Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 74 of 226
Found at i:23667875 original size:115 final size:113
Alignment explanation
Indices: 23667752--23667971 Score: 248
Period size: 114 Copynumber: 1.9 Consensus size: 113
23667742 TCTCGTGAAC
* *** *
23667752 GCCACTAATTCCAGTATACATCAAGTTTTAAACACAGCGTTTCGGT-TAATATATCTTGCGGCGC
1 GCCACTAATTCCAATATACATCAA-TACCAAACACAGCGTTTCGGTGT-ACATATCTTGCGGCGC
*
23667816 TTCTAA-GAAAGCGCCGCTAATAGT-ATACTTTAGCGGCGTTTTCCAATAAGT
64 -T-TAACGAAAGCGCCGCTAATACTGATA-TTTAGCGGCGTTTTCCAATAAGT
* * * * * * *
23667867 GCCACTAATTCTAATATACCTTAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTT
1 GCCACTAATTCCAATATACATCAATACCAAACACAGCGTTTCGGTGTACATATCTTGCGGCGCTT
23667932 AACTGAAAGCGCCGCTAATACTGATATTTAGCGGCGTTTT
66 AAC-GAAAGCGCCGCTAATACTGATATTTAGCGGCGTTTT
23667972 ATTGTAAGCG
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
112 3 0.03
113 1 0.01
114 60 0.68
115 24 0.27
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (113 bp):
GCCACTAATTCCAATATACATCAATACCAAACACAGCGTTTCGGTGTACATATCTTGCGGCGCTT
AACGAAAGCGCCGCTAATACTGATATTTAGCGGCGTTTTCCAATAAGT
Found at i:23667945 original size:114 final size:112
Alignment explanation
Indices: 23667802--23668162 Score: 365
Period size: 114 Copynumber: 3.2 Consensus size: 112
23667792 TTCGGTTAAT
* *
23667802 ATATCTTGCGGCGCTTCTAAGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTCCAATAAGT
1 ATATCTTGCGGCGCTTCT-AGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTCC-GTAAGC
* *
23667867 GCCACTAATTCTAATATACCTTAATACCAAACTCTGCGTTTTGGTGTGC
64 GCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTGTGC
* **
23667916 ATATCTTGCGGCGCTTAACT-GAAAGCGCCGCTAATACTGATA-TTTAGCGGCGTTTTATTGTAA
1 ATATCTTGCGGCGCTT--CTAGAAAGCGCCGCTAATAGT-ATACTTTAGCGGCGTTTT-CCGTAA
* * * * *
23667979 GCGCCACTAATTATATTATACATCAAGACCAAAACGT-AGAGTTTTGGT-TAAG-
62 GCGCCACTAATTCTAATATACCTCAAGACC-AAAC-TCTGCGTTTTGGTGT--GC
* * * ** *
23668031 AAATATAGCGGCGCTTCTCCAAACGCGCTGCTAATAGTACT-CTTTAGCGGCGTTTTCCGTAAGC
1 ATATCTTGCGGCGCTTCTAGAAA-GCGCCGCTAATAGTA-TACTTTAGCGGCGTTTTCCGTAAGC
* * *
23668095 ACCACTAATCCTAATATACCTCAAGATCAAACTCTGCGTTTTGGTGTGC
64 GCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTGTGC
* *
23668144 ATATCTTGTGGCGATTCTA
1 ATATCTTGCGGCGCTTCTA
23668163 AAAAATCGTA
Statistics
Matches: 198, Mismatches: 34, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
112 2 0.01
113 28 0.14
114 108 0.55
115 56 0.28
116 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (112 bp):
ATATCTTGCGGCGCTTCTAGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTCCGTAAGCGC
CACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTGTGC
Found at i:23668293 original size:75 final size:75
Alignment explanation
Indices: 23668170--23668371 Score: 332
Period size: 75 Copynumber: 2.7 Consensus size: 75
23668160 CTAAAAAATC
23668170 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
1 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
23668235 GCCACTAATT
66 GCCACTAATT
23668245 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
1 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
23668310 GCCACTAATT
66 GCCACTAATT
* * * * * * * *
23668320 CTAATATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGCGGC
1 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGC
23668372 GCTTTTAGTA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 119 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (75 bp):
GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
GCCACTAATT
Found at i:23668503 original size:113 final size:113
Alignment explanation
Indices: 23668305--23668578 Score: 293
Period size: 113 Copynumber: 2.4 Consensus size: 113
23668295 GCACTTCTAT
* * ** * *
23668305 TAAGCGCCACTAATTCTAATATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGCG
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTCGTTAACATATTTTGCG
** * * * **
23668370 GCGCTTTTAGTAAACGCCGCTAATACTTGTTTTA-CTGGCGTTTTTTTG
66 GCGCTTCCAGCAAACGCCGCTAATACTTGCTTTAGC-GGCGTTTTATCA
* * *
23668418 TAAGCGCCACTAATTCTAATATACATCGATACCAAAACGATGCATTTTCGTTAAGAT-TTTTGCG
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTCGTTAACATATTTTGCG
* *
23668482 GCGCTTCCCA-CAATGCGCCGCTATTACTTGCTTTAGCGGCGTTTTATCA
66 GCGCTT-CCAGCAA-ACGCCGCTAATACTTGCTTTAGCGGCGTTTTATCA
* * ** *
23668531 TAATCGCCACTAATTATTGTATACATCAATACAAAAACGATGCGTTTT
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTT
23668579 GGTCTTGAGA
Statistics
Matches: 133, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
112 15 0.11
113 117 0.88
114 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (113 bp):
TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTCGTTAACATATTTTGCG
GCGCTTCCAGCAAACGCCGCTAATACTTGCTTTAGCGGCGTTTTATCA
Found at i:23668659 original size:115 final size:113
Alignment explanation
Indices: 23668306--23668659 Score: 276
Period size: 113 Copynumber: 3.1 Consensus size: 113
23668296 CACTTCTATT
* * ** * * **
23668306 AAGCGCCACTAATTCTAATATACATCAAGATC-AAAACTCTGCGTTTTGGTTATCATATTTTGCG
1 AAGCGCCACTAATTATAATATACATCAATA-CAAAAACGATGCATTTTCGTTAAGAT-TTTTGCG
*** ** *
23668370 GCGCT-TTTAGTAAACGCCGCTAATACTTG-TTTTACTGGCGTTTTT-TTG
64 GCGCTAACCACAAAACGCCGCTATTACTTGCTTTTAC-GGCGTTTTTCTTG
* * *
23668418 TAAGCGCCACTAATTCTAATATACATCGATACCAAAACGATGCATTTTCGTTAAGATTTTTGCGG
1 -AAGCGCCACTAATTATAATATACATCAATACAAAAACGATGCATTTTCGTTAAGATTTTTGCGG
** ** *
23668483 CGCTTCCCACAATGCGCCGCTATTACTTGC-TTTAGCGGCGTTTTATCAT-
65 CGCTAACCACAAAACGCCGCTATTACTTGCTTTTA-CGGCGTTTT-TCTTG
* ** * * *
23668532 AATCGCCACTAATTATTGTATACATCAATACAAAAACGATGCGTTTTGGTCTTGAGA-TTTTGCG
1 AAGCGCCACTAATTATAATATACATCAATACAAAAACGATGCATTTTCG--TTAAGATTTTTGCG
*
23668596 GCGCATAACCA-AAAACGCCGCTACTTA-TGTTCTTTTACGGCGTTTTTCTTG
64 GCGC-TAACCACAAAACGCCGCTA-TTACT-TGCTTTTACGGCGTTTTTCTTG
*
23668647 AAGCGCCGCTAAT
1 AAGCGCCACTAAT
23668660 GCCAGATATT
Statistics
Matches: 194, Mismatches: 34, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
112 13 0.07
113 115 0.59
114 27 0.14
115 35 0.18
116 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (113 bp):
AAGCGCCACTAATTATAATATACATCAATACAAAAACGATGCATTTTCGTTAAGATTTTTGCGGC
GCTAACCACAAAACGCCGCTATTACTTGCTTTTACGGCGTTTTTCTTG
Found at i:23670452 original size:71 final size:71
Alignment explanation
Indices: 23670336--23670476 Score: 255
Period size: 71 Copynumber: 2.0 Consensus size: 71
23670326 TCCCATAGAT
*
23670336 AGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGAATGTAAATATAATGTGCTATAAAC
1 AGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGAATGTAAATATAATGTGCTATAAAA
23670401 TTTATA
66 TTTATA
* *
23670407 AGATTAAGAAAAGGTAATATATTATTCCATCCTAATTAAGCATGTAAATATAATGTGCTATAAAA
1 AGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGAATGTAAATATAATGTGCTATAAAA
23670472 TTTAT
66 TTTAT
23670477 TATATTTCAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (71 bp):
AGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGAATGTAAATATAATGTGCTATAAAA
TTTATA
Found at i:23672460 original size:21 final size:23
Alignment explanation
Indices: 23672406--23672460 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 23
23672396 GTAAACATTA
23672406 AAAATTTTA-AGATAACATTATAT
1 AAAATTTTAGA-ATAACATTATAT
23672429 AAAA-TTT-GAATAA-A-TATAT
1 AAAATTTTAGAATAACATTATAT
23672448 AAAATTTTAGAAT
1 AAAATTTTAGAAT
23672461 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 9 0.31
20 4 0.14
21 8 0.28
22 4 0.14
23 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (23 bp):
AAAATTTTAGAATAACATTATAT
Found at i:23676421 original size:19 final size:19
Alignment explanation
Indices: 23676397--23676438 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23676387 AAAAGAATCT
*
23676397 AAAAAAAAGTAAAAAAATA
1 AAAAAAAAATAAAAAAATA
**
23676416 AAAAAAAAATACGAAAATA
1 AAAAAAAAATAAAAAAATA
23676435 AAAA
1 AAAA
23676439 CAACACCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAAAAAAATAAAAAAATA
Found at i:23676665 original size:25 final size:24
Alignment explanation
Indices: 23676637--23676688 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 24
23676627 AGGCCGTACA
23676637 GTGCTGACGTGGA-AGACTGGCGGTG
1 GTGCTGACGTGGAGAG-C-GGCGGTG
23676662 GTGCTGACGTGGAGAGCGGCGGTG
1 GTGCTGACGTGGAGAGCGGCGGTG
23676686 GTG
1 GTG
23676689 GCTAGGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 10 0.38
25 14 0.54
26 2 0.08
ACGTcount: A:0.13, C:0.15, G:0.52, T:0.19
Consensus pattern (24 bp):
GTGCTGACGTGGAGAGCGGCGGTG
Found at i:23676687 original size:24 final size:25
Alignment explanation
Indices: 23676637--23676688 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
23676627 AGGCCGTACA
23676637 GTGCTGACGTGGAAGACTGGCGGTG
1 GTGCTGACGTGGAAGACTGGCGGTG
23676662 GTGCTGACGTGG-AGAGC-GGCGGTG
1 GTGCTGACGTGGAAGA-CTGGCGGTG
23676686 GTG
1 GTG
23676689 GCTAGGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.13, C:0.15, G:0.52, T:0.19
Consensus pattern (25 bp):
GTGCTGACGTGGAAGACTGGCGGTG
Found at i:23676858 original size:20 final size:19
Alignment explanation
Indices: 23676817--23676877 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
23676807 AAAAAATGAG
23676817 TTTTGTATTTATTATATTT
1 TTTTGTATTTATTATATTT
23676836 TTTTGTATTTTATTAT-TTAT
1 TTTTGTA-TTTATTATATT-T
*
23676856 TTTTACGAATTTATT-TATTT
1 TTTT--GTATTTATTATATTT
23676876 TT
1 TT
23676878 ATTTGGGGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 9 0.25
20 17 0.47
21 8 0.22
22 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTGTATTTATTATATTT
Found at i:23677325 original size:89 final size:89
Alignment explanation
Indices: 23677215--23677524 Score: 270
Period size: 89 Copynumber: 3.5 Consensus size: 89
23677205 CTATAATTTA
* * *
23677215 TAGCCTCAACCTGTTCCACTACAACTTTAGGGAAATAGGATTCGCTATCTTTAGTCTGCTCCACT
1 TAGCCTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCACT
* *
23677280 GCAATTTTAGGGAGATAAAACTAG
66 GCAACTTCAGGGAGATAAAACTAG
* * * * *
23677304 TAGCCTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGC---CATGA-TCTGCTCTACT
1 TAGCCTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCACT
* * * *
23677365 ACAACTTCAGAGAGATAAGATATGTTATT
66 GCAACTTCAGGGAGATAA-A-A--CTA-G
* * * * * *
23677394 TAGCTTCAAT-TCGTTCTACTGCAACTTTAGGGAAATAAGATTCGCTATCTGTAGTCTGCTCCGC
1 TAGCCTCAATCT-GCTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCAC
* *
23677458 TGCAACTTCAGGGAGATAAGACTTG
65 TGCAACTTCAGGGAGATAAAACTAG
* * * * * * *
23677483 TAACTTTAATCTACTCCGCTGCAACTTTAGGGAGATAAGATT
1 TAGCCTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATT
23677525 TGCCATGATC
Statistics
Matches: 172, Mismatches: 38, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
85 24 0.14
86 4 0.02
87 1 0.01
89 76 0.44
90 39 0.23
92 1 0.01
93 2 0.01
94 25 0.15
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (89 bp):
TAGCCTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCACT
GCAACTTCAGGGAGATAAAACTAG
Found at i:23677336 original size:44 final size:41
Alignment explanation
Indices: 23677269--23677382 Score: 113
Period size: 41 Copynumber: 2.7 Consensus size: 41
23677259 CTATCTTTAG
* * *
23677269 TCTGCTCCACTGCAATTTTAGGGAGATAAAACTAGTAGCC-TCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAAA-T--TAGCCAT-AA
* * *
23677313 TCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATGA
1 TCTGCTCCACTACAACTTCAGGGAGATAAAATTAGCCATAA
* *
23677354 TCTGCTCTACTACAACTTCAGAGAGATAA
1 TCTGCTCCACTACAACTTCAGGGAGATAA
23677383 GATATGTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 32 0.52
42 1 0.02
43 1 0.02
44 27 0.44
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAAATTAGCCATAA
Found at i:23677473 original size:179 final size:181
Alignment explanation
Indices: 23677133--23677538 Score: 521
Period size: 179 Copynumber: 2.3 Consensus size: 181
23677123 TACCTTCAGC
* * * * * * *
23677133 CTACTCCACTGCAACCTCAGAGAGATAGGGTTTGCTATGATCTACTCTACTAGAACTTCAGAGAG
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTACAACTTCAGAGAG
* *
23677198 ATAAGATCTATAATTTATAGCCTCAACCTGTTCCACTACAACTTTAGGGAAATAGGATTCGCTAT
66 ATAAGATATATAATTTATAGCCTCAACCTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTAT
* * * *
23677263 CTTTAGTCTGCTCCACTGCAATTTTAGGGAGATAAAACTAGTAGCCTCAAT
131 CTGTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGTAACCTCAAT
* * *
23677314 CTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTACAACTTCAGAGAG
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTACAACTTCAGAGAG
* * * * * *
23677379 ATAAGATATGTTA-TT-TAGCTTCAA-TTCGTTCTACTGCAACTTTAGGGAAATAAGATTCGCTA
66 ATAAGATATATAATTTATAGCCTCAACCT-GTTCCACTACAACTTTAGGGAAATAAGATTCGCTA
* * * * *
23677441 TCTGTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTTAAT
130 TCTGTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGTAACCTCAAT
* *
23677493 CTACTCCGCTGCAACTTTAGGGAGATAAGATTTGCCATGATCTGCT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTGCT
23677539 TGTTCATTAA
Statistics
Matches: 192, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
178 1 0.01
179 124 0.65
180 2 0.01
181 65 0.34
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (181 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTACAACTTCAGAGAG
ATAAGATATATAATTTATAGCCTCAACCTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTAT
CTGTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGTAACCTCAAT
Found at i:23677515 original size:44 final size:45
Alignment explanation
Indices: 23677412--23677524 Score: 149
Period size: 44 Copynumber: 2.5 Consensus size: 45
23677402 ATTCGTTCTA
* * * *
23677412 CTGCAACTTTAGGGAAATAAGATTCGCTATCTGTAGTCTGCTCCG
1 CTGCAACTTTAGGGAGATAAGATTCGCTAACTGTAATCTACTCCG
* *
23677457 CTGCAACTTCAGGGAGATAAGACTT-G-TAACTTTAATCTACTCCG
1 CTGCAACTTTAGGGAGATAAGA-TTCGCTAACTGTAATCTACTCCG
23677501 CTGCAACTTTAGGGAGATAAGATT
1 CTGCAACTTTAGGGAGATAAGATT
23677525 TGCCATGATC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 2 0.03
44 35 0.58
45 21 0.35
46 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (45 bp):
CTGCAACTTTAGGGAGATAAGATTCGCTAACTGTAATCTACTCCG
Found at i:23679237 original size:12 final size:11
Alignment explanation
Indices: 23679224--23679267 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
23679214 GGCCTCTCCT
23679224 TTTTCTTTTCC
1 TTTTCTTTTCC
23679235 TTTTCTTTTTCC
1 TTTTC-TTTTCC
*
23679247 TTCTCTTTT-C
1 TTTTCTTTTCC
23679257 TTTTCTTTTCC
1 TTTTCTTTTCC
23679268 CATCATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
11 10 0.34
12 10 0.34
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTCTTTTCC
Found at i:23679242 original size:5 final size:5
Alignment explanation
Indices: 23679224--23679266 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
23679214 GGCCTCTCCT
*
23679224 TTTTC TTTTCC TTTTC TTTTTCC TTCTC TTTTC TTTTC TTTTC
1 TTTTC TTTT-C TTTTC -TTTT-C TTTTC TTTTC TTTTC TTTTC
23679267 CCATCATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 20 0.61
6 12 0.36
7 1 0.03
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:23679244 original size:17 final size:17
Alignment explanation
Indices: 23679222--23679267 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
23679212 TTGGCCTCTC
23679222 CTTTTTCTTTTCCTTTT
1 CTTTTTCTTTTCCTTTT
*
23679239 CTTTTTC-CTTCTCTTTT
1 CTTTTTCTTTTC-CTTTT
23679256 C-TTTTCTTTTCC
1 CTTTTTCTTTTCC
23679268 CATCATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
CTTTTTCTTTTCCTTTT
Found at i:23679282 original size:22 final size:22
Alignment explanation
Indices: 23679229--23679283 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
23679219 CTCCTTTTTC
* * *
23679229 TTTTCCTTTTCTTTTTCCTTCTC
1 TTTT-CTTTTCTTTTCCCATCTA
23679252 TTTTCTTTTCTTTTCCCATC-A
1 TTTTCTTTTCTTTTCCCATCTA
23679273 TTTTCATTTTC
1 TTTTC-TTTTC
23679284 ATATTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 19 0.68
23 4 0.14
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTCTTTTCTTTTCCCATCTA
Found at i:23684750 original size:30 final size:30
Alignment explanation
Indices: 23684715--23684774 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23684705 ATGCAAAGTA
*
23684715 TGATACACAATCAAAATCGAGTCTCAGTCG
1 TGATACACAATCAAAACCGAGTCTCAGTCG
23684745 TGATACACAATCAAAACCGAGTCTCAGTCG
1 TGATACACAATCAAAACCGAGTCTCAGTCG
23684775 AGCTTACGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (30 bp):
TGATACACAATCAAAACCGAGTCTCAGTCG
Found at i:23686077 original size:22 final size:23
Alignment explanation
Indices: 23686051--23686134 Score: 86
Period size: 22 Copynumber: 3.8 Consensus size: 23
23686041 ACCCTACCAA
23686051 AGAGCAAC-GAAGTGCTAAACAG
1 AGAGCAACAGAAGTGCTAAACAG
* *
23686073 AGAGC-ACAAAAGTGCTAATCAG
1 AGAGCAACAGAAGTGCTAAACAG
* * *
23686095 AGAGC-ACCGAAGTGCTGAACAA
1 AGAGCAACAGAAGTGCTAAACAG
*
23686117 AGAG-TACAGAAGTGCTAA
1 AGAGCAACAGAAGTGCTAA
23686135 TCAATTAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 2 0.04
22 49 0.96
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.12
Consensus pattern (23 bp):
AGAGCAACAGAAGTGCTAAACAG
Found at i:23686130 original size:44 final size:44
Alignment explanation
Indices: 23686051--23686137 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
23686041 ACCCTACCAA
*
23686051 AGAGCAACGAAGTGCTAAACAGAGAGCACAAAAGTGCTAATCAG
1 AGAGCAACGAAGTGCTAAACAAAGAGCACAAAAGTGCTAATCAG
* * * *
23686095 AGAGCACCGAAGTGCTGAACAAAGAGTACAGAAGTGCTAATCA
1 AGAGCAACGAAGTGCTAAACAAAGAGCACAAAAGTGCTAATCA
23686138 ATTAATAGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (44 bp):
AGAGCAACGAAGTGCTAAACAAAGAGCACAAAAGTGCTAATCAG
Found at i:23693457 original size:17 final size:17
Alignment explanation
Indices: 23693435--23693468 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23693425 ACTTGAAATA
*
23693435 AAAAATATCAAAATAAT
1 AAAAATAACAAAATAAT
*
23693452 AAAAATAACAACATAAT
1 AAAAATAACAAAATAAT
23693469 TCAAAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATAACAAAATAAT
Found at i:23695026 original size:27 final size:26
Alignment explanation
Indices: 23694996--23695053 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
23694986 AACCTAATGT
* *
23694996 TAATAACAATAATCAAAATAACTATGA
1 TAATAAAAATAATCAAAATAAATAT-A
**
23695023 TAATAAAAATAATCCTAATAAATATA
1 TAATAAAAATAATCAAAATAAATATA
23695049 TAATA
1 TAATA
23695054 CTAATAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (26 bp):
TAATAAAAATAATCAAAATAAATATA
Found at i:23695057 original size:17 final size:15
Alignment explanation
Indices: 23695023--23695066 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
23695013 ATAACTATGA
*
23695023 TAATAAAAATAATCC
1 TAATAAAAATAATAC
23695038 TAATAAATATATAATAC
1 TAATAAA-A-ATAATAC
23695055 TAATAAACAATA
1 TAATAAA-AATA
23695067 TAGTAGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 4 0.16
17 14 0.56
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAAAAATAATAC
Found at i:23698930 original size:19 final size:18
Alignment explanation
Indices: 23698906--23698941 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23698896 AACAAACAAA
*
23698906 AAATTATAATATAAAAATT
1 AAATTAGAA-ATAAAAATT
23698925 AAATTAGAAATAAAAAT
1 AAATTAGAAATAAAAAT
23698942 AAAAAATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATTAGAAATAAAAATT
Found at i:23702482 original size:15 final size:15
Alignment explanation
Indices: 23702462--23702490 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23702452 CCCTTGATAG
23702462 TTCATACTCCACACC
1 TTCATACTCCACACC
23702477 TTCATACTCCACAC
1 TTCATACTCCACAC
23702491 GTTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.45, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCATACTCCACACC
Found at i:23710303 original size:18 final size:20
Alignment explanation
Indices: 23710262--23710303 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
23710252 AAAATGGAAT
* *
23710262 ATTTAATATAAATAATATAT
1 ATTTAATATAAATAATAGAA
23710282 ATTT-ATAT-AATAATAGAA
1 ATTTAATATAAATAATAGAA
23710300 ATTT
1 ATTT
23710304 TAAAAGACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTAATATAAATAATAGAA
Found at i:23712287 original size:100 final size:100
Alignment explanation
Indices: 23712114--23712887 Score: 865
Period size: 100 Copynumber: 8.0 Consensus size: 100
23712104 AACTTTTGGA
** * * ** *
23712114 AAGTAAGATTCGCCATTGTGGCCTTAATCTTTTTAACTGCAATGTCCAGGAATCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
*
23712179 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAAGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *
23712214 AAGTAGGATTCGCTGTTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGG-AGCCAAGATTCACC
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAG-CAAGATTCACC
* * * ** *
23712278 GTTGTGGCTTTAATCTGCTCTACTGCATTGCCAGAG
65 GATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * * * * * *
23712314 AGGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATATCTGGGAAGC--GATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
23712377 ATGTGGCTTTAATCCGTTCCACTGCATCGCCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * *
23712412 GAGATAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTCACT
1 AAG-TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC
* *
23712477 GATTTGGCTTTAATCTGTTCCACTGCACCGCCATGG
65 GATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * * * *
23712513 AAGTATGATTTGATGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAG--TGATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
*
23712576 ATGTGGCTTTAATCTATTCCACTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* *
23712611 AAGTAAGATTCACTGTTGTAGCTTTAA------T--CTGCAATGTTGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
*
23712668 ATGTGGCTTTAATCTGTTCCACTGCACCGCTAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * *
23712703 AAGTAAAATTTGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC-A-ATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
23712766 ATGTGGCTTTAATCTCTTCCAATGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *
23712801 AAGTAAAACTCGCTGTTGTAGCTTTAA------T--CTGCAATGTCGGGGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
23712858 TTGTGGCTTTAATCTGTTTCACTACACCGC
66 ATGTGGCTTTAATCTGTTCCACTGCACCGC
23712888 TTGGGAGATA
Statistics
Matches: 570, Mismatches: 87, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
90 33 0.06
91 1 0.00
92 97 0.17
98 163 0.29
99 47 0.08
100 188 0.33
101 41 0.07
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
Found at i:23712638 original size:50 final size:50
Alignment explanation
Indices: 23712114--23712831 Score: 333
Period size: 50 Copynumber: 14.6 Consensus size: 50
23712104 AACTTTTGGA
* * * * **
23712114 AAGTAAGATTCGCCATTGTGGCCTTAATCTTTTTAACTGCAATGTCCA-GG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATG-CCAGGG
* ** *
23712164 AA-TCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAAGG
1 AAGT-AAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* * * * * ** * *
23712214 AAGTAGGATTCGCTGTTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* * * * *
23712264 -AGCCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCATTGCCAGAG
1 AAG-TAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* * * * * ** ** *
23712314 AGGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATATCTGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* ** * *
23712364 AAG--CGATTCACCAATGTGGCTTTAATCCGTTCCACTGC-ATCGCCTGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAAT-GCCAGGG
* *** * * ** ** *
23712412 GAGATAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATATCGGGG
1 AAG-TAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* * ** *
23712463 AAGCAAGATTCACTGATT-TGGCTTTAATCTGTTCCACTGCACCGCCATGG
1 AAGTAAGATTCACCG-TTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* * * * * ** *
23712513 AAGTATGATTTGA-TGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGG
1 AAGTAAGA-TTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
** * **
23712563 AAGT--GATTCACCAATGTGGCTTTAATCTATTCCACTGCACCGCCAGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* * * *
23712611 AAGTAAGATTCACTGTTGTAGCTTTAATCTG---CAATG--TTG---GGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* * ** *
23712653 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTAGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* ** ** * * ** * *
23712703 AAGTAAAATTTGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* ** * * **
23712753 AAG-CA-ATTCACCAATGTGGCTTTAATCTCTTCCAATGCACCGCCAGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
* * * * *
23712801 AAGTAAAACTCGCTGTTGTAGCTTTAATCTG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTG
23712832 CAATGTCGGG
Statistics
Matches: 478, Mismatches: 164, Indels: 52
0.69 0.24 0.07
Matches are distributed among these distances:
42 30 0.06
45 5 0.01
47 10 0.02
48 100 0.21
49 10 0.02
50 284 0.59
51 37 0.08
52 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (50 bp):
AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGG
Found at i:23712703 original size:92 final size:92
Alignment explanation
Indices: 23712544--23712887 Score: 419
Period size: 92 Copynumber: 3.7 Consensus size: 92
23712534 CTTTAATCTT
* * *
23712544 TTTAA-CTGCAATGTCAGGGAAG--TGATTCACCAATGTGGCTTTAATCTATTCCACTGCACCGC
1 TTTAATCTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGC
* *
23712606 CAGGGAAGTAAGATTCACTGTTGTAGC
66 CAGGGAAGTAAAATTCGCTGTTGTAGC
* *
23712633 TTTAATCTGCAATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGC
1 TTTAATCTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGC
* * *
23712698 TAGGGAAGTAAAATTTGCTATTGTAGC
66 CAGGGAAGTAAAATTCGCTGTTGTAGC
* *
23712725 TTTAATCTTTTTAACTGCAATGTCGGGGAAGC-A-ATTCACCAATGTGGCTTTAATCTCTTCCAA
1 TTTAA------T--CTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCAC
*
23712788 TGCACCGCCAGGGAAGTAAAACTCGCTGTTGTAGC
58 TGCACCGCCAGGGAAGTAAAATTCGCTGTTGTAGC
* ** * *
23712823 TTTAATCTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTTCACTACACCGC
1 TTTAATCTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGC
23712888 TTGGGAGATA
Statistics
Matches: 217, Mismatches: 25, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
89 5 0.02
90 33 0.15
91 1 0.00
92 96 0.44
98 64 0.29
99 1 0.00
100 17 0.08
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (92 bp):
TTTAATCTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGC
CAGGGAAGTAAAATTCGCTGTTGTAGC
Found at i:23712707 original size:190 final size:190
Alignment explanation
Indices: 23712114--23712887 Score: 877
Period size: 190 Copynumber: 4.0 Consensus size: 190
23712104 AACTTTTGGA
* ** * * *
23712114 AAGTAAGATTCGCCATTGTGGCCTTAATCTTTTTAACTGCAATGTCCA-GGAATCAAGATTCACC
1 AAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGT-CAGGGAAGC--GATTCACC
* * *
23712178 GATGTGGCTTTAATCTGTTCCACTGCACCGCCAAGGAAGTAGGATTCGCTGTTGTAGCTTTAATC
63 AATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATC
* * * * **
23712243 TTTTTAACCGCAATGTCAGGG-AGCCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCATT
128 ----T----GCAATGTCGGGGAAG-CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACC
*
23712307 GCCAGAG
184 GCCAGGG
* * * * * * * *
23712314 AGGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATATCTGGGAAGCGATTCACCAAT
1 AAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGATTCACCAAT
* * * * *
23712379 GTGGCTTTAATCCGTTCCACTGCATCGCCTGGGGAGATAAGATTCGTTGTTGTAGCTTTAATCTT
66 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAG-TAAGATTCGCTGTTGTAGCTTTAA----
* * *
23712444 TTTAACTGCAATATCGGGGAAGCAAGATTCACTGATTTGGCTTTAATCTGTTCCACTGCACCGCC
126 --T--CTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCC
*
23712509 ATGG
187 AGGG
* * *
23712513 AAGTATGATTTGATGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGTGATTCACCAAT
1 AAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGATTCACCAAT
* *
23712578 GTGGCTTTAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGC
66 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGC
* *
23712643 AATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTAGGG
131 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * *
23712703 AAGTAAAATTTGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAATTCACCAAT
1 AAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGATTCACCAAT
* * * *
23712768 GTGGCTTTAATCTCTTCCAATGCACCGCCAGGGAAGTAAAACTCGCTGTTGTAGCTTTAATCTGC
66 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGC
* * * *
23712833 AATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTTCACTACACCGC
131 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGC
23712888 TTGGGAGATA
Statistics
Matches: 496, Mismatches: 67, Indels: 32
0.83 0.11 0.05
Matches are distributed among these distances:
190 226 0.46
192 1 0.00
198 63 0.13
199 157 0.32
200 46 0.09
203 1 0.00
205 1 0.00
207 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (190 bp):
AAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGATTCACCAAT
GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGC
AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
Found at i:23713013 original size:44 final size:44
Alignment explanation
Indices: 23712961--23713218 Score: 123
Period size: 44 Copynumber: 5.6 Consensus size: 44
23712951 ATGCGATCTA
23712961 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCG
* * * * ** **
23713005 CTCTACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGATGCGATCTA
1 CTCTACTGTAATCTCAGAGAGATAAGA-T-C---CTT-TAT-T--T-TAATCCG
23713059 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCG
* * * * * * *
23713103 CTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTG
1 CTCTACTGTAATCTCAGAGAGATAAGATCCT-TTA-TTTTAATCCG
* * ** * *
23713147 CTCTGCTGTAATCTCAGGGAGATAAGAT--TTCTGGCTTCAATCTG
1 CTCTACTGTAATCTCAGAGAGATAAGATCCTT-T-ATTTTAATCCG
* *
23713191 CTCCACTGTAATCTCAGGGAGATAAGAT
1 CTCTACTGTAATCTCAGAGAGATAAGAT
23713219 TTTTGGCTTC
Statistics
Matches: 167, Mismatches: 30, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 118 0.71
45 4 0.02
46 1 0.01
47 1 0.01
48 2 0.01
49 6 0.04
50 2 0.01
51 1 0.01
52 1 0.01
53 3 0.02
54 25 0.15
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
CTCTACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCCG
Found at i:23713117 original size:98 final size:98
Alignment explanation
Indices: 23712948--23713331 Score: 481
Period size: 98 Copynumber: 4.0 Consensus size: 98
23712938 GAGATAAGAC
*
23712948 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
23713013 TAATCTCAGGGAAATAGGATTACTGGCTTCAAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
23713046 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
23713111 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
* * ** * *
23713144 C---T--G-----CTCTGCTGTAA-TCTCAGGGAGATAAGAT--TTCTGGCTTCAATCTGCTCCA
1 CTGATGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCTT-T-ATTTTAATCCGCTCCA
* ** *
23713196 CTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAAT
63 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
* * * *
23713232 CTGTTGCGATCTACTCTACTGTAACTTCAGAGAGATAA-AACCATTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
23713296 TAATCTCAAGGAGATAGGATTACTAGCTTCAAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
23713329 CTG
1 CTG
23713332 CTCCACTGTA
Statistics
Matches: 245, Mismatches: 25, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 69 0.28
91 1 0.00
93 2 0.01
95 1 0.00
97 48 0.20
98 118 0.48
99 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
Found at i:23713219 original size:44 final size:44
Alignment explanation
Indices: 23713097--23713404 Score: 293
Period size: 44 Copynumber: 6.8 Consensus size: 44
23713087 CCTTTATTTT
* * * *
23713097 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
**
23713141 AATCTGCTCTGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
*
23713185 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTTTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
* * * * *
23713229 AATCTGTTGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAAACCATTAT---TTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGA--TTTCTGGCTTC
* * * *
23713282 AATCTGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
*
23713326 AATCTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
*
23713370 AATCTGCTCCACTGTAA-CATCAGAGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
23713405 CACCATTTCT
Statistics
Matches: 217, Mismatches: 29, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.01
43 18 0.08
44 157 0.72
45 1 0.00
46 2 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 2 0.01
52 1 0.00
53 8 0.04
54 19 0.09
56 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
Found at i:23713357 original size:185 final size:186
Alignment explanation
Indices: 23712999--23713404 Score: 654
Period size: 185 Copynumber: 2.2 Consensus size: 186
23712989 CCTTTATTTT
* * * *
23712999 AATCCGCTCTACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGATGCGATCTACTCTA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGATGCGATCTACTCTA
* * *
23713064 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
66 CTGTAACTTCAGAGAGATAAGAACCATTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGG
** *
23713129 ATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
131 ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
** *
23713185 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCTGTTGCGATCTACTCTA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGATGCGATCTACTCTA
*
23713250 CTGTAACTTCAGAGAGATAA-AACCATTATTTTAATCTGCTCCACTGTAATCTCAAGGAGATAGG
66 CTGTAACTTCAGAGAGATAAGAACCATTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGG
23713314 ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
131 ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
*
23713370 AATCTGCTCCACTGTAA-CATCAGAGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
23713405 CACCATTTCT
Statistics
Matches: 204, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
184 1 0.00
185 125 0.61
186 78 0.38
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (186 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGATGCGATCTACTCTA
CTGTAACTTCAGAGAGATAAGAACCATTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGG
ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
Found at i:23714820 original size:13 final size:14
Alignment explanation
Indices: 23714804--23714851 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
23714794 CCATTTTTAC
23714804 TTTTTCATTTTCAT
1 TTTTTCATTTTCAT
*
23714818 TTTTT-ATATTCAT
1 TTTTTCATTTTCAT
23714831 TTTTTCATTTTTCACT
1 TTTTTCA-TTTTCA-T
23714847 TTTTT
1 TTTTT
23714852 TTGAGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.41
14 6 0.21
15 5 0.17
16 6 0.21
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCATTTTCAT
Found at i:23715721 original size:23 final size:23
Alignment explanation
Indices: 23715675--23715721 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
23715665 CTTTGGCCTC
* * *
23715675 TCCTTTTTTCTTTTTTTTCCTTT
1 TCCTTTTTTCTCTTCTCTCCTTT
*
23715698 TCCTTTTTTCTCTTCTCTCTTTT
1 TCCTTTTTTCTCTTCTCTCCTTT
23715721 T
1 T
23715722 TCATTTTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
TCCTTTTTTCTCTTCTCTCCTTT
Found at i:23715785 original size:33 final size:37
Alignment explanation
Indices: 23715739--23715811 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 37
23715729 CATTTTGACC
23715739 TTGACTTTGA-TTTTTCTTTTT-CTT-CT-TTTTGTT
1 TTGACTTTGATTTTTTCTTTTTGCTTGCTCTTTTGTT
* *
23715772 TTGATTTTGATTTTTTCTTTTTGCTTGCTCTTTTTTT
1 TTGACTTTGATTTTTTCTTTTTGCTTGCTCTTTTGTT
23715809 TTG
1 TTG
23715812 GATCTGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 9 0.26
34 11 0.32
35 3 0.09
36 2 0.06
37 9 0.26
ACGTcount: A:0.05, C:0.11, G:0.11, T:0.73
Consensus pattern (37 bp):
TTGACTTTGATTTTTTCTTTTTGCTTGCTCTTTTGTT
Found at i:23720530 original size:3 final size:3
Alignment explanation
Indices: 23720522--23720581 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
23720512 TAGTGACCAG
23720522 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23720570 TAA TAA TAA TAA
1 TAA TAA TAA TAA
23720582 ACCCGTTTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23724759 original size:36 final size:36
Alignment explanation
Indices: 23724719--23724787 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
23724709 TATATTATTT
23724719 TTTAAAAA-AATAA-AAATTATGAAAAA-ATAAAAACTC
1 TTTAAAAATAA-AATAAATT-T-AAAAATATAAAAACTC
23724755 TTTAAAAATAAAATAAATTTAAAAATATAAAAA
1 TTTAAAAATAAAATAAATTTAAAAATATAAAAA
23724788 ATTTCAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
35 5 0.17
36 18 0.60
37 7 0.23
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (36 bp):
TTTAAAAATAAAATAAATTTAAAAATATAAAAACTC
Found at i:23724775 original size:17 final size:17
Alignment explanation
Indices: 23724719--23724791 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 17
23724709 TATATTATTT
*
23724719 TTTAAAAAAAT-AAAAA
1 TTTAAAAATATAAAAAA
*
23724735 TTATGAAAAA-ATAAAAACTC
1 TT-T-AAAAATATAAAAA--A
23724755 TTTAAAAATA-AAATAAA
1 TTTAAAAATATAAA-AAA
23724772 TTTAAAAATATAAAAAA
1 TTTAAAAATATAAAAAA
23724789 TTT
1 TTT
23724792 CAAACTTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
16 2 0.04
17 19 0.40
18 20 0.43
19 4 0.09
20 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (17 bp):
TTTAAAAATATAAAAAA
Found at i:23732272 original size:22 final size:22
Alignment explanation
Indices: 23732214--23732272 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
23732204 GAATGGTATC
23732214 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
23732236 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
23732259 TACATATCAAATCT
1 TACAAATCAAATCT
23732273 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:23737395 original size:22 final size:22
Alignment explanation
Indices: 23737337--23737395 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
23737327 GAATGGTATC
23737337 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
23737359 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
23737382 TACATATCAAATCT
1 TACAAATCAAATCT
23737396 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:23750554 original size:12 final size:12
Alignment explanation
Indices: 23750537--23750562 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23750527 TTCATCATGG
23750537 TATCTGATTTTT
1 TATCTGATTTTT
23750549 TATCTGATTTTT
1 TATCTGATTTTT
23750561 TA
1 TA
23750563 GAATAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (12 bp):
TATCTGATTTTT
Found at i:23753786 original size:54 final size:54
Alignment explanation
Indices: 23753700--23753814 Score: 223
Period size: 54 Copynumber: 2.1 Consensus size: 54
23753690 CCATCTCATC
23753700 AGGG-GAAGGTTATTGAAAATTAAGAGATGACACATTGCTCTGTTACTCTTCCG
1 AGGGAGAAGGTTATTGAAAATTAAGAGATGACACATTGCTCTGTTACTCTTCCG
23753753 AGGGAGAAGGTTATTGAAAATTAAGAGATGACACATTGCTCTGTTACTCTTCCG
1 AGGGAGAAGGTTATTGAAAATTAAGAGATGACACATTGCTCTGTTACTCTTCCG
23753807 AGGGAGAA
1 AGGGAGAA
23753815 TTTAATTTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 4 0.07
54 57 0.93
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (54 bp):
AGGGAGAAGGTTATTGAAAATTAAGAGATGACACATTGCTCTGTTACTCTTCCG
Found at i:23774453 original size:12 final size:12
Alignment explanation
Indices: 23774438--23774481 Score: 63
Period size: 13 Copynumber: 3.7 Consensus size: 12
23774428 TAAAAAAATA
23774438 AAAAAAAACTTG
1 AAAAAAAACTTG
23774450 AAAAAAAAACTTG
1 -AAAAAAAACTTG
*
23774463 AAAAAAAA-TTC
1 AAAAAAAACTTG
23774474 AAAAAAAA
1 AAAAAAAA
23774482 AAGTTTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 10 0.33
12 8 0.27
13 12 0.40
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAAAAAACTTG
Found at i:23774453 original size:13 final size:13
Alignment explanation
Indices: 23774437--23774482 Score: 69
Period size: 12 Copynumber: 3.7 Consensus size: 13
23774427 GTAAAAAAAT
23774437 AAAAAAAAACTTG
1 AAAAAAAAACTTG
23774450 AAAAAAAAACTTG
1 AAAAAAAAACTTG
*
23774463 -AAAAAAAA-TTC
1 AAAAAAAAACTTG
23774474 AAAAAAAAA
1 AAAAAAAAA
23774483 AGTTTGTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 2 0.06
12 16 0.52
13 13 0.42
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (13 bp):
AAAAAAAAACTTG
Found at i:23774483 original size:13 final size:12
Alignment explanation
Indices: 23774429--23774483 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 12
23774419 ACGGTATTGT
23774429 AAAAAAA-TAAA
1 AAAAAAATTAAA
*
23774440 AAAAAACTTGAAA
1 AAAAAAATT-AAA
* *
23774453 AAAAAACTT-GA
1 AAAAAAATTAAA
23774464 AAAAAAATTCAAA
1 AAAAAAATT-AAA
23774477 AAAAAAA
1 AAAAAAA
23774484 GTTTGTATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 15 0.42
12 1 0.03
13 20 0.56
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.13
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:23774551 original size:13 final size:13
Alignment explanation
Indices: 23774535--23774559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23774525 AAGAAAAAAA
23774535 GAAAAAAAAATTC
1 GAAAAAAAAATTC
23774548 GAAAAAAAAATT
1 GAAAAAAAAATT
23774560 GATTGAAAAA
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:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (13 bp):
GAAAAAAAAATTC
Found at i:23780730 original size:12 final size:12
Alignment explanation
Indices: 23780713--23780737 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23780703 GGTGTTCAGT
23780713 CGGTTAACCGAC
1 CGGTTAACCGAC
23780725 CGGTTAACCGAC
1 CGGTTAACCGAC
23780737 C
1 C
23780738 CGAAATTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:23780912 original size:9 final size:9
Alignment explanation
Indices: 23780898--23780998 Score: 139
Period size: 9 Copynumber: 10.6 Consensus size: 9
23780888 TTTGGTTAAA
23780898 AATTACCCG
1 AATTACCCG
23780907 AATTACCCG
1 AATTACCCG
*
23780916 ACTTACCCG
1 AATTACCCG
23780925 AATTACCCG
1 AATTACCCG
23780934 AATTACCCG
1 AATTACCCG
23780943 AAAATTACCCG
1 --AATTACCCG
23780954 AATTACCCG
1 AATTACCCG
23780963 AAAATTACCCG
1 --AATTACCCG
23780974 AAAATTACCCG
1 --AATTACCCG
23780985 AATTACCCG
1 AATTACCCG
23780994 AATTA
1 AATTA
23780999 AATCACTACA
Statistics
Matches: 86, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
9 57 0.66
11 29 0.34
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:23780950 original size:20 final size:18
Alignment explanation
Indices: 23780898--23780998 Score: 139
Period size: 20 Copynumber: 5.3 Consensus size: 18
23780888 TTTGGTTAAA
23780898 AATTACCCGAATTACCCG
1 AATTACCCGAATTACCCG
*
23780916 ACTTACCCGAATTACCCG
1 AATTACCCGAATTACCCG
23780934 AATTACCCGAAAATTACCCG
1 AATTACCCG--AATTACCCG
23780954 AATTACCCGAAAATTACCCG
1 AATTACCCG--AATTACCCG
23780974 AAAATTACCCGAATTACCCG
1 --AATTACCCGAATTACCCG
23780994 AATTA
1 AATTA
23780999 AATCACTACA
Statistics
Matches: 77, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
18 30 0.39
20 38 0.49
22 9 0.12
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.22
Consensus pattern (18 bp):
AATTACCCGAATTACCCG
Found at i:23780972 original size:31 final size:29
Alignment explanation
Indices: 23780899--23780998 Score: 159
Period size: 31 Copynumber: 3.4 Consensus size: 29
23780889 TTGGTTAAAA
*
23780899 ATTACCCGAATTACCCG--ACTTACCCGA
1 ATTACCCGAATTACCCGAAAATTACCCGA
23780926 ATTACCCGAATTACCCGAAAATTACCCGA
1 ATTACCCGAATTACCCGAAAATTACCCGA
23780955 ATTACCCGAAAATTACCCGAAAATTACCCGA
1 ATTACCCG--AATTACCCGAAAATTACCCGA
23780986 ATTACCCGAATTA
1 ATTACCCGAATTA
23780999 AATCACTACA
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
27 17 0.25
29 22 0.32
31 29 0.43
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.22
Consensus pattern (29 bp):
ATTACCCGAATTACCCGAAAATTACCCGA
Found at i:23781027 original size:17 final size:17
Alignment explanation
Indices: 23781005--23781065 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
23780995 ATTAAATCAC
23781005 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
23781022 TACATAAATCTTTGAATCAC
1 TACAT-AA--TTAAAAACAT
*
23781042 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
23781059 TACATAA
1 TACATAA
23781066 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 17 0.53
18 2 0.06
19 2 0.06
20 11 0.34
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:23781047 original size:20 final size:20
Alignment explanation
Indices: 23781022--23781085 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
23781012 TTAAAAACAT
23781022 TACATAAATCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
*** *
23781042 TACAT-AAT-TAAAAAT-AT
1 TACATAAATCTTTGAATCAC
*
23781059 TACATAAGTCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
23781079 TACATAA
1 TACATAA
23781086 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 7 0.22
20 13 0.41
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TACATAAATCTTTGAATCAC
Found at i:23781105 original size:37 final size:37
Alignment explanation
Indices: 23780999--23781111 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
23780989 ACCCGAATTA
* *
23780999 AATCACTACATAATTAAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
23781036 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
23781073 AATCACTACATAATTAAAAATATTACACAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
23781109 AAT
1 AAT
23781112 TAAAACATAA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 6 0.08
37 67 0.92
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:23781179 original size:24 final size:24
Alignment explanation
Indices: 23781152--23781210 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
23781142 ATTCTCCATT
*
23781152 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
23781176 TATATTCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
23781200 TATCTCCATTT
1 TATATCCATTT
23781211 GCATTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:23784293 original size:16 final size:16
Alignment explanation
Indices: 23784272--23784305 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
23784262 TTTTTTTTCT
*
23784272 TACATTAATTATAATA
1 TACATTAATTACAATA
23784288 TACATTAATTACAATA
1 TACATTAATTACAATA
23784304 TA
1 TA
23784306 TTCAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
TACATTAATTACAATA
Found at i:23785230 original size:16 final size:17
Alignment explanation
Indices: 23785209--23785249 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
23785199 GCCTAAGAGA
23785209 AAATTGGGCT-GGATTT
1 AAATTGGGCTGGGATTT
*
23785225 AAATTGGGCTGGGTTTT
1 AAATTGGGCTGGGATTT
23785242 AAATTGGG
1 AAATTGGG
23785250 AGGGAGTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.24, C:0.05, G:0.34, T:0.37
Consensus pattern (17 bp):
AAATTGGGCTGGGATTT
Found at i:23785865 original size:112 final size:106
Alignment explanation
Indices: 23785641--23785845 Score: 259
Period size: 106 Copynumber: 1.9 Consensus size: 106
23785631 TTTTTATTGT
* * *
23785641 AATTTTTATGTCGTTTTTAATTTATTTTAAAATTATTTTGTTAGTAACTATTATAAATTGTTTGT
1 AATTTTTATGTCGTTTTTAATTTATTTTAAAATTATTTTGTTAGTAAATATTATAAAGTATTTGT
*
23785706 TTAATTTAATGTTTATTGTGATTTGTTAGGTTATGAATGGA
66 TTAATTTAATGTTTATTGTGATTTGTTAGGTAATGAATGGA
* * *
23785747 AATTTTTATGT-TTTTTTAAATTTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTAAG
1 AATTTTTATGTCGTTTTT-AATTTATTTTAAAATTATTTTGTTAGTAA---AT-ATTA--TAAAG
* *
23785811 TATTTGTTTAGTTTAATGTTTATTGTTATTTGTTA
59 TATTTGTTTAATTTAATGTTTATTGTGATTTGTTA
23785846 TGAATGTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
105 5 0.06
106 39 0.46
109 1 0.01
110 4 0.05
112 35 0.42
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (106 bp):
AATTTTTATGTCGTTTTTAATTTATTTTAAAATTATTTTGTTAGTAAATATTATAAAGTATTTGT
TTAATTTAATGTTTATTGTGATTTGTTAGGTAATGAATGGA
Found at i:23786125 original size:22 final size:21
Alignment explanation
Indices: 23786095--23786143 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
23786085 TATGAGATTT
*
23786095 TTTATTATAATTATATTATTA
1 TTTACTATAATTATATTATTA
* *
23786116 TTGTACTATATTTATCTTATTA
1 TT-TACTATAATTATATTATTA
23786138 TTTACT
1 TTTACT
23786144 GTATAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTACTATAATTATATTATTA
Found at i:23787872 original size:22 final size:23
Alignment explanation
Indices: 23787842--23787885 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
23787832 GTATTTATTT
*
23787842 AATTGAGATTCACTGGAACAAAG
1 AATTGAGATTCACTGCAACAAAG
*
23787865 AATT-AGATTCATTGCAACAAA
1 AATTGAGATTCACTGCAACAAA
23787886 CTTGGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (23 bp):
AATTGAGATTCACTGCAACAAAG
Found at i:23790934 original size:4 final size:4
Alignment explanation
Indices: 23790927--23790982 Score: 51
Period size: 4 Copynumber: 13.0 Consensus size: 4
23790917 TTATCTTCCC
*
23790927 CTTT CTTT CTTT CTTCT CCTT CTCTT CTTCT CTATT GCTTT CTTT -TTT
1 CTTT CTTT CTTT CTT-T CTTT CT-TT CTT-T CT-TT -CTTT CTTT CTTT
23790975 CTTT CTTT
1 CTTT CTTT
23790983 TTTTTACCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
3 3 0.07
4 25 0.57
5 13 0.30
6 3 0.07
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:23790940 original size:8 final size:8
Alignment explanation
Indices: 23790927--23790982 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 8
23790917 TTATCTTCCC
23790927 CTTTCTTT
1 CTTTCTTT
23790935 CTTTCTTCT
1 CTTTCTT-T
*
23790944 CCTTCTCTT
1 CTTTCT-TT
23790953 CTTCTCTATT
1 CTT-TCT-TT
23790963 GCTTTCTTT
1 -CTTTCTTT
23790972 -TTTCTTT
1 CTTTCTTT
23790979 CTTT
1 CTTT
23790983 TTTTTACCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
7 7 0.17
8 10 0.25
9 11 0.28
10 9 0.22
11 3 0.08
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.68
Consensus pattern (8 bp):
CTTTCTTT
Found at i:23790947 original size:18 final size:18
Alignment explanation
Indices: 23790920--23790977 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
23790910 AAACAATTTA
*
23790920 TCTTCCCCTTTCTTTCTT
1 TCTTCTCCTTTCTTTCTT
23790938 TCTTCTCC-TTCTCTTCTT
1 TCTTCTCCTTTCT-TTCTT
*
23790956 CTCTAT-TGCTTTCTTT-TT
1 -TCT-TCTCCTTTCTTTCTT
23790974 TCTT
1 TCTT
23790978 TCTTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
16 1 0.03
17 7 0.21
18 14 0.41
19 7 0.21
20 5 0.15
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.64
Consensus pattern (18 bp):
TCTTCTCCTTTCTTTCTT
Found at i:23791788 original size:17 final size:16
Alignment explanation
Indices: 23791755--23791793 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
23791745 TAATTTTACT
23791755 TTATT-ATTTTGTTAA
1 TTATTCATTTTGTTAA
23791770 TTATTCATTTTGATTAA
1 TTATTCATTTTG-TTAA
*
23791787 TTTTTCA
1 TTATTCA
23791794 CAAATGACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (16 bp):
TTATTCATTTTGTTAA
Found at i:23794319 original size:21 final size:23
Alignment explanation
Indices: 23794275--23794324 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
23794265 AAAGTATGGA
*
23794275 GAATAAATTTGTGTACAATAAAAAT
1 GAATAAATTTGTGTA-TA-AAAAAT
23794300 GAATAAATTTGTGT-TAAAAAAT
1 GAATAAATTTGTGTATAAAAAAT
23794322 GAA
1 GAA
23794325 AAAAATAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 1 0.04
25 14 0.58
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (23 bp):
GAATAAATTTGTGTATAAAAAAT
Found at i:23794336 original size:21 final size:22
Alignment explanation
Indices: 23794294--23794337 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
23794284 TGTGTACAAT
* * *
23794294 AAAAATGAATAAATTTGTGTTA
1 AAAAATGAAAAAAATAGTGTTA
23794316 AAAAATGAAAAAAATAG-GTTA
1 AAAAATGAAAAAAATAGTGTTA
23794337 A
1 A
23794338 CGAGGTGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (22 bp):
AAAAATGAAAAAAATAGTGTTA
Found at i:23808608 original size:60 final size:60
Alignment explanation
Indices: 23808515--23808635 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
23808505 AATGGAAGGG
23808515 TAGTTTTATGTACAACAACTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
1 TAGTTTTATGTACAACAACTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
*
23808575 TAGTTTTATGTACAACAATTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
1 TAGTTTTATGTACAACAACTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
23808635 T
1 T
23808636 CGAGCCACAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (60 bp):
TAGTTTTATGTACAACAACTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
Found at i:23815022 original size:21 final size:22
Alignment explanation
Indices: 23814980--23815023 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
23814970 TCTTTAGGGT
* **
23814980 ATCTTCAAGGGTGTGTTGCGAC
1 ATCTTCAAGGCTGTGTCACGAC
23815002 ATCTTC-AGGCTGTGTCACGAC
1 ATCTTCAAGGCTGTGTCACGAC
23815023 A
1 A
23815024 CTGAAAGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (22 bp):
ATCTTCAAGGCTGTGTCACGAC
Found at i:23825250 original size:10 final size:10
Alignment explanation
Indices: 23825235--23825268 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
23825225 AATATATTAT
*
23825235 ATATGATATG
1 ATATGATATA
23825245 ATATGATATA
1 ATATGATATA
*
23825255 ATATTATATA
1 ATATGATATA
23825265 ATAT
1 ATAT
23825269 ATTTAGAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (10 bp):
ATATGATATA
Found at i:23828964 original size:21 final size:20
Alignment explanation
Indices: 23828936--23828978 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
23828926 ATAGAGTACA
23828936 TTCTTGTTT-AATTATCATAT
1 TTCTTGTTTGAATTAT-ATAT
23828956 TTCTATGTTTGAATTATATAT
1 TTCT-TGTTTGAATTATATAT
23828977 TT
1 TT
23828979 AATGGATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (20 bp):
TTCTTGTTTGAATTATATAT
Found at i:23832483 original size:25 final size:25
Alignment explanation
Indices: 23832435--23832483 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
23832425 CATAATTGAA
** * *
23832435 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAAATTGATTATGAATATT
23832460 ATGAAATAAATTGATTATGAATAT
1 ATGAAATAAATTGATTATGAATAT
23832484 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (25 bp):
ATGAAATAAATTGATTATGAATATT
Found at i:23832929 original size:43 final size:43
Alignment explanation
Indices: 23832882--23832967 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
23832872 TATGTGATTG
* *
23832882 ATATTGAAATGGA-AAATATGATAAATGAATATGAGATGAGAAA
1 ATATTG-AATGAACAAATATGAGAAATGAATATGAGATGAGAAA
* * *
23832925 ATATTGAATTAACAAATATGAGAAATGATTGTGAGATGAGAAA
1 ATATTGAATGAACAAATATGAGAAATGAATATGAGATGAGAAA
23832968 TGAAATATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.51, C:0.01, G:0.21, T:0.27
Consensus pattern (43 bp):
ATATTGAATGAACAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:23833997 original size:49 final size:49
Alignment explanation
Indices: 23833918--23834014 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
23833908 TCTAGAAGGG
* * * *
23833918 ATAAATAGTAATAAGAGTGTAGATAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATGT
* *
23833967 ATAAATAGTGATAAGAGTGTAGACATTGGAAGACCAAATTTAGAAATG
1 ATAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATG
23834015 CATAGCATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (49 bp):
ATAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATGT
Found at i:23840509 original size:43 final size:43
Alignment explanation
Indices: 23840448--23840533 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
23840438 TAAGTGATTG
* *
23840448 ATATTGAAATGGCAAATATGATAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
* * * *
23840491 ATATTGAATTGACAAATATGGGAAATGATTGTGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
23840534 TGAAATATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (43 bp):
ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:23841869 original size:49 final size:49
Alignment explanation
Indices: 23841792--23841888 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
23841782 TCTAGAAGGG
* * *
23841792 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
*
23841841 ATAAATAGTGATAAGAGAGTAGATAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATG
23841889 CATAGCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:23847899 original size:49 final size:49
Alignment explanation
Indices: 23847842--23847938 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
23847832 TCCATATAAA
* * *
23847842 ACTATACTTCTTTTATTTTACATTAATTAGAATAAGGTTTTTCAACCTT
1 ACTATACTTCATCTATTTGACATTAATTAGAATAAGGTTTTTCAACCTT
*
23847891 ACTATACTTCATCTATTTGACATTTATTAGAATAAGGTTTTTCAACCT
1 ACTATACTTCATCTATTTGACATTAATTAGAATAAGGTTTTTCAACCT
23847939 ATAAATATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.46
Consensus pattern (49 bp):
ACTATACTTCATCTATTTGACATTAATTAGAATAAGGTTTTTCAACCTT
Found at i:23849756 original size:14 final size:14
Alignment explanation
Indices: 23849737--23849764 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23849727 AGACTCGGGT
23849737 TAGTTTTGATTTGG
1 TAGTTTTGATTTGG
23849751 TAGTTTTGATTTGG
1 TAGTTTTGATTTGG
23849765 CAGTGTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (14 bp):
TAGTTTTGATTTGG
Found at i:23854096 original size:45 final size:45
Alignment explanation
Indices: 23854032--23854121 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
23854022 GAGTCATTGG
*
23854032 GTATGTTGATTCTGATTTTGCTAGGGACCTTGATAAAAGAAAATC
1 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
23854077 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
1 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
23854122 TTTAATAGGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (45 bp):
GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
Found at i:23858396 original size:82 final size:83
Alignment explanation
Indices: 23858255--23858420 Score: 316
Period size: 82 Copynumber: 2.0 Consensus size: 83
23858245 AAAAAATACT
23858255 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
1 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
23858320 AATACCACAACTTCATCA
66 AATACCACAACTTCATCA
23858338 TTTTACATATGATTTAGAATATTTTAAC-AAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
1 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
*
23858402 AATACCATAACTTCATCA
66 AATACCACAACTTCATCA
23858420 T
1 T
23858421 AGCATACATA
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 54 0.66
83 28 0.34
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (83 bp):
TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
AATACCACAACTTCATCA
Found at i:23861882 original size:22 final size:22
Alignment explanation
Indices: 23861855--23861896 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23861845 CAATAATTTA
23861855 AAAAATAAGATATTTTTTGTAT
1 AAAAATAAGATATTTTTTGTAT
**
23861877 AAAAATTTGATATTTTTTGT
1 AAAAATAAGATATTTTTTGT
23861897 GGTGACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (22 bp):
AAAAATAAGATATTTTTTGTAT
Found at i:23864463 original size:59 final size:55
Alignment explanation
Indices: 23864371--23864488 Score: 191
Period size: 59 Copynumber: 2.1 Consensus size: 55
23864361 GTTAAATTTT
*
23864371 TTTAAAATATTCTAAAATAATGATTTCGGGGACCTAAATAAGTTAATTAATGATTCAAG
1 TTTAAAATATTCTAAAATAATGATTTCGGGGACC----TAAGTTAATTAACGATTCAAG
23864430 TTTAAAATATTCTAAAATAATGATTTCGGGGACCTAAGTTAATTAACGATTCAAG
1 TTTAAAATATTCTAAAATAATGATTTCGGGGACCTAAGTTAATTAACGATTCAAG
23864485 TTTA
1 TTTA
23864489 TCATACTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
55 24 0.41
59 34 0.59
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (55 bp):
TTTAAAATATTCTAAAATAATGATTTCGGGGACCTAAGTTAATTAACGATTCAAG
Found at i:23867062 original size:20 final size:20
Alignment explanation
Indices: 23867028--23867069 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23867018 AACTATTTAA
** *
23867028 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
23867048 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
23867068 AT
1 AT
23867070 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:23870489 original size:11 final size:12
Alignment explanation
Indices: 23870463--23870496 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
23870453 TTTCTTTAAA
23870463 AAATATATATAC
1 AAATATATATAC
23870475 AAATATATA-AC
1 AAATATATATAC
23870486 AAATATATATA
1 AAATATATATA
23870497 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATATATAC
Found at i:23871145 original size:3 final size:3
Alignment explanation
Indices: 23871137--23871208 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
23871127 ATAAATTTAA
*
23871137 TAT TAT TAT TATT TAT TAT TAT TAT T-T T-T TAT T-T TCCT T-T TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
23871180 CTAT TCAT TAT TAT TA- TAT TAT TA- TAT TA
1 -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
23871209 ATTAGTTTTG
Statistics
Matches: 60, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
2 12 0.20
3 37 0.62
4 11 0.18
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23871155 original size:13 final size:13
Alignment explanation
Indices: 23871137--23871208 Score: 60
Period size: 13 Copynumber: 5.4 Consensus size: 13
23871127 ATAAATTTAA
23871137 TATTATTATTATT
1 TATTATTATTATT
23871150 TATTATTATTATT
1 TATTATTATTATT
* *
23871163 TTTTATT-TTCCTTT
1 TATTATTATT--ATT
23871177 TATCTATTCATTA-T
1 TAT-TATT-ATTATT
23871191 TATTA-TATTATT
1 TATTATTATTATT
23871203 ATATTA
1 -TATTA
23871209 ATTAGTTTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
11 4 0.08
12 4 0.08
13 26 0.54
14 8 0.17
15 4 0.08
17 2 0.04
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:23871255 original size:21 final size:22
Alignment explanation
Indices: 23871222--23871265 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
23871212 AGTTTTGCAT
*
23871222 TTTTTTATATTTT-ATTTGTTTA
1 TTTTTAATATTTTAATTT-TTTA
23871244 TTTTTAAT-TTTTAATTTTTTA
1 TTTTTAATATTTTAATTTTTTA
23871265 T
1 T
23871266 ATATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTAATATTTTAATTTTTTA
Found at i:23871302 original size:20 final size:21
Alignment explanation
Indices: 23871272--23871312 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
23871262 TTATATATAT
23871272 TTATCTTATTATATCA-TTTTA
1 TTATCTTATTAT-TCACTTTTA
23871293 TTAT-TTATTATTCACTTTTA
1 TTATCTTATTATTCACTTTTA
23871313 GCTTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATCTTATTATTCACTTTTA
Found at i:23873672 original size:19 final size:19
Alignment explanation
Indices: 23873648--23873694 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23873638 ATGTTTTTTT
*
23873648 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
23873667 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
23873686 TATGCATTA
1 TTTGCATTA
23873695 AAGTCCACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:23876771 original size:22 final size:21
Alignment explanation
Indices: 23876727--23876781 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
23876717 AAAATATCTT
*
23876727 AAAAAATGAAAATGATGAAAA
1 AAAAAATGAAAATGAAGAAAA
*
23876748 AAGAAAA-GAAAATAGAAGAGAA
1 AA-AAAATGAAAAT-GAAGAAAA
23876770 AAAAAATGAAAA
1 AAAAAATGAAAA
23876782 ATGAGAGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (21 bp):
AAAAAATGAAAATGAAGAAAA
Found at i:23876788 original size:21 final size:20
Alignment explanation
Indices: 23876727--23876788 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 20
23876717 AAAATATCTT
23876727 AAAAAATGAAAATGATGA-AA
1 AAAAAATGAAAATGA-GAGAA
*
23876747 AAAGAAAAGAAAATAGAAGAGAA
1 AAA-AAATGAAAAT-G-AGAGAA
23876770 AAAAAATGAAAAATGAGAG
1 AAAAAATG-AAAATGAGAG
23876789 GCCAAGGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 8 0.23
23 11 0.31
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (20 bp):
AAAAAATGAAAATGAGAGAA
Found at i:23878123 original size:44 final size:45
Alignment explanation
Indices: 23878019--23878128 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 45
23878009 AAGTCTTATA
* *** * *
23878019 TCCCTGAAGTTGCAGCGGAGCAGACTAAAGATGGTGAATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAATGAATCCTATC
* * *
23878064 TCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT-AATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAATGAATCCTATC
23878108 TCCCTGAAGTTGCAGTGGAGC
1 TCCCTGAAGTTGCAGTGGAGC
23878129 GAATTGAAGT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 27 0.49
45 28 0.51
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (45 bp):
TCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAATGAATCCTATC
Found at i:23878152 original size:44 final size:44
Alignment explanation
Indices: 23877995--23878181 Score: 139
Period size: 44 Copynumber: 4.2 Consensus size: 44
23877985 CCCCAGAGAA
* * *
23877995 CAGATTGAAGTTACAAGTCTTATATCCCTGAAGTTGCAGCGGAG
1 CAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * *
23878039 CAGACTAAAGATGGT-GAA-TCTTATTTCCCTAAAGTTGCAGTGGAG
1 CAGATTAAAG-T--TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
** * *
23878084 CAGATTAAAGCCA-ATAATCCTATCTCCCTGAAGTTGCAGTGGAG
1 CAGATTAAAGTTACA-AGTCTTATCTCCCTGAAGTTGCAGTGGAG
* ** * * *
23878128 C-GAATTGAAGTTACAAGTCTTATCTATCTAAAGTTACAGCGGAG
1 CAG-ATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
23878172 CAGACTAAAG
1 CAGATTAAAG
23878182 CGAAGCAGAT
Statistics
Matches: 110, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 68 0.62
45 36 0.33
46 2 0.02
47 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
CAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
Found at i:23878402 original size:44 final size:44
Alignment explanation
Indices: 23878350--23878927 Score: 346
Period size: 44 Copynumber: 12.7 Consensus size: 44
23878340 GATAACCAAC
*
23878350 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAT
* *
23878394 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAT
* * *
23878438 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAATGA-TCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACT-AAT
* * * * * * * * * *
23878482 CCTATAC-CTCTGAAGTTACAGTAGATCGGATTAAATCTACCATAACGAAC
1 CTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATT-GA---A-GAT-ACTAAT
* * *
23878532 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAAT
* * * * *
23878577 CTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTATAAATTATCGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--ACTA---AT
** * * * * * *
23878628 CTTATCTATCTGAAGTTGCAGTAGAGCA-AAT-CATAT-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAT
* * * * *
23878669 CTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTAAAAATAAAC-AAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT--ACTAAT
* * * *
23878714 CTTATCTCCTTAAAGTTACAGTGGAGCAGATTGAAGACAGGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A---TACTAAT
* * * ** * *
23878763 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAT
* *
23878807 CTTATCTCCCTGAAGTTGCAGTAGG-GTAGGTTGAAGATAC-AAGT
1 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGATACTAA-T
* * *
23878851 ATTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAAT
* * *
23878896 CTTATTTCCCTAAAGTTGCAGTGGAACAGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
23878928 AAAGCTATAA
Statistics
Matches: 418, Mismatches: 81, Indels: 69
0.74 0.14 0.12
Matches are distributed among these distances:
41 24 0.06
42 1 0.00
43 11 0.03
44 170 0.41
45 102 0.24
46 5 0.01
47 5 0.01
48 3 0.01
49 40 0.10
50 31 0.07
51 26 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAT
Found at i:23879773 original size:11 final size:12
Alignment explanation
Indices: 23879749--23879779 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
23879739 CTTTAAATAT
23879749 ATATATATACAA
1 ATATATATACAA
23879761 ATATATA-ACAA
1 ATATATATACAA
23879772 ATATATAT
1 ATATATAT
23879780 TAAAAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATATATACAA
Found at i:23880423 original size:3 final size:3
Alignment explanation
Indices: 23880415--23880490 Score: 52
Period size: 3 Copynumber: 24.7 Consensus size: 3
23880405 ATAAATTTGA
* *
23880415 TAT TAT TAT TATT TAT TAT TAT TAGT TTT TAT T-T TCCT T-T TAT CTAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT -TAT
23880462 CTAT TCAT TAT TAT TA- TAT TAT TA- TAT TA
1 -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
23880491 ATTAGTTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
2 8 0.13
3 37 0.60
4 17 0.27
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:23880433 original size:13 final size:13
Alignment explanation
Indices: 23880415--23880490 Score: 61
Period size: 13 Copynumber: 5.8 Consensus size: 13
23880405 ATAAATTTGA
23880415 TATTATTATTATT
1 TATTATTATTATT
23880428 TATTATTATTAGTT
1 TATTATTATTA-TT
**
23880442 T-TTATT-TTCCT
1 TATTATTATTATT
23880453 T-TTATCTATCTATT
1 TATTAT-TAT-TATT
*
23880467 CATTATTATTATAT
1 TATTATTATTAT-T
23880481 TATTA-TATTA
1 TATTATTATTA
23880491 ATTAGTTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
11 6 0.12
12 3 0.06
13 25 0.49
14 13 0.25
15 4 0.08
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:23880587 original size:20 final size:21
Alignment explanation
Indices: 23880557--23880597 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
23880547 TTATATATAT
23880557 TTATCTTATTATATCA-TTTTA
1 TTATCTTATTAT-TCACTTTTA
23880578 TTAT-TTATTATTCACTTTTA
1 TTATCTTATTATTCACTTTTA
23880598 GCTTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATCTTATTATTCACTTTTA
Found at i:23880765 original size:19 final size:20
Alignment explanation
Indices: 23880713--23880765 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
23880703 TTTTTATAAT
*
23880713 TTTATTCATTTTCTTTATTA
1 TTTATTCATTTACTTTATTA
**
23880733 TCATTATTGTTTTACTTTA-TA
1 T--TTATTCATTTACTTTATTA
23880754 TTTATTCATTTA
1 TTTATTCATTTA
23880766 TCCATTTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
19 9 0.35
20 1 0.04
21 3 0.12
22 13 0.50
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTATTCATTTACTTTATTA
Found at i:23882073 original size:50 final size:50
Alignment explanation
Indices: 23882006--23882100 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
23881996 AATATTTAAT
23882006 ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
1 ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
*
23882056 ATATA-AATAGTATTTGCAAATGTCAAATGATAAAATTTAATATAT
1 ATATATAA-AGTATTTGCAAATGTCAAATGATAAAATTAAATATAT
23882101 ATAAATTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
49 2 0.05
50 41 0.95
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.36
Consensus pattern (50 bp):
ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
Found at i:23886097 original size:167 final size:167
Alignment explanation
Indices: 23885821--23886153 Score: 630
Period size: 167 Copynumber: 2.0 Consensus size: 167
23885811 ATTGATAATC
* *
23885821 TTACTGTCATTCATTTTACTTTGTATGCACACATAAGTACTATTATGGCATTTACTACTGGAAAT
1 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
* *
23885886 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAATTCTAAATAAT
66 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
23885951 TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
131 TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
23885988 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
1 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
23886053 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
66 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
23886118 TATATGCAATATTCGCTTCAAGGAATATGCCAAAAT
131 TATATGCAATATTCGCTTCAAGGAATATGCCAAAAT
23886154 CTTTTTTGCT
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 162 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (167 bp):
TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
Found at i:23887626 original size:20 final size:20
Alignment explanation
Indices: 23887598--23887645 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
23887588 GTTGACAAAA
23887598 CAATCACTTTGGTTTCAATT
1 CAATCACTTTGGTTTCAATT
*
23887618 CAATTACTTTGGTTTCAATT
1 CAATCACTTTGGTTTCAATT
23887638 CAATCACT
1 CAATCACT
23887646 CAACTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (20 bp):
CAATCACTTTGGTTTCAATT
Found at i:23887856 original size:30 final size:30
Alignment explanation
Indices: 23887815--23887875 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
23887805 TCGTCCTTCC
23887815 TTTTCTATTTTTTTAATAAATGACCCAATA
1 TTTTCTATTTTTTTAATAAATGACCCAATA
* * * *
23887845 TTTTTTATTTTTTTCATAAATTACCTAATA
1 TTTTCTATTTTTTTAATAAATGACCCAATA
23887875 T
1 T
23887876 GTTTATACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTTCTATTTTTTTAATAAATGACCCAATA
Found at i:23891518 original size:14 final size:14
Alignment explanation
Indices: 23891499--23891532 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23891489 TATAAAATTA
*
23891499 TAATTAACTAATAT
1 TAATTAAATAATAT
23891513 TAATTAAATAATAT
1 TAATTAAATAATAT
*
23891527 TTATTA
1 TAATTA
23891533 CGGACTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTAAATAATAT
Found at i:23906624 original size:7 final size:7
Alignment explanation
Indices: 23906612--23906670 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
23906602 TTTATCATTC
23906612 TCTTTTT
1 TCTTTTT
23906619 TC-TTTT
1 TCTTTTT
23906625 TCGTTCTTT
1 TC-TT-TTT
*
23906634 TCTTTGT
1 TCTTTTT
23906641 TCTTTATT
1 TCTTT-TT
*
23906649 TCTCATTT
1 TCT-TTTT
23906657 TC-TTTT
1 TCTTTTT
23906663 TCTTTTT
1 TCTTTTT
23906670 T
1 T
23906671 TATTTTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
6 11 0.26
7 14 0.33
8 11 0.26
9 6 0.14
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (7 bp):
TCTTTTT
Found at i:23906637 original size:22 final size:22
Alignment explanation
Indices: 23906601--23906670 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
23906591 TTCTGACTAA
* *
23906601 TTTTATCATTCTCTTTTTTC-T
1 TTTTCTCATTTTCTTTTTTCTT
*
23906622 TTTTCGTTC-TTTTCTTTGTTCTT
1 TTTTC--TCATTTTCTTTTTTCTT
23906645 TATTTCTCATTTTC-TTTTTCTT
1 T-TTTCTCATTTTCTTTTTTCTT
23906667 TTTT
1 TTTT
23906671 TATTTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 7 0.17
22 20 0.50
23 9 0.22
24 4 0.10
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (22 bp):
TTTTCTCATTTTCTTTTTTCTT
Found at i:23906650 original size:15 final size:13
Alignment explanation
Indices: 23906612--23906669 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 13
23906602 TTTATCATTC
23906612 TCTTTTTTCTTTT
1 TCTTTTTTCTTTT
23906625 TCGTTCTTTTCTTTGT
1 TC-TT-TTTTCTTT-T
23906641 TCTTTATTTCTCATTT
1 TCTTT-TTTCT--TTT
23906657 TC-TTTTTCTTTT
1 TCTTTTTTCTTTT
23906669 T
1 T
23906670 TTATTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
14 8 0.21
15 17 0.44
16 6 0.15
17 2 0.05
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (13 bp):
TCTTTTTTCTTTT
Found at i:23922686 original size:8 final size:8
Alignment explanation
Indices: 23922675--23922707 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
23922665 AACATCATAC
*
23922675 ACATTTAT
1 ACATATAT
23922683 ACATATAT
1 ACATATAT
23922691 ACATATAT
1 ACATATAT
23922699 ACATATAT
1 ACATATAT
23922707 A
1 A
23922708 TCATCTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (8 bp):
ACATATAT
Found at i:23926091 original size:30 final size:30
Alignment explanation
Indices: 23926057--23926121 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
23926047 CAACTTAACA
*
23926057 AACAAATGCCTCTAAAATTATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
23926087 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
23926117 AACAA
1 AACAA
23926122 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:23932181 original size:22 final size:23
Alignment explanation
Indices: 23932127--23932179 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
23932117 ATCAAGGTTT
*
23932127 ATAAAAAATATATTTGATTAAAA
1 ATAAAAAATATATTTCATTAAAA
23932150 ATAAAAAATATATTTCATTAAAA
1 ATAAAAAATATATTTCATTAAAA
23932173 ATAAAAA
1 ATAAAAA
23932180 TAAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAAAAAATATATTTCATTAAAA
Found at i:23934182 original size:25 final size:26
Alignment explanation
Indices: 23934137--23934185 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
23934127 ACATATTTTT
*
23934137 TCAAAATTTTACTAGGTGTAAAATTG
1 TCAAAATTTTACTAAGTGTAAAATTG
23934163 TCAAAA-TTTACTGAAG-GTAAAAT
1 TCAAAATTTTACT-AAGTGTAAAAT
23934186 AAGGGTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACTAAGTGTAAAATTG
Found at i:23935438 original size:13 final size:13
Alignment explanation
Indices: 23935420--23935444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23935410 TATACATATG
23935420 TTTTGTAATTAAA
1 TTTTGTAATTAAA
23935433 TTTTGTAATTAA
1 TTTTGTAATTAA
23935445 CTACATCGTT
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTTGTAATTAAA
Found at i:23947621 original size:8 final size:8
Alignment explanation
Indices: 23947608--23947634 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
23947598 GCATAGACTT
23947608 TATGTATA
1 TATGTATA
23947616 TATGTATA
1 TATGTATA
23947624 TATGTATA
1 TATGTATA
23947632 TAT
1 TAT
23947635 AACATATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (8 bp):
TATGTATA
Found at i:23954103 original size:24 final size:21
Alignment explanation
Indices: 23954063--23954108 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 21
23954053 GGAAAGATAA
23954063 GAAGAGGAAGAGAGGGAAGGG
1 GAAGAGGAAGAGAGGGAAGGG
23954084 GAAGAGG-AGAGA--GAAGGG
1 GAAGAGGAAGAGAGGGAAGGG
23954102 GAAGAGG
1 GAAGAGG
23954109 GTGGGGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.52
20 5 0.20
21 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (21 bp):
GAAGAGGAAGAGAGGGAAGGG
Found at i:23955855 original size:7 final size:7
Alignment explanation
Indices: 23955845--23955873 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
23955835 AGTATTTTGA
23955845 TTGTGTT
1 TTGTGTT
23955852 TTGTGTT
1 TTGTGTT
23955859 TTGTGTT
1 TTGTGTT
23955866 TTGTGTT
1 TTGTGTT
23955873 T
1 T
23955874 ATATAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (7 bp):
TTGTGTT
Found at i:23962185 original size:33 final size:33
Alignment explanation
Indices: 23962158--23962269 Score: 170
Period size: 33 Copynumber: 3.4 Consensus size: 33
23962148 ATGCTCACTC
* * *
23962158 GAGCCAATCCATCCATCACACCAATGCTTATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
*
23962191 GAGCTAATCCAACCATCACACCAATGCTTATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
*
23962224 GAGCTAATCCAACCATCATACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
*
23962257 AAGCTAATCCAAC
1 GAGCTAATCCAAC
23962270 TAGCACGCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.39, C:0.31, G:0.09, T:0.21
Consensus pattern (33 bp):
GAGCTAATCCAACCATCACACCAATGCTCATAA
Found at i:23965174 original size:13 final size:12
Alignment explanation
Indices: 23965156--23965190 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
23965146 ACGCATTCTT
23965156 TTCCCCTTCCCTC
1 TTCCCCTTCCC-C
23965169 TTCCCCTTCCCC
1 TTCCCCTTCCCC
*
23965181 TTCCCATTCC
1 TTCCCCTTCC
23965191 TTTTGGGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.03, C:0.60, G:0.00, T:0.37
Consensus pattern (12 bp):
TTCCCCTTCCCC
Found at i:23965177 original size:6 final size:6
Alignment explanation
Indices: 23965156--23965190 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
23965146 ACGCATTCTT
*
23965156 TTCCCC TTCCCTC TTCCCC TTCCCC TTCCCA TTCC
1 TTCCCC TTCCC-C TTCCCC TTCCCC TTCCCC TTCC
23965191 TTTTGGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.03, C:0.60, G:0.00, T:0.37
Consensus pattern (6 bp):
TTCCCC
Done.