Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 72 of 250
Found at i:22621094 original size:19 final size:19
Alignment explanation
Indices: 22621047--22621104 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
22621037 AAAAGTATAA
22621047 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
**
22621067 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
22621086 AATCAAGTTAAAACTGTTT
1 AATCAAGTTAAAA-TGTTT
22621105 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:22621188 original size:19 final size:19
Alignment explanation
Indices: 22621157--22621214 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
22621147 ACTTGTTTTA
22621157 AAACAATTTTAACTTGATTG
1 AAAC-ATTTTAACTTGATTG
**
22621177 AAA-ATGTTTAACTCAATTG
1 AAACAT-TTTAACTTGATTG
22621196 AAATCATTTTAACTTGATT
1 AAA-CATTTTAACTTGATT
22621215 TTATCGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 2 0.06
19 14 0.45
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (19 bp):
AAACATTTTAACTTGATTG
Found at i:22621605 original size:26 final size:26
Alignment explanation
Indices: 22621555--22621605 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
22621545 GGTATAAGTA
* *
22621555 AAATTAATTATTTATTGTTTTTAATC
1 AAATTAATTATCTATTGTTTATAATC
22621581 AAATTAATTATCTATT-TTTAATAAT
1 AAATTAATTATCTATTGTTT-ATAAT
22621606 TTATTCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (26 bp):
AAATTAATTATCTATTGTTTATAATC
Found at i:22621725 original size:172 final size:171
Alignment explanation
Indices: 22621417--22621742 Score: 458
Period size: 171 Copynumber: 1.9 Consensus size: 171
22621407 GAACTGATTT
* * *
22621417 TTATCTATTTTTAATAATTTATTCAATTGAACCTATTGTACTGATCAAACCTGTTGAACTAGGAA
1 TTATCTATTTTTAATAATTTATTCAATTGAACCGATTGTACTAATCAAACCGGTTGAACTAGGAA
* * * * * * * **
22621482 CTAGTGGTTTGACCAATTGCCTACCAATCAAATTCTGAAAACCTAGAGCTTTGTTGATGATATGG
66 CCAGTAGTCTAAACAATTACCAACCAATCAAATTCTGAAAACCTAGAGCTTTGTTGATGATATAC
22621547 TATAAGTAAAATTAATTATTTATTGTTTTTAATCAAATTAA
131 TATAAGTAAAATTAATTATTTATTGTTTTTAATCAAATTAA
*
22621588 TTATCTATTTTTAATAATTTATTCAATTGAACCGATTGTA-TCAATCAAACCGGTTGAA-TTGTG
1 TTATCTATTTTTAATAATTTATTCAATTGAACCGATTGTACT-AATCAAACCGGTTGAACTAG-G
* * *
22621651 AACCAGTAGTCTAAACAATTTACCAACCAATCAAATTTTGAAAACTTTGAGCTTTGTTGATGATA
64 AACCAGTAGTCTAAACAA-TTACCAACCAATCAAATTCTGAAAACCTAGAGCTTTGTTGATGATA
*
22621716 TACTATAAGTAAAATTATTTATTTATT
128 TACTATAAGTAAAATTAATTATTTATT
22621743 ATTTGAGTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
170 3 0.02
171 67 0.50
172 65 0.48
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (171 bp):
TTATCTATTTTTAATAATTTATTCAATTGAACCGATTGTACTAATCAAACCGGTTGAACTAGGAA
CCAGTAGTCTAAACAATTACCAACCAATCAAATTCTGAAAACCTAGAGCTTTGTTGATGATATAC
TATAAGTAAAATTAATTATTTATTGTTTTTAATCAAATTAA
Found at i:22622213 original size:29 final size:31
Alignment explanation
Indices: 22622165--22622229 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 31
22622155 TACAACACAT
*
22622165 TAATTTAAATAAAAATTTTTAAATAATTTAA
1 TAATTTAAATAAAAATTTTTAAATAATTCAA
22622196 TAATTTAAAT-AAAATTTTT-AATAATTCAA
1 TAATTTAAATAAAAATTTTTAAATAATTCAA
22622225 TAATT
1 TAATT
22622230 ATTTTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 14 0.42
30 9 0.27
31 10 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATTTAAATAAAAATTTTTAAATAATTCAA
Found at i:22627463 original size:20 final size:20
Alignment explanation
Indices: 22627421--22627463 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22627411 AATATAAATA
*
22627421 AAAATTTATAATATTTTTGT
1 AAAATTTATAATAATTTTGT
*
22627441 AAAATTTATTATAAATTTT-T
1 AAAATTTATAAT-AATTTTGT
22627461 AAA
1 AAA
22627464 GTCATAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAATTTATAATAATTTTGT
Found at i:22628399 original size:46 final size:46
Alignment explanation
Indices: 22628332--22628500 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 46
22628322 AACCCGCCCC
*
22628332 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
22628378 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
22628426 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
22628471 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
22628501 TGGATGCTCA
Statistics
Matches: 105, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.54
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:22628444 original size:93 final size:93
Alignment explanation
Indices: 22628337--22628507 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
22628327 GCCCCTAAGT
* *
22628337 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22628402 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
22628430 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
22628495 CGAGTTTGGATGC
66 CGAGTTCGGATGC
22628508 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22634944 original size:19 final size:19
Alignment explanation
Indices: 22634920--22634959 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22634910 AATATAAATA
* *
22634920 AAAATTTCTAATTATTTTT
1 AAAATTTATAATAATTTTT
*
22634939 AAAATTTATTATAATTTTT
1 AAAATTTATAATAATTTTT
22634958 AA
1 AA
22634960 GTCATAACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
AAAATTTATAATAATTTTT
Found at i:22637279 original size:79 final size:79
Alignment explanation
Indices: 22637155--22637364 Score: 271
Period size: 79 Copynumber: 2.6 Consensus size: 79
22637145 TCCTCGCTCA
* * ** * *
22637155 AATGCCTTCGGGACATAGCCCGTTTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCG-GATTTAATAACTCGCACAATGCCTTCGGGACATAACCCGGAT
22637220 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* *
22637235 ACTGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACATAACCCGGAT
*
22637299 TTAATAACTCGCACG
65 TTAACAACTCGCACG
* *
22637314 AATGCCTTCGGGACTTAACCCGGATTTAAGT-TCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAA-TAACTCGCAC-AATGCCTTCGG
22637365 ATCTTAATCC
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
78 13 0.11
79 56 0.49
80 44 0.39
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACG
Found at i:22637333 original size:119 final size:120
Alignment explanation
Indices: 22637155--22637417 Score: 309
Period size: 119 Copynumber: 2.2 Consensus size: 120
22637145 TCCTCGCTCA
* ** *
22637155 AATGCCTTCGGGACATAGCCCGTTTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCG-GATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
* ** * *
22637220 TTAACAACTCGCACGACTGCCTTCGGA-CTTAACCCGGATTTAAT-AAC-TCGCAC
65 TTAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATCAACTTAGCAC
* * *
22637273 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGGA
*** * *
22637338 TTTAAGTTCTCGCACAAAGGCCTTCGGATCTTAATCCGGATATATTCAACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATCAACTTAGCAC
*
22637395 AAAGCCTTC-GGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22637418 CGCATTCATT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
118 13 0.11
119 65 0.54
120 27 0.22
121 11 0.09
122 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATCAACTTAGCAC
Found at i:22637371 original size:40 final size:40
Alignment explanation
Indices: 22637155--22637417 Score: 277
Period size: 40 Copynumber: 6.6 Consensus size: 40
22637145 TCCTCGCTCA
* * ** * *
22637155 AATGCCTTCGGGACATAGCCCGTTTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCG-GATTTAATAACTCGCACG
* *
22637195 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
22637235 ACTGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22637274 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
22637314 AATGCCTTCGGGACTTAACCCGGATTTAAGT-TCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-TAACTCGCACG
* * * * *
22637354 AAGGCCTTC-GGATCTTAATCCGGATATATTCAACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAAT-AAC-TCGCACG
* *
22637395 AAAGCCTTC-GGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22637418 CGCATTCATT
Statistics
Matches: 195, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
39 52 0.27
40 125 0.64
41 13 0.07
42 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:22642069 original size:46 final size:45
Alignment explanation
Indices: 22641910--22642075 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
22641900 GGTTGAGCAT
*
22641910 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GAA--T
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGG
* * * *
22641952 TCGAACTCGTTGAG-TGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC--GG
22641995 CATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGG
*
22642043 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22642076 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
38 3 0.03
39 2 0.02
40 2 0.02
41 13 0.13
42 13 0.13
45 19 0.19
46 32 0.32
47 7 0.07
48 2 0.02
49 4 0.04
50 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGG
Found at i:22647216 original size:21 final size:21
Alignment explanation
Indices: 22647149--22647217 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
22647139 GCACATGGCT
*
22647149 GTGTGGCTGAGGCACACGCCC
1 GTGTGACTGAGGCACACGCCC
* * * * *
22647170 GCGTGA-AGAGGGATACACGGCT
1 GTGTGACTGA-GG-CACACGCCC
22647192 GTGTGACTGAGGCACACGCCC
1 GTGTGACTGAGGCACACGCCC
22647213 GTGTG
1 GTGTG
22647218 GACCCGGAAC
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 13 0.38
23 2 0.06
ACGTcount: A:0.19, C:0.26, G:0.39, T:0.16
Consensus pattern (21 bp):
GTGTGACTGAGGCACACGCCC
Found at i:22648707 original size:46 final size:46
Alignment explanation
Indices: 22648640--22648805 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
22648630 ATGTAACCAC
*
22648640 CCATAAGAGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCAT
* * *
22648686 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGG--G-C--GTTCGCAT
* * * *
22648736 -C-TCA-CGAACTCGGACTCAACTCAACGAG-TTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
22648779 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
22648806 TGAGTTCGGA
Statistics
Matches: 97, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 53 0.55
47 23 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCAT
Found at i:22648760 original size:93 final size:93
Alignment explanation
Indices: 22648648--22648819 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
22648638 ACCCATAAGA
* * *
22648648 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
22648712 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
22648741 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
22648806 TGAGTTCGGATGCC
66 CGAGCTCGGATGCC
22648820 CAAATATCCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:22657660 original size:50 final size:50
Alignment explanation
Indices: 22657564--22657661 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
22657554 ACCTTATTCT
* * * *
22657564 AATCAATGTCAAATAGAATAAGAAAAGTTCTATATGAACTCTACTTGTAC
1 AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGTAC
* ** * *
22657614 AATCAATATCAAATATAAGAAGAGTAGTTCTATACGGATTCCACTTGT
1 AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGT
22657662 GCAGCCTGGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (50 bp):
AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGTAC
Found at i:22659264 original size:26 final size:25
Alignment explanation
Indices: 22659216--22659265 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
22659206 TCAAATTAAA
22659216 TTTTACAAATAATTTATATTAATTT
1 TTTTACAAATAATTTATATTAATTT
22659241 TTTTA-AAATAATTTTTATATTAATT
1 TTTTACAAATAA--TTTATATTAATT
22659266 CTTAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
26 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTACAAATAATTTATATTAATTT
Found at i:22659991 original size:15 final size:15
Alignment explanation
Indices: 22659971--22660000 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22659961 GCCATTTTAC
*
22659971 AATAACCTTATTTGT
1 AATAACCTCATTTGT
22659986 AATAACCTCATTTGT
1 AATAACCTCATTTGT
22660001 CTGTCAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (15 bp):
AATAACCTCATTTGT
Found at i:22660332 original size:32 final size:32
Alignment explanation
Indices: 22660288--22660348 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
22660278 TAATCAATAC
* *
22660288 GAGTTATCAAATTAAATTAATTAATTTATCAT
1 GAGTTATCAAATTAAAGTAATCAATTTATCAT
*
22660320 GAGTTA-CTAAATTCAAGTAATCAATTTAT
1 GAGTTATC-AAATTAAAGTAATCAATTTAT
22660349 AAGTTTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (32 bp):
GAGTTATCAAATTAAAGTAATCAATTTATCAT
Found at i:22663746 original size:21 final size:22
Alignment explanation
Indices: 22663704--22663748 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
22663694 ACGAGCTAGA
*
22663704 TAGTGTTCTAACTTTTAATTTT
1 TAGTGTGCTAACTTTTAATTTT
*
22663726 TAGTGTGCTAA-TTTTATTTTT
1 TAGTGTGCTAACTTTTAATTTT
22663747 TA
1 TA
22663749 TTATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.60
Consensus pattern (22 bp):
TAGTGTGCTAACTTTTAATTTT
Found at i:22668093 original size:55 final size:56
Alignment explanation
Indices: 22668015--22668122 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 56
22668005 TTCATTTGGC
* *
22668015 CCCTTTAGGCCCAATCTCATTCATAGGGCCCATCATGCCCAA-CACATTCATATAG
1 CCCTTTAGGCCCAATCACATTCATAGGGCCCATCAGGCCCAATCACATTCATATAG
* * * *
22668070 CCCTTTAGGCCCAATCACTTTCATATGGCCCATTAGGCCCAATCACTTTCATA
1 CCCTTTAGGCCCAATCACATTCATAGGGCCCATCAGGCCCAATCACATTCATA
22668123 GTCATGCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 37 0.80
56 9 0.20
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (56 bp):
CCCTTTAGGCCCAATCACATTCATAGGGCCCATCAGGCCCAATCACATTCATATAG
Found at i:22668100 original size:28 final size:28
Alignment explanation
Indices: 22668004--22668122 Score: 132
Period size: 28 Copynumber: 4.2 Consensus size: 28
22667994 ATCCATACTT
* * *
22668004 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
* * *
22668033 ATTCATAGGGCCCATCATGCCCAA-CAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* *
22668060 ATTCATATAGCCCTTTAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
*
22668088 TTTCATATGGCCCATTAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
*
22668116 TTTCATA
1 ATTCATA
22668123 GTCATGCAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
27 21 0.28
28 46 0.61
29 8 0.11
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:22671977 original size:27 final size:27
Alignment explanation
Indices: 22671929--22672087 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
22671919 GCGAGGCTGC
* *
22671929 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
22671956 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
22671982 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
22672009 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
22672036 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
22672063 CAGATAATTGTGGCATAGTCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
22672088 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 9 0.08
27 100 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:22672088 original size:54 final size:54
Alignment explanation
Indices: 22671947--22672090 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
22671937 GTGACGAAGT
* *
22671947 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
*
22672001 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
*
22672055 CACCAGATCAGATAATTGTGGCATAGTCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
22672091 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
Found at i:22672222 original size:26 final size:27
Alignment explanation
Indices: 22672193--22672266 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
22672183 AAATTAACCC
* *
22672193 TAGGGGTATAACGGTAATTTTGC-ACA
1 TAGGGGTATAACAGTAATTTTCCAACA
*
22672219 TAGGGGTATAACATTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCA-ACA
* *
22672247 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
22672267 AGCTGCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 20 0.50
28 20 0.50
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (27 bp):
TAGGGGTATAACAGTAATTTTCCAACA
Found at i:22673739 original size:26 final size:26
Alignment explanation
Indices: 22673708--22673815 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22673698 TGAAATGCCC
*
22673708 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22673734 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22673760 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22673786 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22673812 ATCA
1 ATCA
22673816 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22679069 original size:27 final size:27
Alignment explanation
Indices: 22679021--22679125 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
22679011 GCGAGGCTGC
* *
22679021 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
22679048 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
22679074 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
22679101 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
22679126 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:22680755 original size:26 final size:26
Alignment explanation
Indices: 22680724--22680831 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22680714 TGAAATGCCC
*
22680724 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22680750 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22680776 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22680802 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22680828 ATCA
1 ATCA
22680832 ATTTGTACCT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22682906 original size:18 final size:18
Alignment explanation
Indices: 22682883--22682917 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22682873 AATAGATATC
22682883 GGTGGATCCACAGTTGTT
1 GGTGGATCCACAGTTGTT
22682901 GGTGGATCCACAGTTGT
1 GGTGGATCCACAGTTGT
22682918 CAAGCAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (18 bp):
GGTGGATCCACAGTTGTT
Found at i:22683506 original size:28 final size:28
Alignment explanation
Indices: 22683422--22683507 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
22683412 CCCAATTTCA
* *
22683422 TTCATATGGCCCATC-GACCCCAATCA-T
1 TTCATATAGCCCATCAG-GCCCAATCACT
*
22683449 ATTCATATGGCCCATCAGGCCCAATCACT
1 -TTCATATAGCCCATCAGGCCCAATCACT
*
22683478 TTCATATAGCCCGTCAGGCCCAATCACT
1 TTCATATAGCCCATCAGGCCCAATCACT
22683506 TT
1 TT
22683508 TATTGTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 51 0.96
29 2 0.04
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.27
Consensus pattern (28 bp):
TTCATATAGCCCATCAGGCCCAATCACT
Found at i:22683702 original size:16 final size:16
Alignment explanation
Indices: 22683681--22683713 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22683671 GCCAAACTTC
*
22683681 CGGCTTTTCGGCATTT
1 CGGCTTTTCAGCATTT
22683697 CGGCTTTTCAGCATTT
1 CGGCTTTTCAGCATTT
22683713 C
1 C
22683714 AGTATTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.27, G:0.21, T:0.42
Consensus pattern (16 bp):
CGGCTTTTCAGCATTT
Found at i:22698702 original size:40 final size:40
Alignment explanation
Indices: 22698619--22698804 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
22698609 TTGAATGATG
* * * * * *
22698619 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
22698659 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGACTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
22698699 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22698739 TCCGGGTTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
22698780 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
22698805 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.92
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22698822 original size:80 final size:79
Alignment explanation
Indices: 22698619--22698837 Score: 194
Period size: 80 Copynumber: 2.7 Consensus size: 79
22698609 TTGAATGATG
* ** * * * *
22698619 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCAT
*
22698682 TTGTGCGACTTACTAAA
63 TTCTGCGACTTACTAAA
* ** * *
22698699 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
*
22698764 CTGCGAGTTACTATAA
65 CTGCGACTTACTA-AA
* * * *
22698780 -CTGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
22698838 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
79 16 0.14
80 89 0.77
81 10 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTC
TGCGACTTACTAAA
Found at i:22706607 original size:40 final size:40
Alignment explanation
Indices: 22706524--22706669 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
22706514 TTGAATGATG
* * * *
22706524 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
22706564 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22706604 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22706645 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22706670 AACGAGGAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22706683 original size:40 final size:40
Alignment explanation
Indices: 22706525--22706688 Score: 129
Period size: 40 Copynumber: 4.1 Consensus size: 40
22706515 TGAATGATGT
** * * *
22706525 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTATAA
* ** *
22706565 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
22706604 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
22706645 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
22706685 CCGG
1 CCGG
22706689 TTAAATTCCG
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
39 3 0.03
40 92 0.88
41 10 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:22706687 original size:80 final size:80
Alignment explanation
Indices: 22706524--22706702 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
22706514 TTGAATGATG
* *
22706524 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
** *
22706589 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* * * * *
22706604 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
22706667 TTGAACGAG-GAGCTATA
64 TTGAACGAGTGA-CTAAA
* *
22706684 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22706703 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 16 0.19
80 60 0.72
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:22716394 original size:37 final size:37
Alignment explanation
Indices: 22716344--22716422 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22716334 TTATTACGAA
* * *
22716344 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
22716381 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
22716418 GTCTT
1 GTCTT
22716423 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:22716702 original size:94 final size:94
Alignment explanation
Indices: 22716541--22717051 Score: 835
Period size: 96 Copynumber: 5.4 Consensus size: 94
22716531 CCCTTCGGGA
* * * * * * * *
22716541 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
22716606 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
22716635 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
22716700 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
22716729 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
22716794 ACTTTCACATTCATCACATCGGCCATTGGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
22716825 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTGGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
22716890 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
22716923 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
22716988 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
22717017 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
22717052 AGAATCCTAA
Statistics
Matches: 396, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 164 0.41
96 185 0.47
98 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:22716762 original size:49 final size:47
Alignment explanation
Indices: 22716541--22717051 Score: 835
Period size: 47 Copynumber: 10.7 Consensus size: 47
22716531 CCCTTCGGGA
* * * * * *
22716541 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22716588 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22716635 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22716682 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22716729 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22716778 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22716825 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22716874 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22716923 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22716970 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22717017 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
22717052 AGAATCCTAA
Statistics
Matches: 443, Mismatches: 16, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 302 0.68
49 140 0.32
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22719729 original size:233 final size:233
Alignment explanation
Indices: 22719322--22719788 Score: 916
Period size: 233 Copynumber: 2.0 Consensus size: 233
22719312 GTCCCTCATG
*
22719322 CTTCAAACCATGCAATTTTTAGCCACTTCCAATTAACCTATGACATTTTTAAGATTTTTCACATA
1 CTTCAAACCATGCAATTTTTAGCCACTTCCAATTAACCTATGACATTTTCAAGATTTTTCACATA
22719387 AGCCCCTTTTTATTTATTTCACATCCAAATGACAAAATTTAAAGCATGAAATTTTCACACATACT
66 AGCCCCTTTTTATTTATTTCACATCCAAATGACAAAATTTAAAGCATGAAATTTTCACACATACT
22719452 TATTCATAAATAATAAGCATAAAATATAACAATTAATTATTTTTGTGACTCGGTTTTGTGGTCCC
131 TATTCATAAATAATAAGCATAAAATATAACAATTAATTATTTTTGTGACTCGGTTTTGTGGTCCC
*
22719517 GAAACCACTTTCCGACTAGGGTCAAATTAGGGGTGTCA
196 GAAACCACTTTCCGACTAAGGTCAAATTAGGGGTGTCA
22719555 CTTCAAACCATGCAATTTTTAGCCACTTCCAATTAACCTATGACATTTTCAAGATTTTTCACATA
1 CTTCAAACCATGCAATTTTTAGCCACTTCCAATTAACCTATGACATTTTCAAGATTTTTCACATA
22719620 AGCCCCTTTTTATTTATTTCACATCCAAATGACAAAATTTAAAGCATGAAATTTTCACACATACT
66 AGCCCCTTTTTATTTATTTCACATCCAAATGACAAAATTTAAAGCATGAAATTTTCACACATACT
22719685 TATTCATAAATAATAAGCATAAAATATAACAATTAATTATTTTTGTGACTCGGTTTTGTGGTCCC
131 TATTCATAAATAATAAGCATAAAATATAACAATTAATTATTTTTGTGACTCGGTTTTGTGGTCCC
22719750 GAAACCACTTTCCGACTAAGGTCAAATTAGGGGTGTCA
196 GAAACCACTTTCCGACTAAGGTCAAATTAGGGGTGTCA
22719788 C
1 C
22719789 ATAGACACAC
Statistics
Matches: 232, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
233 232 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (233 bp):
CTTCAAACCATGCAATTTTTAGCCACTTCCAATTAACCTATGACATTTTCAAGATTTTTCACATA
AGCCCCTTTTTATTTATTTCACATCCAAATGACAAAATTTAAAGCATGAAATTTTCACACATACT
TATTCATAAATAATAAGCATAAAATATAACAATTAATTATTTTTGTGACTCGGTTTTGTGGTCCC
GAAACCACTTTCCGACTAAGGTCAAATTAGGGGTGTCA
Found at i:22722547 original size:30 final size:30
Alignment explanation
Indices: 22722511--22722567 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
22722501 TATAATTGGG
*
22722511 CAAAATGACCATTTTTCCCCTAGGCTTTCA
1 CAAAATGACCATTTTACCCCTAGGCTTTCA
22722541 CAAAATGACCATTTTACCCCTAGGCTT
1 CAAAATGACCATTTTACCCCTAGGCTT
22722568 GAAATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (30 bp):
CAAAATGACCATTTTACCCCTAGGCTTTCA
Found at i:22744119 original size:40 final size:40
Alignment explanation
Indices: 22744075--22744257 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
22744065 GCTCCTCGTT
*
22744075 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
22744115 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
22744155 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
22744194 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
22744235 CAAA-GCCTTC-GGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
22744258 ACATCATTCA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 40 0.32
40 71 0.57
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:22744177 original size:79 final size:80
Alignment explanation
Indices: 22744075--22744258 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
22744065 GCTCCTCGTT
* *
22744075 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
22744138 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
22744155 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
22744220 TATGGTCACTTAGCA
66 TATAGTAACTTAGCA
*
22744235 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
22744259 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 3 0.03
79 65 0.71
80 23 0.25
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:22752019 original size:40 final size:40
Alignment explanation
Indices: 22751975--22752154 Score: 190
Period size: 40 Copynumber: 4.5 Consensus size: 40
22751965 CTCGTTCAAA
*
22751975 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAT
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAT
* *
22752015 TGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAT
* *
22752055 TGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCACAAT
1 TGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAT
* * * * *
22752094 TGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAA-
1 TGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAT
*
22752134 AGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
22752155 ACATCATTCA
Statistics
Matches: 117, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.26
40 72 0.62
41 13 0.11
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAT
Found at i:22752073 original size:79 final size:81
Alignment explanation
Indices: 22751971--22752155 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
22751961 GCTCCTCGTT
* *
22751971 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAATTGCCTTC-GGATCTTAACCC
* *
22752034 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
22752051 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAATTGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAATTGCCTTCGGATCTTAACCCGG
* *
22752115 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
22752131 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22752156 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAATTGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:22760826 original size:20 final size:20
Alignment explanation
Indices: 22760801--22760841 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
22760791 CAAAGTAAGC
22760801 TTCATAACTTAGTAAACTCG
1 TTCATAACTTAGTAAACTCG
*
22760821 TTCATAGCTTAGTAAACTCG
1 TTCATAACTTAGTAAACTCG
22760841 T
1 T
22760842 ATTATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TTCATAACTTAGTAAACTCG
Found at i:22761194 original size:40 final size:41
Alignment explanation
Indices: 22761118--22761204 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
22761108 AATAGTAGAT
* *
22761118 GCTATCTCAAATCGCACACTAAGTTCCATATATATAGCCGAA
1 GCTATCTCAAATCACACACTAAGTGCCA-ATATATAGCCGAA
* * *
22761160 GCTATGTCGAATCACACACTAAGTGCC-ATATATAGCTGAA
1 GCTATCTCAAATCACACACTAAGTGCCAATATATAGCCGAA
22761200 GCTAT
1 GCTAT
22761205 ATTATATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 17 0.43
42 23 0.57
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (41 bp):
GCTATCTCAAATCACACACTAAGTGCCAATATATAGCCGAA
Found at i:22761218 original size:40 final size:41
Alignment explanation
Indices: 22761118--22761224 Score: 110
Period size: 40 Copynumber: 2.6 Consensus size: 41
22761108 AATAGTAGAT
* * *
22761118 GCTATCTCAAATCGCACACTAAGTTCCATATATATAGCCGAA
1 GCTATATCGAATCGCACACTAAGTGCCA-ATATATAGCCGAA
* * *
22761160 GCTATGTCGAATCACACACTAAGTGCC-ATATATAGCTGAA
1 GCTATATCGAATCGCACACTAAGTGCCAATATATAGCCGAA
* *
22761200 GCTATAT-TATATCGCACACCAAGTG
1 GCTATATCGA-ATCGCACACTAAGTG
22761225 GCACAAATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 31 0.56
42 23 0.42
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (41 bp):
GCTATATCGAATCGCACACTAAGTGCCAATATATAGCCGAA
Found at i:22767693 original size:29 final size:28
Alignment explanation
Indices: 22767642--22767735 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 28
22767632 ATTGCATGAC
*
22767642 TATGAATGTGATTGGGCCTAATGCGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
22767670 TATGAATTTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* * *
22767699 TATGAAAGAGATTGGGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
22767727 TATGCATGT
1 TATGAATGT
22767736 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:22770057 original size:28 final size:28
Alignment explanation
Indices: 22770008--22770063 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
22769998 ATGCCGTTGA
*
22770008 ATACTCAATGTCTAGCACACTAAGTGCC
1 ATACTCAATGTCTAGCACACTAACTGCC
* *
22770036 ATACTCAATTTCTCA-CAGACTAACTGCC
1 ATACTCAATGTCT-AGCACACTAACTGCC
22770064 GTACATAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (28 bp):
ATACTCAATGTCTAGCACACTAACTGCC
Found at i:22770098 original size:40 final size:40
Alignment explanation
Indices: 22770049--22770161 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 40
22770039 CTCAATTTCT
* * * *
22770049 CACAGACTAACTGCCGTACATAGCTGAAGCTATCTCAAAC
1 CACACACTAAGTGCCATATATAGCTGAAGCTATCTCAAAC
* * * *
22770089 CACACACTAAGTGTCATATATATAGATGAAGCTATGTCAAAT
1 CACACACTAAGTG-C-CATATATAGCTGAAGCTATCTCAAAC
*
22770131 CGCACACTAAGTGCCATATATAGCTGAAGCT
1 CACACACTAAGTGCCATATATAGCTGAAGCT
22770162 GTATTATATT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
40 26 0.43
41 2 0.03
42 32 0.53
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (40 bp):
CACACACTAAGTGCCATATATAGCTGAAGCTATCTCAAAC
Found at i:22770176 original size:40 final size:40
Alignment explanation
Indices: 22770054--22770186 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 40
22770044 TTTCTCACAG
* * * * * * *
22770054 ACTAACTGCCGTACATAGCTGAAGCTATCTCAAACCACAC
1 ACTAAGTGCCATATATAGATGAAGCTATATCAAATCGCAC
* *
22770094 ACTAAGTGTCATATATATAGATGAAGCTATGTCAAATCGCAC
1 ACTAAGTG-C-CATATATAGATGAAGCTATATCAAATCGCAC
* * * * *
22770136 ACTAAGTGCCATATATAGCTGAAGCTGTATTATATTGCAC
1 ACTAAGTGCCATATATAGATGAAGCTATATCAAATCGCAC
22770176 ACTAAGTGCCA
1 ACTAAGTGCCA
22770187 CAAATAATCG
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 42 0.55
41 2 0.03
42 32 0.42
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (40 bp):
ACTAAGTGCCATATATAGATGAAGCTATATCAAATCGCAC
Found at i:22774239 original size:25 final size:25
Alignment explanation
Indices: 22774202--22774249 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22774192 TAAACTTGAG
*
22774202 AATTCTCTGAAAAGCCTTTGTGGAA
1 AATTCTCTAAAAAGCCTTTGTGGAA
* *
22774227 AATTCTTTAAAAAGCTTTTGTGG
1 AATTCTCTAAAAAGCCTTTGTGG
22774250 TGTACCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (25 bp):
AATTCTCTAAAAAGCCTTTGTGGAA
Found at i:22774310 original size:50 final size:50
Alignment explanation
Indices: 22774256--22774376 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 50
22774246 GTGGTGTACC
* *
22774256 ATTTGGAAAGCCTTTATAGTG-AA-TTCTCTAGAAAGT-CTTTATGGCATATT
1 ATTTGGAAAGCCTTTAT-G-GCAAGTTCTCTAGAAAATCCTTTATGGC-TAAT
* *
22774306 ATTTGGAAAGTCTTTGTGGCAAGTTCTCTAGAAAATCCTTTATGGCTAAT
1 ATTTGGAAAGCCTTTATGGCAAGTTCTCTAGAAAATCCTTTATGGCTAAT
* *
22774356 CTTGTGAAAAGCCTTTATGGC
1 ATT-TGGAAAGCCTTTATGGC
22774377 GTGTTATCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.02
49 3 0.05
50 32 0.54
51 23 0.39
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (50 bp):
ATTTGGAAAGCCTTTATGGCAAGTTCTCTAGAAAATCCTTTATGGCTAAT
Found at i:22774339 original size:25 final size:25
Alignment explanation
Indices: 22774278--22774351 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
22774268 TTTATAGTGA
22774278 ATTCTCTAGAAAGTCTTTATGGCAT
1 ATTCTCTAGAAAGTCTTTATGGCAT
* * * *
22774303 ATTATTTGGAAAGTCTTTGTGGCA-
1 ATTCTCTAGAAAGTCTTTATGGCAT
*
22774327 AGTTCTCTAGAAAATCCTTTATGGC
1 A-TTCTCTAGAAAGT-CTTTATGGC
22774352 TAATCTTGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.76
26 8 0.21
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (25 bp):
ATTCTCTAGAAAGTCTTTATGGCAT
Found at i:22776351 original size:43 final size:43
Alignment explanation
Indices: 22776210--22776376 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
22776200 CACATCAGCT
* * * * *
22776210 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTACCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
* * * * *
22776252 -ATCAATGCCACTGTCCCAAACAGGGTTTTACATG-AA-ATCAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
* * *
22776293 TTAACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCTCAA
1 -T-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
*
22776338 TACAATGCCAATGTCCCAGACATGGTCTCACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
22776377 ACAACTCGAT
Statistics
Matches: 97, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
41 4 0.04
42 8 0.08
43 77 0.79
44 4 0.04
45 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
Found at i:22784000 original size:39 final size:40
Alignment explanation
Indices: 22783858--22784000 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
22783848 GCTCCTCGTT
* *
22783858 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
22783898 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCGC-
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
22783936 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
22783977 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22784001 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
37 3 0.03
38 21 0.23
39 26 0.29
40 36 0.40
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:22791710 original size:40 final size:39
Alignment explanation
Indices: 22791666--22791849 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 39
22791656 GCTCCTCGTT
* *
22791666 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
22791706 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
22791746 CAAATGCCTTCGGGACTTA-CCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * * *
22791784 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
22791825 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22791850 CATCATTCAA
Statistics
Matches: 130, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
37 3 0.02
38 28 0.22
39 12 0.09
40 75 0.58
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:22791793 original size:78 final size:81
Alignment explanation
Indices: 22791666--22791849 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
22791656 GCTCCTCGTT
* *
22791666 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
22791730 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
**
22791746 CAAATGCCTTCGGGACTTA-CCCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
22791809 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
22791825 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22791850 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 3 0.03
78 52 0.56
79 20 0.22
80 18 0.19
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:22799499 original size:43 final size:42
Alignment explanation
Indices: 22799409--22799519 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
22799399 TCACAAATTG
* * * *
22799409 ATGCCACTATCCCAAACAGGGTCTTACACGAAATCGATTAACG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATC-ATTAACA
*
22799452 ATGCCAATGTCCCAAACATGGTCTTACACGTAATC-TTAATACA
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCATT-A-ACA
*
22799495 ATGCCAATGTCCCAGACATGGTCTT
1 ATGCCAATGTCCCAAACATGGTCTT
22799520 CCATGTAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
41 2 0.03
42 1 0.02
43 57 0.95
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGAAATCATTAACA
Found at i:22801379 original size:25 final size:25
Alignment explanation
Indices: 22801350--22801400 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
22801340 AGTTCCGACC
22801350 TCACTATGCCATCCTACCTCCCTCT
1 TCACTATGCCATCCTACCTCCCTCT
22801375 TCACTATGCCATCCTACCTCCCTCT
1 TCACTATGCCATCCTACCTCCCTCT
22801400 T
1 T
22801401 ACTCCCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.47, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACTATGCCATCCTACCTCCCTCT
Found at i:22813763 original size:43 final size:43
Alignment explanation
Indices: 22813702--22813786 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
22813692 TGAGGTATGT
*
22813702 AGCATCCAAGCTCATTGAGAGGTCTGAGTTCATTATGGATGCA
1 AGCATCCAAGCTCATTGAGAGGTCTGAGTTCATGATGGATGCA
* *
22813745 AGCATCGAAGCTCATTGAGTGGTCTGAGTTCATGATGGATGC
1 AGCATCCAAGCTCATTGAGAGGTCTGAGTTCATGATGGATGC
22813787 GATTCATGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
AGCATCCAAGCTCATTGAGAGGTCTGAGTTCATGATGGATGCA
Found at i:22815869 original size:21 final size:21
Alignment explanation
Indices: 22815843--22815887 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
22815833 GATTTATTAT
22815843 CATACTAATACTACTCCTTAC
1 CATACTAATACTACTCCTTAC
22815864 CATACTAATACTACTCCTTAC
1 CATACTAATACTACTCCTTAC
22815885 CAT
1 CAT
22815888 CTTGATGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (21 bp):
CATACTAATACTACTCCTTAC
Found at i:22816906 original size:22 final size:22
Alignment explanation
Indices: 22816878--22816922 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22816868 ATTATGATGA
22816878 TTGATATG-ATGAGACTGATATT
1 TTGATATGTATGAGA-TGATATT
*
22816900 TTGATATGTATGAGATTATATT
1 TTGATATGTATGAGATGATATT
22816922 T
1 T
22816923 GTGTTGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (22 bp):
TTGATATGTATGAGATGATATT
Found at i:22825508 original size:48 final size:48
Alignment explanation
Indices: 22825452--22825614 Score: 193
Period size: 48 Copynumber: 3.4 Consensus size: 48
22825442 CTAAATGCTC
* * ** * *
22825452 ATATCATGGCCTGAAGCCAACTTAATGTATCTCGCACCCGAAGTACTA
1 ATATCATGGCCCGAAGCCAAATTAATAAAGCTCGCACCCAAAGTACTA
* *
22825500 ATATCATGGCCCGAAGCCAAATTAATAAAGCTCGCACCCAAAGTGCTG
1 ATATCATGGCCCGAAGCCAAATTAATAAAGCTCGCACCCAAAGTACTA
* * * *
22825548 ATATCATGGTCCGAAGACAAATCAATAAAGCTCGCACCCAAAGTACTG
1 ATATCATGGCCCGAAGCCAAATTAATAAAGCTCGCACCCAAAGTACTA
*
22825596 ATAT-AGTGGCCCAAAGCCA
1 ATATCA-TGGCCCGAAGCCA
22825615 TCAAAGTATC
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 98 0.99
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (48 bp):
ATATCATGGCCCGAAGCCAAATTAATAAAGCTCGCACCCAAAGTACTA
Found at i:22827826 original size:8 final size:8
Alignment explanation
Indices: 22827813--22827843 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
22827803 GTGCTTGGTA
22827813 GGAAAGAT
1 GGAAAGAT
*
22827821 GGAAAGTT
1 GGAAAGAT
22827829 GGAAAGAT
1 GGAAAGAT
22827837 GGAAAGA
1 GGAAAGA
22827844 AAATGTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.39, T:0.13
Consensus pattern (8 bp):
GGAAAGAT
Found at i:22850588 original size:20 final size:19
Alignment explanation
Indices: 22850554--22850593 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
22850544 ATGTTTTTAT
22850554 AAATATTTTTTTAAT-ATA
1 AAATATTTTTTTAATCATA
22850572 AAATATTTTCATTTAATCATA
1 AAATATTTT--TTTAATCATA
22850593 A
1 A
22850594 TGTGAGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATATTTTTTTAATCATA
Found at i:22853876 original size:27 final size:27
Alignment explanation
Indices: 22853846--22853966 Score: 197
Period size: 27 Copynumber: 4.5 Consensus size: 27
22853836 TAAATGATAG
*
22853846 AATGACTATTTTGCCCTTATGTGGTAA
1 AATGACTGTTTTGCCCTTATGTGGTAA
*
22853873 AATGATTGTTTTGCCCTTATGTGGTAA
1 AATGACTGTTTTGCCCTTATGTGGTAA
22853900 AATGACTGTTTTGCCCTTATGTGGTAA
1 AATGACTGTTTTGCCCTTATGTGGTAA
*
22853927 AATGACTGGTTTGCCCTTATGTGGTAA
1 AATGACTGTTTTGCCCTTATGTGGTAA
* *
22853954 GATGACTGCTTTG
1 AATGACTGTTTTG
22853967 ATCCTATATG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.40
Consensus pattern (27 bp):
AATGACTGTTTTGCCCTTATGTGGTAA
Found at i:22858907 original size:31 final size:31
Alignment explanation
Indices: 22858864--22858922 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22858854 GCCGCAATGC
22858864 GAAAAAAGTTGCTAAATCTAAGACCTAATAT
1 GAAAAAAGTTGCTAAATCTAAGACCTAATAT
* *
22858895 GAAAATAA-TTGCTAAATTTAATACCTAA
1 GAAAA-AAGTTGCTAAATCTAAGACCTAA
22858923 CTTGGACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (31 bp):
GAAAAAAGTTGCTAAATCTAAGACCTAATAT
Found at i:22859965 original size:30 final size:31
Alignment explanation
Indices: 22859917--22859974 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
22859907 TCAAAAATTA
22859917 AAATATATAGATTAAAATTTAAATTTAATCG
1 AAATATATAGATTAAAATTTAAATTTAATCG
22859948 AAATATATAGA-TAAAATTTAAATTTAA
1 AAATATATAGATTAAAATTTAAATTTAA
22859975 ATCTAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (31 bp):
AAATATATAGATTAAAATTTAAATTTAATCG
Found at i:22869527 original size:7 final size:7
Alignment explanation
Indices: 22869517--22869543 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22869507 GATAATACCC
22869517 GATAAAT
1 GATAAAT
22869524 GATAAAT
1 GATAAAT
22869531 GATAAAT
1 GATAAAT
22869538 GATAAA
1 GATAAA
22869544 AATGTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:22870091 original size:8 final size:7
Alignment explanation
Indices: 22870053--22870104 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
22870043 AAGTACATGA
22870053 AAATGATG
1 AAAT-ATG
*
22870061 ATATATG
1 AAATATG
22870068 AAATATG
1 AAATATG
22870075 AAATATG
1 AAATATG
22870082 AAAGTATG
1 AAA-TATG
22870090 AAATTATG
1 AAA-TATG
*
22870098 ATATATG
1 AAATATG
22870105 GACATGGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
7 23 0.59
8 16 0.41
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (7 bp):
AAATATG
Found at i:22870104 original size:15 final size:14
Alignment explanation
Indices: 22870053--22870104 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
22870043 AAGTACATGA
*
22870053 AAATGATGATATATG
1 AAAT-ATGAAATATG
22870068 AAATATGAAATATG
1 AAATATGAAATATG
22870082 AAAGTATGAAATTATG
1 AAA-TATGAAA-TATG
*
22870098 ATATATG
1 AAATATG
22870105 GACATGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 12 0.36
15 15 0.45
16 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (14 bp):
AAATATGAAATATG
Found at i:22881978 original size:6 final size:6
Alignment explanation
Indices: 22881967--22882001 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
22881957 TAGGTTTCAA
22881967 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
22882002 AATCATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:22890427 original size:28 final size:26
Alignment explanation
Indices: 22890367--22890437 Score: 63
Period size: 28 Copynumber: 2.6 Consensus size: 26
22890357 GTTAAATATG
22890367 TTTT-ATTATGTCTTAGTTAATACATA
1 TTTTAATT-TGTCTTAGTTAATACATA
* *
22890393 TCATTAATTTGTCTTAGTTTATTACATCA
1 T-TTTAATTTGTCTTAG-TTAATACAT-A
* *
22890422 TTTTAATGTGTTTTAG
1 TTTTAATTTGTCTTAG
22890438 CTCCAGCCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
26 1 0.03
27 10 0.28
28 23 0.64
29 2 0.06
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (26 bp):
TTTTAATTTGTCTTAGTTAATACATA
Found at i:22895183 original size:29 final size:29
Alignment explanation
Indices: 22895122--22895185 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
22895112 TAATATGATT
* ** * *
22895122 TGGGCCTAATGGGCCATATGAAGGTGAAT
1 TGGGCCTAATGGGCCATAAGAAAATAAAC
*
22895151 TGGGCCTAGTGGGCCATAAGAAAATAAAC
1 TGGGCCTAATGGGCCATAAGAAAATAAAC
22895180 TGGGCC
1 TGGGCC
22895186 AGATGGGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATAAGAAAATAAAC
Found at i:22896288 original size:17 final size:18
Alignment explanation
Indices: 22896255--22896289 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22896245 GTTTAAGAAG
22896255 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
22896273 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
22896290 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:22896356 original size:25 final size:26
Alignment explanation
Indices: 22896328--22896377 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
22896318 AAATCATAAT
* *
22896328 TAAGGG-AAAATTACCGAAATACCTC
1 TAAGGGAAAAATGACCAAAATACCTC
22896353 TAAGGGCAAAAATGACCAAAATACC
1 TAAGGG-AAAAATGACCAAAATACC
22896378 CTTGGGTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
27 15 0.71
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (26 bp):
TAAGGGAAAAATGACCAAAATACCTC
Found at i:22897104 original size:842 final size:841
Alignment explanation
Indices: 22895476--22898008 Score: 4270
Period size: 842 Copynumber: 3.0 Consensus size: 841
22895466 AGGTAAGTGA
*
22895476 AAATCGTAATTAAGGGAAAATTACCGAAATACACCTAAGGGCGAAAATGACCAAAATACCCCTAG
1 AAATCGTAATTAAGGGAAAATTACCGAAATAC-CCTAAGGGCAAAAATGACCAAAATACCCCTAG
* * *
22895541 ATGTTGAATGTAAGTTTTGTAGATGTGACACGCATACATATGATGTTCTGCTTAGGTTGCATATG
65 GTGTTGAATGTAAGTTTTGTGGATGTGACA-TCATACATATGATGTTCTGCTTAGGTTGCATATG
22895606 GGGTGGGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCC
129 GGGTGGGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCC
** *
22895671 ACCGACAACTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAATCGGGCTACCATTGGTGT
194 ACCGACGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGT
* *
22895736 ATGGGCTGGATGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACGGAGCTGGTGTGTAG
259 GTGGGCTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACGGAGCTGGTGTGTAG
22895801 CGGATGGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTGTT
324 CGGATGGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTGTT
22895866 TTCTGTCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGG
389 TTCTGTCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGG
* * * *
22895931 TGATGCTCAGTAGAAGGTTCAAT-TTTGGAGGGATTGTGGGTGGCTAGCTAGCAAGACAAATTTG
454 TGATGCTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCTAGCAAGACAAATTTG
*
22895995 GACTTTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTTAGACCAGATTGTAATAAGGT
519 GACTTTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGT
* * *
22896060 TTTCATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGTGAAGTTAAACATA
584 TTTCATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATG
22896125 GGTTTCCTAAATTATAGTATGTTTTCTACG-TTTCTGCAACTTAATTTCTAAATGATAAGTTTTC
649 GGTTTCCTAAATTATAGTATGTTTTCTACGTTTTC-GCAACTTAATTTCTAAATGATAAGTTTTC
* *
22896189 TTAAATCAAATGCTTAAAACAAGGCTTTCACAACTGAAAGGTGTGTTTGTTAAGGTGTTTAAGAA
713 TTAAATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAA
*
22896254 GGGTTTTCAATGAAAACACGGTTTTCACTAAAACACTTCAATGTGACACGCTAAATTCGGCCAT
778 GGGTTTTCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCTAAATTCGGCCAT
* * *
22896318 AAATCATAATTAAGGGAAAATTACCGAAATACCTCTAAGGGCAAAAATGACCAAAATACCCTTGG
1 AAATCGTAATTAAGGGAAAATTACCGAAATACC-CTAAGGGCAAAAATGACCAAAATACCCCTAG
* * * *
22896383 GTGTTGAATGTATGTTTTGTGGATGTAACATAATACATATGATGTTCTGTTTAGGTTGCATATGG
65 GTGTTGAATGTAAGTTTTGTGGATGTGACATCATACATATGATGTTCTGCTTAGGTTGCATATGG
* * * * * *
22896448 GGTGGAAATTATGGTACGGAGGAAGTATATGAAGATCGCATGGTTGCCTAACAATCATGGAACTA
130 GGTGGGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCCA
**
22896513 CCGACGGCTTTTAAAGCCCAATATGTAAATGTTGGTAGTTCCGCAACCGGGCTACCATTGGTGTG
195 CCGACGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTG
*
22896578 TGGGCTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATAGGGGACGGAGCTGGTGTGTAGC
260 TGGGCTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACGGAGCTGGTGTGTAGC
* *
22896643 AGATGGATAATTTGAATGGGATTACATTGCATGTTTGATGTATGATGATTTTTGAATGCTTGTTT
325 GGATGGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTGTTT
*
22896708 TCTGCCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGT
390 TCTGTCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGT
*
22896773 GATGCTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCCAGCTAGCAAGACAAATTTGG
455 GATGCTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCTAGCAAGACAAATTTGG
*
22896838 ACTTTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTATAATAAGGTT
520 ACTTTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTT
22896903 TTCATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGG
585 TTCATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGG
22896968 GTTTCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTT
650 GTTTCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTT
22897033 AAATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGG
715 AAATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGG
* *
22897098 GTTTTCAATGAAAACACGGTTTTCGCT-AAACACTTCAATGTGACATG-TCGAATTCGGCCAT
780 GTTTTCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCT-AAATTCGGCCAT
* * * *
22897159 AAA-CTGTAATTAAGGGAAAATTACCGAAATGCCCCTTAGGGTAAAAATGACCAAAAAACCCCTA
1 AAATC-GTAATTAAGGGAAAATTACCGAAAT-ACCCTAAGGGCAAAAATGACCAAAATACCCCTA
*
22897223 GGTGTTGAATGTAAGTTTTATGGATGTGACATGCATACATATGATGTTCTGCTTAGGTTGCATAT
64 GGTGTTGAATGTAAGTTTTGTGGATGTGACAT-CATACATATGATGTTCTGCTTAGGTTGCATAT
* *
22897288 GGGGTGGGAATTATGGTACGGAGGAAGTATATGAGGATTGCATGGTTGCCTGACAATTGTGGATC
128 GGGGTGGGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATC
*
22897353 CACCGACGGCTTTTAATGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTG
193 CACCGACGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTG
* * * * *
22897418 TGTTGGCTGGGTGGGTAGATATTTATATCCCTACATGGTGTGATGGGGGACAGAGCTGGTATGTA
258 TGTGGGCTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACGGAGCTGGTGTGTA
*
22897483 GCGGATGGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTAT
323 GCGGATGGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTGT
*
22897548 TTTCTGTCGAGGGTTGTACACACTGAGTTTGTGAAAACTCACCCCCTCTTTTATTTTATTTTCAG
388 TTTCTGTCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAG
* *
22897613 GTGATACTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCAAGCAAGACAAATTT
453 GTGATGCTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCTAGCAAGACAAATTT
*
22897678 GGACTTTTTTTTAAGCTTATAAGTTTTATTTTATTAAGTATGTTTCAGACCAGATTGTAATAAGG
518 GGACTTTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGG
* *
22897743 TCTTCATTATGTTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACAT
583 TTTTCATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACAT
* *
22897808 GGGTTTCCTAAATTATAGTATGTTTTCTAGGTTTCCGCAACTTAATTTCTAAATGATAAGTTTTC
648 GGGTTTCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTC
*
22897873 TTAAATCAAATGCTTAAAACAAGGCTTTCGGAACTGAAA-G-GTGTTTATTAAGGTTTCTTTTGT
713 TTAAATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGG-------TGT
* *
22897936 TTAAGAAGGGTTTTCAATGAAAACATGGTTTTCGCTAAAACACTTCAATGTGACACGCCAAATTC
771 TTAAGAAGGGTTTTCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCTAAATTC
22898001 GGCCAT
836 GGCCAT
22898007 AA
1 AA
22898009 CGTCTAGGCC
Statistics
Matches: 1584, Mismatches: 91, Indels: 26
0.93 0.05 0.02
Matches are distributed among these distances:
840 15 0.01
841 473 0.30
842 1022 0.65
843 4 0.00
847 38 0.02
848 32 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (841 bp):
AAATCGTAATTAAGGGAAAATTACCGAAATACCCTAAGGGCAAAAATGACCAAAATACCCCTAGG
TGTTGAATGTAAGTTTTGTGGATGTGACATCATACATATGATGTTCTGCTTAGGTTGCATATGGG
GTGGGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCCAC
CGACGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTGT
GGGCTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACGGAGCTGGTGTGTAGCG
GATGGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTGTTTT
CTGTCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGTG
ATGCTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCTAGCAAGACAAATTTGGA
CTTTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTTT
TCATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGGG
TTTCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTTA
AATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGGG
TTTTCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCTAAATTCGGCCAT
Found at i:22901148 original size:49 final size:49
Alignment explanation
Indices: 22901026--22901193 Score: 139
Period size: 49 Copynumber: 3.4 Consensus size: 49
22901016 TGGGATAAGA
* * * **
22901026 TGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACAT-TA-AAG
1 TGCCGATGCCATGTCCCAGACA-GGTCTTAAACTGGCT--CTCATATATCGG
* * *
22901076 T--CGATGCCGTGTCCTAGACAGGTCTTAAACTGGCTTTCATATATCGAG
1 TGCCGATGCCATGTCCCAGACAGGTCTTAAACTGGCTCTCATATATCG-G
* * * *
22901124 -GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCGTCTATCGG
1 TGCCGATGCCATGTCCCAGACAGGTCTTAAACTGGCTCTCATATATCGG
**
22901172 TGTTGATGCCATGTCCCAGACA
1 TGCCGATGCCATGTCCCAGACA
22901194 TTTCTTACAC
Statistics
Matches: 94, Mismatches: 18, Indels: 13
0.75 0.14 0.10
Matches are distributed among these distances:
45 3 0.03
46 2 0.02
47 14 0.15
48 18 0.19
49 56 0.60
50 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACAGGTCTTAAACTGGCTCTCATATATCGG
Found at i:22902616 original size:42 final size:42
Alignment explanation
Indices: 22902509--22902618 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
22902499 TCGTTTCAAT
* ** *
22902509 GCCATATCCCCGATATGGTCTTACATGAAATATCATATCGAT
1 GCCATATCCCCGATATGGTCTTATACAAAATATCATATCGAG
* *
22902551 GCCATGTCCCCGACATGGTCTTATACAAAATCA-CATA-CTGAG
1 GCCATATCCCCGATATGGTCTTATACAAAAT-ATCATATC-GAG
*
22902593 GCCATATCCCGGATATGGTCTTATAC
1 GCCATATCCCCGATATGGTCTTATAC
22902619 GGAATCTTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 55 0.96
43 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
GCCATATCCCCGATATGGTCTTATACAAAATATCATATCGAG
Found at i:22904435 original size:18 final size:20
Alignment explanation
Indices: 22904412--22904453 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
22904402 AGTCTTTTTT
22904412 CCATA-TTTT-TTTTATCAA
1 CCATATTTTTGTTTTATCAA
22904430 CCATATTTTTGTTTTATCAA
1 CCATATTTTTGTTTTATCAA
22904450 CCAT
1 CCAT
22904454 TGCATTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 4 0.18
20 13 0.59
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.52
Consensus pattern (20 bp):
CCATATTTTTGTTTTATCAA
Found at i:22906720 original size:17 final size:15
Alignment explanation
Indices: 22906688--22906721 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
22906678 CTAATGGAAC
22906688 TTTACTTTTATACTT
1 TTTACTTTTATACTT
22906703 TTTACTATTTAGTACTT
1 TTTACT-TTTA-TACTT
22906720 TT
1 TT
22906722 CACCTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTACTTTTATACTT
Found at i:22910114 original size:48 final size:49
Alignment explanation
Indices: 22910059--22910189 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 49
22910049 ATTTGTATGC
*
22910059 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA-GACGA-GAG-T
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATG--GATGAGCT
* *
22910107 TAGTGTAAGA-CATTTCTGGGACATGGCATCGAC-TTGATGGATGAGCT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGGATGAGCT
* *
22910154 T-GTGTAAGACCATGTTTGGGGCATGGCATCGGCATT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
22910190 ATAACCTATG
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.03
46 15 0.21
47 42 0.59
48 12 0.17
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (49 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGGATGAGCT
Found at i:22929457 original size:15 final size:15
Alignment explanation
Indices: 22929430--22929467 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
22929420 AATGCTGATT
22929430 GTATGAGAAAATCTTG
1 GTATGA-AAAATCTTG
22929446 GTATGAAAAATCTTG
1 GTATGAAAAATCTTG
*
22929461 GTCTGAA
1 GTATGAA
22929468 TGGTAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (15 bp):
GTATGAAAAATCTTG
Found at i:22933918 original size:19 final size:19
Alignment explanation
Indices: 22933870--22933923 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
22933860 TAAAAATGTT
22933870 TTTTATTTCTATTTAATAA
1 TTTTATTTCTATTTAATAA
*
22933889 -TTTATCATCTA-TTAATAA
1 TTTTAT-TTCTATTTAATAA
22933907 TTTTGATTTCTAATTTA
1 TTTT-ATTTCT-ATTTA
22933924 GTCCTTAGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 12 0.43
19 10 0.36
20 3 0.11
21 3 0.11
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTATTTCTATTTAATAA
Found at i:22935276 original size:33 final size:33
Alignment explanation
Indices: 22935239--22935309 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
22935229 CTCAGCCTTC
* **
22935239 ATCAG-AATCAATTGGGCCTAGCCCATTTTCAAA
1 ATCAGTAA-CAATTGGGCCTAGCCAATTAACAAA
*
22935272 ATCAGTAACAGTTGGGCCTAGCCAATTAACAAA
1 ATCAGTAACAATTGGGCCTAGCCAATTAACAAA
22935305 ATCAG
1 ATCAG
22935310 GTGGGCCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (33 bp):
ATCAGTAACAATTGGGCCTAGCCAATTAACAAA
Found at i:22935502 original size:22 final size:22
Alignment explanation
Indices: 22935477--22935519 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22935467 CACTAAGTCA
* *
22935477 ACAGAACGGCTCAATGCCATAG
1 ACAGAACGGCTAAAGGCCATAG
*
22935499 ACAGAATGGCTAAAGGCCATA
1 ACAGAACGGCTAAAGGCCATA
22935520 AATATCGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (22 bp):
ACAGAACGGCTAAAGGCCATAG
Found at i:22938457 original size:40 final size:40
Alignment explanation
Indices: 22938394--22938577 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
22938384 TATTCGAATG
* * *
22938394 ATATCCGGGCTAAGTCCCAAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
22938434 ATATCTGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AG-TGACT
* *
22938474 ATATTCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
22938514 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
22938554 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
22938578 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 117 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:22948280 original size:84 final size:84
Alignment explanation
Indices: 22948139--22948307 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
22948129 TCTGATTTTG
22948139 ATGAATGTTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
1 ATGAATGTTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
* *
22948204 AAGGTTATGTTTTACATTA
66 AAAGATATGTTTTACATTA
*
22948223 ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
1 ATGAATGTTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
*
22948288 AAAGATATGTTTTAGATTA
66 AAAGATATGTTTTACATTA
22948307 A
1 A
22948308 CATGTTTTGT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.47
Consensus pattern (84 bp):
ATGAATGTTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
AAAGATATGTTTTACATTA
Found at i:22951631 original size:47 final size:45
Alignment explanation
Indices: 22951434--22951790 Score: 210
Period size: 47 Copynumber: 7.6 Consensus size: 45
22951424 GATATATTGT
* * * *
22951434 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCATCT-C-TGTGC
* *
22951484 TGATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCTGT-GC
* * * * * *
22951528 CGATGCATGTCCCAAACACGTCTTACACTGGCTATC-TTTTTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-ATCATCTCT-G-TGC
* *
22951575 CAATGCATGTCCCAGACATGTCCTACACTAGCACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCTGTGC
* * * * *
22951621 CGATGCCATGTCCTAGACATGGTCTTACATTGGCTATCATAGTATG-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCAT-CTCTGTGC
* * *
22951669 TGATGCATGTCCCAGACATGTCTTACACTAGC--CTTCGTCTGGATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCATCATC-TCT-G-TGC
* * *
22951715 TGATGCCATGTCCCAGACATGGTCTTACA-TTGTC-TC-TCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CATCATC-T-CTGT-GC
*
22951763 CGAAGCATGTCCCAGACATGTCTTACAC
1 CGATGCATGTCCCAGACATGTCTTACAC
22951791 CGGCACACAA
Statistics
Matches: 241, Mismatches: 43, Indels: 49
0.72 0.13 0.15
Matches are distributed among these distances:
43 5 0.02
44 31 0.13
45 4 0.02
46 36 0.15
47 89 0.37
48 52 0.22
49 20 0.08
50 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCTGTGC
Found at i:22951687 original size:94 final size:93
Alignment explanation
Indices: 22951434--22951790 Score: 363
Period size: 94 Copynumber: 3.8 Consensus size: 93
22951424 GATATATTGT
* * *
22951434 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATA--TG-GCCGATGCATGTCCCAG
*
22951499 ACATGTCTTACACTAGCA--CAACTCT-TAGC
63 ACATGTCTTACACTAGCACTCATCTCTGT-GC
* * * * *
22951528 CGATG-CATGTCCCAAACA-CGTCTTACACTGGCTATC-TTTTTCGAGGCCAATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATAT---GGCCGATGCATGTCCCAG
*
22951590 ACATGTCCTACACTAGCACTCATCTCTGTGC
63 ACATGTCTTACACTAGCACTCATCTCTGTGC
* * *
22951621 CGATGCCATGTCCTAGACATGGTCTTACATTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-TATGGCCGATGCATGTCCCAGAC
*
22951686 ATGTCTTACACTAGC-CT--TCGTCTGGATGT
65 ATGTCTTACACTAGCACTCATC-TCT-G-TGC
* * * * * *
22951715 TGATGCCATGTCCCAGACATGGTCTTACATTGTCTCTCATAATGTGGCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ATATGGCCGATGCATGTCCCAGAC
22951780 ATGTCTTACAC
65 ATGTCTTACAC
22951791 CGGCACACAA
Statistics
Matches: 222, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
91 36 0.16
92 20 0.09
93 28 0.13
94 118 0.53
95 17 0.08
96 1 0.00
97 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATATGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTGTGC
Found at i:22954067 original size:30 final size:30
Alignment explanation
Indices: 22954033--22954093 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22954023 TCCTTAACTC
22954033 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
22954063 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
22954093 A
1 A
22954094 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:22957774 original size:26 final size:27
Alignment explanation
Indices: 22957723--22957774 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
22957713 AAATTAGCTA
**
22957723 AGAAATGCATGATGTGATGATTTTGTG
1 AGAAATGCATGATGTGATGAACTTGTG
*
22957750 AGAAATGTATG-TGTGATGAACTTGT
1 AGAAATGCATGATGTGATGAACTTGT
22957775 ATGAATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.37
Consensus pattern (27 bp):
AGAAATGCATGATGTGATGAACTTGTG
Found at i:22958541 original size:57 final size:56
Alignment explanation
Indices: 22958421--22958586 Score: 210
Period size: 57 Copynumber: 2.9 Consensus size: 56
22958411 TAAAAAAATA
* * *
22958421 CCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTTGTGGC-TATCTCAAT-TAAAAGGATT
1 CCTTTGTGGCTATCTCTGTTAAAGGAATGCC-TTGTGGCAAAT-T--ATGTTAAAGGATG
* *
22958479 CCTTTGTGGCTATCCCTATTAAAGGAATGCCTTGTGGCAAATTATGTTAAAGGAATG
1 CCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATTATGTTAAAGG-ATG
* *
22958536 CCTTTGTGGCTATCTCTGTTAAAGGAATGTCTTGTGGCAAATTCTGTTAAA
1 CCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATTATGTTAAA
22958587 AATGTGCTTT
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
55 2 0.02
56 6 0.06
57 57 0.59
58 31 0.32
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (56 bp):
CCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATTATGTTAAAGGATG
Found at i:22958563 original size:29 final size:29
Alignment explanation
Indices: 22958249--22958586 Score: 290
Period size: 29 Copynumber: 11.8 Consensus size: 29
22958239 GTATAAGTGA
*
22958249 GCCTTTGTGGCTATCTC--TAAAAGGAA-
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
** * *
22958275 GCCTTTGCAGCGATCTCTGTTATATGGAA-
1 GCCTTTGTGGCTATCTCTGTTA-AAGGAAT
* *
22958304 GCCTTTTTGGCGATCTCTGTTAAATGGAA-
1 GCCTTTGTGGCTATCTCTGTTAAA-GGAAT
22958333 GCCTTTGTGGCTATCTCTAG-TATAA-GAGA-
1 GCCTTTGTGGCTATCTCT-GTTA-AAGGA-AT
22958362 GCCTTTGTGGCTATCTCTGTTGAAAGG-AT
1 GCCTTTGTGGCTATCTCTGTT-AAAGGAAT
* ** * **
22958391 GTCTTTGTGTTTATCTTTGTTAAAAAAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
*
22958420 ACCTTTGTGGCTATCTCTGTTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
**
22958449 GCCTTTGTGGCTATCTCAATTAAAAGG-AT
1 GCCTTTGTGGCTATCTCTGTT-AAAGGAAT
* * *
22958478 TCCTTTGTGGCTATCCCTATTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
* *
22958507 GCC-TTGTGGCAAAT-TATGTTAAAGGAAT
1 GCCTTTGTGGC-TATCTCTGTTAAAGGAAT
22958535 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
* *
22958564 GTC-TTGTGGCAAAT-TCTGTTAAA
1 GCCTTTGTGGC-TATCTCTGTTAAA
22958587 AATGTGCTTT
Statistics
Matches: 255, Mismatches: 39, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
26 14 0.05
28 54 0.21
29 177 0.69
30 10 0.04
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTCTGTTAAAGGAAT
Found at i:22958581 original size:28 final size:28
Alignment explanation
Indices: 22958497--22958586 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
22958487 GCTATCCCTA
*
22958497 TTAAAGGAATGCCTTGTGGCAAATTATG
1 TTAAAGGAATGCCTTGTGGCAAATTCTG
*
22958525 TTAAAGGAATGCCTTTGTGGC-TATCTCTG
1 TTAAAGGAATGCC-TTGTGGCAAAT-TCTG
*
22958554 TTAAAGGAATGTCTTGTGGCAAATTCTG
1 TTAAAGGAATGCCTTGTGGCAAATTCTG
22958582 TTAAA
1 TTAAA
22958587 AATGTGCTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
28 31 0.56
29 24 0.44
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (28 bp):
TTAAAGGAATGCCTTGTGGCAAATTCTG
Found at i:22969322 original size:16 final size:16
Alignment explanation
Indices: 22969301--22969335 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22969291 CTACCAGAGG
22969301 CTACACAAATATATCT
1 CTACACAAATATATCT
22969317 CTACACAAATATATCT
1 CTACACAAATATATCT
22969333 CTA
1 CTA
22969336 TATCTTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (16 bp):
CTACACAAATATATCT
Found at i:22978965 original size:19 final size:19
Alignment explanation
Indices: 22978941--22978993 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
22978931 AAACTCAAAT
22978941 TGGTATCGATACCTGGCTA
1 TGGTATCGATACCTGGCTA
22978960 TGGTATCGATACCTGGCTA
1 TGGTATCGATACCTGGCTA
22978979 TGGTATCGATACCTG
1 TGGTATCGATACCTG
22978994 ATTGAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (19 bp):
TGGTATCGATACCTGGCTA
Found at i:22982553 original size:33 final size:33
Alignment explanation
Indices: 22982511--22982575 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
22982501 TGAGATTTTG
22982511 ATTGAAATGATAATATTTAAAAAATTAAAATCA
1 ATTGAAATGATAATATTTAAAAAATTAAAATCA
22982544 ATTGAAATGATAATATTTAAAAAATTAAAATC
1 ATTGAAATGATAATATTTAAAAAATTAAAATC
22982576 TTTATTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (33 bp):
ATTGAAATGATAATATTTAAAAAATTAAAATCA
Found at i:22990867 original size:43 final size:44
Alignment explanation
Indices: 22990816--22990919 Score: 133
Period size: 42 Copynumber: 2.4 Consensus size: 44
22990806 TCCCAGACGT
* *
22990816 GGTCTTACATGTAATCACATAT-CGATGCCACTGTCCCAAACAG
1 GGTCTTACACGTAATCACATATACGATGCCAATGTCCCAAACAG
* * *
22990859 GGTCTTACACG-AA-CTCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACATATACGATGCCAATGTCCCAAACAG
22990901 GGTCTTACACGTAAATCAC
1 GGTCTTACACGT-AATCAC
22990920 GAATTGATGC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 6 0.12
42 31 0.61
43 10 0.20
44 2 0.04
45 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (44 bp):
GGTCTTACACGTAATCACATATACGATGCCAATGTCCCAAACAG
Found at i:22992096 original size:13 final size:13
Alignment explanation
Indices: 22992078--22992102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22992068 ACAAACAATA
22992078 AAATTTTCACACG
1 AAATTTTCACACG
22992091 AAATTTTCACAC
1 AAATTTTCACAC
22992103 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:22997528 original size:47 final size:47
Alignment explanation
Indices: 22997457--22997767 Score: 505
Period size: 47 Copynumber: 6.6 Consensus size: 47
22997447 CCCTTCGGGA
* * * * * *
22997457 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
22997504 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22997551 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22997598 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22997645 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22997694 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22997741 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
22997768 TATTCAAATA
Statistics
Matches: 250, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 205 0.82
49 45 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22997535 original size:25 final size:25
Alignment explanation
Indices: 22997507--22997585 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
22997497 ACTCGGCCCT
22997507 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
22997532 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
22997554 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
22997579 ATCACAT
1 ATCACAT
22997586 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:22997713 original size:143 final size:141
Alignment explanation
Indices: 22997457--22997767 Score: 541
Period size: 143 Copynumber: 2.2 Consensus size: 141
22997447 CCCTTCGGGA
* * * * *
22997457 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
22997522 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
22997587 GGCCATTAGGC
131 GGCCATTAGGC
* *
22997598 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
22997663 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
22997728 TCGGCCATTAGGC
129 TCGGCCATTAGGC
22997741 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
22997768 TATTCAAATA
Statistics
Matches: 161, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 48 0.30
143 113 0.70
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:23001824 original size:40 final size:40
Alignment explanation
Indices: 23001792--23002063 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
23001782 CCAGCATGAT
* * * *
23001792 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
23001832 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
23001872 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
23001912 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
23001952 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
23001992 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
23002032 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
23002064 CTCAATTCTC
Statistics
Matches: 216, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:23003548 original size:47 final size:47
Alignment explanation
Indices: 23003477--23003880 Score: 684
Period size: 47 Copynumber: 8.6 Consensus size: 47
23003467 CCCTTCGGGA
* * * * * *
23003477 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23003524 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23003571 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23003618 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23003665 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23003711 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23003758 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23003807 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23003854 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
23003881 TATTCAAATA
Statistics
Matches: 342, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
46 46 0.13
47 251 0.73
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23003555 original size:25 final size:25
Alignment explanation
Indices: 23003527--23003605 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
23003517 ACTCGGCCCT
23003527 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
23003552 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
23003574 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
23003599 ATCACAT
1 ATCACAT
23003606 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:23009950 original size:23 final size:24
Alignment explanation
Indices: 23009875--23009979 Score: 153
Period size: 23 Copynumber: 4.4 Consensus size: 24
23009865 GAGACATGGC
* *
23009875 CAGTAAGCTCTTCAAGAGCTGATAA
1 CAGTAAGCTCTTC-TGAGCTGAAAA
23009900 CAGTAAGCTCTAT-TGAGCTGAAAA
1 CAGTAAGCTCT-TCTGAGCTGAAAA
23009924 CAGTAAGCTCTTCTGAGCT-AAAA
1 CAGTAAGCTCTTCTGAGCTGAAAA
23009947 CAGTAAGCTCTTCTGAGCT-AAAA
1 CAGTAAGCTCTTCTGAGCTGAAAA
23009970 CAGTAAGCTC
1 CAGTAAGCTC
23009980 ATACAAGCTA
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
23 38 0.50
24 26 0.34
25 11 0.14
26 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (24 bp):
CAGTAAGCTCTTCTGAGCTGAAAA
Found at i:23009964 original size:47 final size:48
Alignment explanation
Indices: 23009875--23009979 Score: 153
Period size: 47 Copynumber: 2.2 Consensus size: 48
23009865 GAGACATGGC
*
23009875 CAGTAAGCTCTTCAAGAGCTGATAACAGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTTCAAGAGCTGAAAACAGTAAGCTCTATTGAGCT-AAAA
*
23009924 CAGTAAGCTCTTC-TGAGCT-AAAACAGTAAGCTCT-TCTGAGCTAAAA
1 CAGTAAGCTCTTCAAGAGCTGAAAACAGTAAGCTCTAT-TGAGCTAAAA
23009970 CAGTAAGCTC
1 CAGTAAGCTC
23009980 ATACAAGCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
46 15 0.28
47 20 0.38
48 5 0.09
49 13 0.25
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (48 bp):
CAGTAAGCTCTTCAAGAGCTGAAAACAGTAAGCTCTATTGAGCTAAAA
Found at i:23014723 original size:46 final size:46
Alignment explanation
Indices: 23014673--23014801 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
23014663 TGGTTGAGCA
23014673 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT
23014718 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT
* * *
23014765 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23014802 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
46 78 0.99
47 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT
Found at i:23021777 original size:46 final size:46
Alignment explanation
Indices: 23021727--23021902 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
23021717 TGGTTGAGCA
*
23021727 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23021773 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23021818 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23021866 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23021903 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23021883 original size:93 final size:93
Alignment explanation
Indices: 23021724--23021895 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
23021714 GGATGGTTGA
* * *
23021724 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23021789 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23021817 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23021882 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
23021896 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23033658 original size:48 final size:48
Alignment explanation
Indices: 23033450--23033862 Score: 254
Period size: 46 Copynumber: 8.7 Consensus size: 48
23033440 TAGGGTGTAA
* * * * *
23033450 TGCCGATGTCATGTCCCAGACATGGTCTTACATTGGCTTATCCATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTAT-ACG
* * *
23033499 T--CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATA-CG
* * * * * *
23033545 AGGTCGACGCCATGTTCCTAAACATGGTCTTACACTGGCTC-TCACATATCCG
1 -TGCCGATGCCATG-TCCCAGACATGGTCTTACACTGGCTCAT--C-TATACG
* *
23033597 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATACG
* * * * * *
23033645 TGCCGATGCCATGTCTCAAACATGGTCTTACATTGACACATCT-CAC-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATACG
* * * **
23033691 AGCCGATG-CATGTCCCAGAGAT-GTCTTACATTGGCTTACATCTCGA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCTATACG
* * *
23033738 -GCTGATG-CATG-CCCTAGACAT-GTCTTACAATAGGTCTCGTCTCA-A--
1 TGCCGATGCCATGTCCC-AGACATGGTCTTACACT-GG-CTCATCT-ATACG
* *
23033783 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TC-ATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTAT-ACG
*
23033830 TGGCCGATG-CATGTCCCAGACA-AGTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
23033863 AGCGCACAAA
Statistics
Matches: 293, Mismatches: 44, Indels: 57
0.74 0.11 0.14
Matches are distributed among these distances:
43 1 0.00
44 12 0.04
45 18 0.06
46 65 0.22
47 62 0.21
48 63 0.22
49 11 0.04
50 46 0.16
51 11 0.04
52 3 0.01
53 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATACG
Found at i:23033862 original size:46 final size:46
Alignment explanation
Indices: 23033451--23033862 Score: 167
Period size: 48 Copynumber: 8.7 Consensus size: 46
23033441 AGGGTGTAAT
* *
23033451 GCCGATGTCATGTCCCAGACATGGTCTTACATTGGCTTATCCATCAA-GT-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TCT-CAT-AATGTG
* * *
23033500 --CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGA-AATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATAAT-GTG
* * * * *
23033547 GTCGACGCCATGTTCCTAAACATGGTCTTACACTGGCTCTCACATATCCGT-
1 GCCGATG-CATG-TCCCAGACAT-GTCTTACACTGGCTCTCATA-AT--GTG
* *
23033598 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCCTC-TATACGT-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-CTCATA-ATGTG
* * * * * * **
23033646 GCCGATGCCATGTCTCAAACATGGTCTTACATTGACACATC-TCA--CA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCATAATGTG
* * * *
23033692 GCCGATGCATGTCCCAGAGATGTCTTACATTGGCT-TACAT-CTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GTG
* *
23033738 GCTGATGCATG-CCCTAGACATGTCTTACAATAGGTCTCGTC-TCAA--T-
1 GCCGATGCATGTCCC-AGACATGTCTTACACT-GG-CTC-TCAT-AATGTG
*
23033784 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTG
*
23033832 GCCGATGCATGTCCCAGACAAGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
23033863 AGCGCACAAA
Statistics
Matches: 290, Mismatches: 41, Indels: 67
0.73 0.10 0.17
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 15 0.05
45 19 0.07
46 56 0.19
47 59 0.20
48 60 0.21
49 11 0.04
50 51 0.18
51 15 0.05
52 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTG
Found at i:23042394 original size:33 final size:33
Alignment explanation
Indices: 23042349--23042414 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
23042339 CAAAAAATTA
*
23042349 TCAATACGTGGCCAAATGGTATTGATACTTTTT
1 TCAATACATGGCCAAATGGTATTGATACTTTTT
23042382 TCAATACATGGCCAAATGGTATTGATACTTTTT
1 TCAATACATGGCCAAATGGTATTGATACTTTTT
23042415 GGCCAGGAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (33 bp):
TCAATACATGGCCAAATGGTATTGATACTTTTT
Found at i:23044631 original size:20 final size:20
Alignment explanation
Indices: 23044589--23044637 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
23044579 AACCCTCGTG
* **
23044589 GTATCGATATTTTTCCACGA
1 GTATCGATATTTTTACAAAA
*
23044609 GTATCGATATTTTTATAAAA
1 GTATCGATATTTTTACAAAA
23044629 GTATCGATA
1 GTATCGATA
23044638 CCAAATTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:23057111 original size:43 final size:42
Alignment explanation
Indices: 23057064--23057203 Score: 151
Period size: 44 Copynumber: 3.3 Consensus size: 42
23057054 TTCTAGACGT
* *
23057064 GGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGATAG
1 GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGA-AG
** *
23057107 GGTCTTACACAAAATCAAATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGA-AG
*
23057149 GGTCTTACATGTAAATCATAA-ATCGATGCCAATGTCCCA-AACG
1 GGTCTTACACGT-AATCA-AATATCGATGCCAATGTCCCAGAA-G
23057192 TGGTCTTACACG
1 -GGTCTTACACG
23057204 AAAACACATA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 28 0.35
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGAAG
Found at i:23057187 original size:44 final size:42
Alignment explanation
Indices: 23057058--23057201 Score: 148
Period size: 42 Copynumber: 3.4 Consensus size: 42
23057048 CCAACGTTCT
* * *
23057058 AGACGTGGTCTTACACGT-AATCAAATATCAATGCCACTGTCCC
1 AGACATGGTCTTACA-GTAAATCAAA-ATCGATGCCAATGTCCC
* * **
23057101 AGATAGGGTCTTACACAAAATC-AAATACGATGCCAATGTCCC
1 AGACATGGTCTTACAGTAAATCAAAAT-CGATGCCAATGTCCC
23057143 AGACATGGTCTTACATGTAAATCATAAATCGATGCCAATGTCCC
1 AGACATGGTCTTACA-GTAAATCA-AAATCGATGCCAATGTCCC
* *
23057187 AAACGTGGTCTTACA
1 AGACATGGTCTTACA
23057202 CGAAAACACA
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 28 0.34
43 21 0.25
44 28 0.34
45 4 0.05
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
AGACATGGTCTTACAGTAAATCAAAATCGATGCCAATGTCCC
Done.