGTTTTTCATCTTTATT
1 TTAGATTTTTCATCTTTATT
*
30941473 TTAGATTTTT-ATTTTTATT
1 TTAGATTTTTCATCTTTATT
30941492 TT
1 TT
30941494 TGGGCTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (20 bp):
TTAGATTTTTCATCTTTATT
Found at i:30946766 original size:53 final size:53
Alignment explanation
Indices: 30946650--30946766 Score: 130
Period size: 53 Copynumber: 2.2 Consensus size: 53
30946640 TGATCGTCGG
* * *
30946650 CAACTTTTTAAATAAAAAATTAATTTAGGTGCTGACCATTTAATGGTCGACAC
1 CAACTATTTAAATAAAAAATTAATTTAGGTGCTGACCATTAAATAGTCGACAC
* * * * *
30946703 TAACTTTTTAAATAAAAAATTATTTTTTA-GTGCTGACCATTAAATAGTTGTCAC
1 CAACTATTTAAATAAAAAATTA--ATTTAGGTGCTGACCATTAAATAGTCGACAC
30946757 CAA-TATTTAA
1 CAACTATTTAA
30946767 TGGTCTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 27 0.50
54 23 0.43
55 4 0.07
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (53 bp):
CAACTATTTAAATAAAAAATTAATTTAGGTGCTGACCATTAAATAGTCGACAC
Done.