Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 77 of 356
Found at i:24135003 original size:20 final size:21
Alignment explanation
Indices: 24134968--24135040 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
24134958 GGTTTTTTAA
*
24134968 ATTTTTAAATATATTTTATATT
1 ATTTTTATA-ATATTTTATATT
* ** *
24134990 TTTTTTATAA-ATTTCCTATA
1 ATTTTTATAATATTTTATATT
*
24135010 ATTTTGATAATATTTTATA-T
1 ATTTTTATAATATTTTATATT
24135030 ATTTTTATAAT
1 ATTTTTATAAT
24135041 TATTATAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
20 25 0.64
21 7 0.18
22 7 0.18
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (21 bp):
ATTTTTATAATATTTTATATT
Found at i:24135031 original size:9 final size:9
Alignment explanation
Indices: 24134976--24135127 Score: 54
Period size: 9 Copynumber: 17.1 Consensus size: 9
24134966 AAATTTTTAA
24134976 ATATATTTT
1 ATATATTTT
*
24134985 ATATTTTTTTT
1 ATA--TATTTT
*
24134996 ATAAATTTCCT
1 ATATATTT--T
24135007 ATA-ATTTT
1 ATATATTTT
24135015 GATAATATTTT
1 -AT-ATATTTT
24135026 ATATATTTT
1 ATATATTTT
24135035 -TATAATTATT
1 ATAT-ATT-TT
**
24135045 ATA-AAATT
1 ATATATTTT
*
24135053 ATA-ATTAT
1 ATATATTTT
24135061 ATATATTTT
1 ATATATTTT
24135070 A-AT-TTTT
1 ATATATTTT
*
24135077 ATAT-TTAT
1 ATATATTTT
*
24135085 ATTTA-TTT
1 ATATATTTT
*
24135093 ATA-A-TTC
1 ATATATTTT
*
24135100 CTATATTTT
1 ATATATTTT
*
24135109 ATGTATTTT
1 ATATATTTT
* *
24135118 TTATTTTTT
1 ATATATTTT
24135127 A
1 A
24135128 AATTAAAAAA
Statistics
Matches: 106, Mismatches: 22, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
7 10 0.09
8 29 0.27
9 39 0.37
10 9 0.08
11 19 0.18
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
ATATATTTT
Found at i:24135084 original size:24 final size:24
Alignment explanation
Indices: 24135051--24135127 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
24135041 TATTATAAAA
*
24135051 TTATAATTATATATATTTTAATTT
1 TTATATTTATATATATTTTAATTT
* *
24135075 TTATATTTATATTTATTTATAATTC
1 TTATATTTATATATATTT-TAATTT
* * * *
24135100 CTATATTTTATGTATTTTTTATTTT
1 TTATA-TTTATATATATTTTAATTT
24135125 TTA
1 TTA
24135128 AATTAAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
24 16 0.39
25 15 0.37
26 10 0.24
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (24 bp):
TTATATTTATATATATTTTAATTT
Found at i:24149391 original size:29 final size:29
Alignment explanation
Indices: 24149331--24149394 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
24149321 TCGTGTATTT
* *
24149331 AAAATTTAATTTTTATATTTTTATTTTGA
1 AAAATTTAATTTTTATATTTTTAATTTAA
24149360 AAAATTT-ATTATTTAT-TTTTTAAATTTAA
1 AAAATTTAATT-TTTATATTTTT-AATTTAA
24149389 AAAATT
1 AAAATT
24149395 AAGTTTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
AAAATTTAATTTTTATATTTTTAATTTAA
Found at i:24149625 original size:54 final size:54
Alignment explanation
Indices: 24149549--24149669 Score: 208
Period size: 54 Copynumber: 2.3 Consensus size: 54
24149539 TCAATATTTT
* *
24149549 AATT-AGTATAAAGTATTTAAACTATTTAATGACGTTAAAAAATTAAGGTACCA
1 AATTAAGTAAAAAATATTTAAACTATTTAATGACGTTAAAAAATTAAGGTACCA
*
24149602 AATTAAGTAAAAAATATTTAAACTATTTAATGATGTTAAAAAATTAAGGTACCA
1 AATTAAGTAAAAAATATTTAAACTATTTAATGACGTTAAAAAATTAAGGTACCA
24149656 AATTAAGTAAAAAA
1 AATTAAGTAAAAAA
24149670 AATAAAGTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 4 0.06
54 60 0.94
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (54 bp):
AATTAAGTAAAAAATATTTAAACTATTTAATGACGTTAAAAAATTAAGGTACCA
Found at i:24152984 original size:70 final size:70
Alignment explanation
Indices: 24152896--24153031 Score: 254
Period size: 70 Copynumber: 1.9 Consensus size: 70
24152886 AAACACAGAG
* *
24152896 GGTATATTTTTATTTATCACAACTTTAGAACACAATGCTCCATGCTCAACCAATGCACAAATATT
1 GGTACATTTTCATTTATCACAACTTTAGAACACAATGCTCCATGCTCAACCAATGCACAAATATT
24152961 TGTAA
66 TGTAA
24152966 GGTACATTTTCATTTATCACAACTTTAGAACACAATGCTCCATGCTCAACCAATGCACAAATATT
1 GGTACATTTTCATTTATCACAACTTTAGAACACAATGCTCCATGCTCAACCAATGCACAAATATT
24153031 T
66 T
24153032 ATAAATTAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (70 bp):
GGTACATTTTCATTTATCACAACTTTAGAACACAATGCTCCATGCTCAACCAATGCACAAATATT
TGTAA
Found at i:24154524 original size:24 final size:23
Alignment explanation
Indices: 24154486--24154542 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
24154476 ATAAAAAGGA
24154486 AATAAAA-AATTACTA-AAACAAAT
1 AATAAAAGAA-TACTAGAAA-AAAT
*
24154509 AATAATAAGAATACTAGTAAAAAT
1 AATAA-AAGAATACTAGAAAAAAT
24154533 AATAAAAGAA
1 AATAAAAGAA
24154543 AGAAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 10 0.33
24 16 0.53
25 4 0.13
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (23 bp):
AATAAAAGAATACTAGAAAAAAT
Found at i:24158555 original size:26 final size:24
Alignment explanation
Indices: 24158499--24158580 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 24
24158489 GAGAAGCTTT
* *
24158499 TAAGAGCCATTAATCAGGAAGCTCA
1 TAAGA-CCTTTAATCGGGAAGCTCA
*
24158524 CAAAGATCCTTTAATCGGGAAGCTCA
1 -TAAGA-CCTTTAATCGGGAAGCTCA
* * *
24158550 TGAAGAGCTATATATCGGGATGCTCA
1 T-AAGACCTTTA-ATCGGGAAGCTCA
24158576 TAAGA
1 TAAGA
24158581 GCTGCGATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 8 0.17
26 38 0.83
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (24 bp):
TAAGACCTTTAATCGGGAAGCTCA
Found at i:24161391 original size:24 final size:25
Alignment explanation
Indices: 24161364--24161411 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24161354 AAGAAAAATT
* * *
24161364 AAAATGTAAAAATTTAATTAAAACA
1 AAAATATAAAAATTAAATAAAAACA
24161389 AAAATATAAAAATTAAATAAAAA
1 AAAATATAAAAATTAAATAAAAA
24161412 AACTAAATTA
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:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAATATAAAAATTAAATAAAAACA
Found at i:24165689 original size:20 final size:19
Alignment explanation
Indices: 24165653--24165703 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
24165643 AAGGGTTATT
*
24165653 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
24165672 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
24165692 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
24165704 GTTTCTGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:24175347 original size:27 final size:27
Alignment explanation
Indices: 24175309--24175363 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
24175299 AGCTTGTAAT
24175309 AGCTTCGATATCTATAAAATAATGCAA
1 AGCTTCGATATCTATAAAATAATGCAA
24175336 AGCTTCGATATCTATAAAATAATGCAA
1 AGCTTCGATATCTATAAAATAATGCAA
24175363 A
1 A
24175364 CACATACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (27 bp):
AGCTTCGATATCTATAAAATAATGCAA
Found at i:24175526 original size:21 final size:21
Alignment explanation
Indices: 24175501--24175565 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
24175491 CAATGAGCTT
24175501 CACATACATAGTATCATCTAC
1 CACATACATAGTATCATCTAC
* *
24175522 CACAT--A-GGTATC--GTAC
1 CACATACATAGTATCATCTAC
*
24175538 ATACATACATAGTATCATCTAC
1 -CACATACATAGTATCATCTAC
24175560 CACATA
1 CACATA
24175566 GGTATCGTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 5 0.16
19 2 0.06
20 5 0.16
21 10 0.31
22 3 0.09
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (21 bp):
CACATACATAGTATCATCTAC
Found at i:24175528 original size:17 final size:18
Alignment explanation
Indices: 24175506--24175571 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
24175496 AGCTTCACAT
24175506 ACATA-GTATCATCTACC
1 ACATAGGTATCATCTACC
* *
24175523 ACATAGGTATCGTACATACAT
1 ACATAGGTATCAT-C-TAC-C
24175544 ACATA-GTATCATCTACC
1 ACATAGGTATCATCTACC
24175561 ACATAGGTATC
1 ACATAGGTATC
24175572 GTACATACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 10 0.25
18 14 0.35
19 2 0.05
20 9 0.22
21 5 0.12
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (18 bp):
ACATAGGTATCATCTACC
Found at i:24175548 original size:38 final size:38
Alignment explanation
Indices: 24175502--24175579 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
24175492 AATGAGCTTC
24175502 ACATACATAGTATCATCTACCACATAGGTATCGTACAT
1 ACATACATAGTATCATCTACCACATAGGTATCGTACAT
24175540 ACATACATAGTATCATCTACCACATAGGTATCGTACAT
1 ACATACATAGTATCATCTACCACATAGGTATCGTACAT
24175578 AC
1 AC
24175580 CTGAATCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (38 bp):
ACATACATAGTATCATCTACCACATAGGTATCGTACAT
Found at i:24184417 original size:13 final size:13
Alignment explanation
Indices: 24184399--24184423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24184389 AAGTAAACGC
24184399 ACACGGGCGTGTT
1 ACACGGGCGTGTT
24184412 ACACGGGCGTGT
1 ACACGGGCGTGT
24184424 CCCTACCGAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:24190113 original size:39 final size:39
Alignment explanation
Indices: 24189955--24190114 Score: 275
Period size: 39 Copynumber: 4.1 Consensus size: 39
24189945 AATTATATTA
*
24189955 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
24189994 CCTGCACGAAGCCTACAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
24190033 CTAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
24190072 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
24190111 CCAG
1 CCAG
24190115 TATCTTGCAT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:24191877 original size:20 final size:19
Alignment explanation
Indices: 24191847--24191888 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
24191837 AGGCAAGTGG
* *
24191847 TTTTATTTTATTCCTTTTA
1 TTTTATTTTATTACTTTCA
24191866 TTTTATTTTTATTACTTTCA
1 TTTTA-TTTTATTACTTTCA
24191886 TTT
1 TTT
24191889 CATATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATTTTATTACTTTCA
Found at i:24203190 original size:21 final size:21
Alignment explanation
Indices: 24203166--24203231 Score: 98
Period size: 21 Copynumber: 3.0 Consensus size: 21
24203156 AAATGACGAA
24203166 AAAGAAACAAGAACGTGCTAC
1 AAAGAAACAAGAACGTGCTAC
24203187 AAAGAAACAAGAACGTGCTAC
1 AAAGAAACAAGAACGTGCTAC
24203208 AAAGAGCATACAAG-ACGTGCTAC
1 AAAGA--A-ACAAGAACGTGCTAC
24203231 A
1 A
24203232 GAGAGTAGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
21 26 0.62
23 11 0.26
24 5 0.12
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.11
Consensus pattern (21 bp):
AAAGAAACAAGAACGTGCTAC
Found at i:24204057 original size:16 final size:15
Alignment explanation
Indices: 24204028--24204056 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24204018 AAAAGTTATA
24204028 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
24204043 AAATATTAAAAAAA
1 AAATATTAAAAAAA
24204057 ACTTTGAGAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:24204292 original size:16 final size:16
Alignment explanation
Indices: 24204267--24204306 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
24204257 TGTATAAAAC
*
24204267 AATTAAAATTAAAATA
1 AATTATAATTAAAATA
*
24204283 AATTATAATTAAAATC
1 AATTATAATTAAAATA
24204299 AATTATAA
1 AATTATAA
24204307 ATATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTATAATTAAAATA
Found at i:24207532 original size:53 final size:55
Alignment explanation
Indices: 24207443--24207551 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 55
24207433 GACCAAATTA
* * * * *
24207443 AAAAAAAAAATGATAGTTAGATGACC-AACAAGGAAAAAGGGCAATAATTGGGTG
1 AAAAAAAAAATGATAATTAGATGACCAAAAAAGAAAAAAGAGCAATAATTGAGTG
* * *
24207497 AAAAAAAAAA-GATAATTGGGTGACCAAAAAAGAAAAAAGAGCAATAGTTGAGTG
1 AAAAAAAAAATGATAATTAGATGACCAAAAAAGAAAAAAGAGCAATAATTGAGTG
24207551 A
1 A
24207552 CTAGTGGTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.55, C:0.06, G:0.23, T:0.16
Consensus pattern (55 bp):
AAAAAAAAAATGATAATTAGATGACCAAAAAAGAAAAAAGAGCAATAATTGAGTG
Found at i:24215235 original size:155 final size:160
Alignment explanation
Indices: 24214945--24215258 Score: 539
Period size: 155 Copynumber: 2.0 Consensus size: 160
24214935 TGAAGGCCTT
* *
24214945 GAAGAGCGAGTCTACTTTGCTGCTCTGGAGTTATTCAACAATCCTAATGCTAGAGAAATATTCTT
1 GAAGAGCGAGTCTACTTTGCTGCTCTGGAGCTATTCAACAATCCAAATGCTAGAGAAATA---TT
24215010 GTATTCTTGTCTCTCAAAGGAGATAAGCGCTTGACTTGGTTGCACTGCAAGTGCGTTGCTCCATC
63 GTATTCTTGTCTCTCAAAGGAGATAAGCGCTTGACTTGGTTGCACTGCAAGTGCGTTGCTCCATC
24215075 CAATGCACTAGAGTGATAGAAGGCAACATTTTA
128 CAATGCACTAGAGTGATAGAAGGCAACATTTTA
24215108 GAAGAGCGAGTCTACTTTGCTGCTCTGGAGCTATTCAACAATCCAAATGCTAGAG-AA-A-TGT-
1 GAAGAGCGAGTCTACTTTGCTGCTCTGGAGCTATTCAACAATCCAAATGCTAGAGAAATATTGTA
*
24215169 TT-TTGTCTCTCAAAGGAGATAAGCGCTTGACTTGGTTGCACTGCAAGTGCGTTGCTTCATCCAA
66 TTCTTGTCTCTCAAAGGAGATAAGCGCTTGACTTGGTTGCACTGCAAGTGCGTTGCTCCATCCAA
24215233 TGCACTAGAGTGATAGAAGGCAACAT
131 TGCACTAGAGTGATAGAAGGCAACAT
24215259 CTTATTGTTT
Statistics
Matches: 148, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
155 87 0.59
156 2 0.01
157 3 0.02
161 1 0.01
162 2 0.01
163 53 0.36
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (160 bp):
GAAGAGCGAGTCTACTTTGCTGCTCTGGAGCTATTCAACAATCCAAATGCTAGAGAAATATTGTA
TTCTTGTCTCTCAAAGGAGATAAGCGCTTGACTTGGTTGCACTGCAAGTGCGTTGCTCCATCCAA
TGCACTAGAGTGATAGAAGGCAACATTTTA
Found at i:24216228 original size:207 final size:206
Alignment explanation
Indices: 24215873--24216289 Score: 807
Period size: 207 Copynumber: 2.0 Consensus size: 206
24215863 AAAACTGATA
24215873 AAGTAATCTGAATATCTCTTTATCAAAAGATTTGGGCAAATGCAATGCAAAATCTAAACGAAAGT
1 AAGTAATCTGAATATCTCTTTATCAAAAGATTTGGGCAAATGCAATGCAAAATCTAAACGAAAGT
24215938 GTTTTTTATTATCTTGATGGGTGTGGATGCGCCTTATTTGAGAGGCATACATAAATAAAATGTAA
66 GTTTTTTATTATCTTGATGGGTGTGGATGCGCCTTATTTGAGAGGCATACATAAATAAAATGTAA
*
24216003 ATAATACTTAAGGCTACAACCTTAAGAACTGCTACCCTTTCTTTTTCAGGAATAGGAGTCAAGTA
131 ATAATACTTAAGGCTACAACCTTAAGAACTGCTACCC-TTCCTTTTCAGGAATAGGAGTCAAGTA
24216068 GGTAAGGAGAAC
195 GGTAAGGAGAAC
24216080 AAGTAATCTGAATATCTCTTTATCAAAAGATTTGGGCAAATGCAATGCAAAATCTAAACGAAAGT
1 AAGTAATCTGAATATCTCTTTATCAAAAGATTTGGGCAAATGCAATGCAAAATCTAAACGAAAGT
24216145 GTTTTTTATTATCTTGATGGGTGTGGATGCGCCTTATTTGAGAGGCATACATAAATAAAATGTAA
66 GTTTTTTATTATCTTGATGGGTGTGGATGCGCCTTATTTGAGAGGCATACATAAATAAAATGTAA
*
24216210 ATAATACTTAAGGCTACAACCTTAAGAACTGCTACCCTTCCTTTTCAGGTATAGGAGTCAAGTAG
131 ATAATACTTAAGGCTACAACCTTAAGAACTGCTACCCTTCCTTTTCAGGAATAGGAGTCAAGTAG
24216275 GTAAGGAGAAC
196 GTAAGGAGAAC
24216286 AAGT
1 AAGT
24216290 TCATCTCCAC
Statistics
Matches: 208, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
206 41 0.20
207 167 0.80
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (206 bp):
AAGTAATCTGAATATCTCTTTATCAAAAGATTTGGGCAAATGCAATGCAAAATCTAAACGAAAGT
GTTTTTTATTATCTTGATGGGTGTGGATGCGCCTTATTTGAGAGGCATACATAAATAAAATGTAA
ATAATACTTAAGGCTACAACCTTAAGAACTGCTACCCTTCCTTTTCAGGAATAGGAGTCAAGTAG
GTAAGGAGAAC
Found at i:24218630 original size:21 final size:19
Alignment explanation
Indices: 24218606--24218648 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
24218596 TTAAACACAA
*
24218606 TAAAGAGAAAATAAAAAAATT
1 TAAAGA-AAAA-AAAAAAACT
*
24218627 TAAAGAAATAAAAAAAACT
1 TAAAGAAAAAAAAAAAACT
24218646 TAA
1 TAA
24218649 CAAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (19 bp):
TAAAGAAAAAAAAAAAACT
Found at i:24218658 original size:19 final size:19
Alignment explanation
Indices: 24218614--24218659 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
24218604 AATAAAGAGA
* *
24218614 AAAT-AAAAAAATTTAAAG
1 AAATAAAAAAAACTTAAAC
24218632 AAATAAAAAAAACTT-AAC
1 AAATAAAAAAAACTTAAAC
24218650 AAATGAAAAA
1 AAAT-AAAAA
24218660 TATATGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (19 bp):
AAATAAAAAAAACTTAAAC
Found at i:24221375 original size:11 final size:11
Alignment explanation
Indices: 24221361--24221401 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
24221351 TGTTTTCTCC
24221361 CTATTTTGCTA
1 CTATTTTGCTA
*
24221372 CTATTTTACTA
1 CTATTTTGCTA
* *
24221383 TTATATTGCTA
1 CTATTTTGCTA
24221394 CTATTTTG
1 CTATTTTG
24221402 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:24221643 original size:12 final size:12
Alignment explanation
Indices: 24221622--24221656 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24221612 TATATATTTT
*
24221622 AAAATTATATAA
1 AAAATAATATAA
24221634 AAAATAATATAA
1 AAAATAATATAA
*
24221646 AAATTAATATA
1 AAAATAATATA
24221657 GGCGGGCCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:24223964 original size:12 final size:12
Alignment explanation
Indices: 24223947--24223971 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24223937 AAGTAGGAGT
24223947 AGGGTGGACAGC
1 AGGGTGGACAGC
24223959 AGGGTGGACAGC
1 AGGGTGGACAGC
24223971 A
1 A
24223972 TCCTCTAGTA
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:0.28, C:0.16, G:0.48, T:0.08
Consensus pattern (12 bp):
AGGGTGGACAGC
Found at i:24228587 original size:15 final size:15
Alignment explanation
Indices: 24228569--24228609 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
24228559 ACTAGCCCTT
*
24228569 GTGTGACAAACGACC
1 GTGTGTCAAACGACC
24228584 GTGTGTCAAACGACC
1 GTGTGTCAAACGACC
24228599 GTGTGTCAAAC
1 GTGTGTCAAAC
24228610 TGTGTGATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (15 bp):
GTGTGTCAAACGACC
Found at i:24231948 original size:47 final size:46
Alignment explanation
Indices: 24231880--24231983 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 46
24231870 TTACATGAGT
24231880 CACA-AATCACACTGATGCCATATCCCAAATATGGTCTTACACAGAAG
1 CACATAATCAC-C-GATGCCATATCCCAAATATGGTCTTACACAGAAG
* *
24231927 CACATATATCACCGATGCCATATCCCATATATGGTCTTATACAGAAG
1 CACATA-ATCACCGATGCCATATCCCAAATATGGTCTTACACAGAAG
24231974 CACATAATCA
1 CACATAATCA
24231984 AATCTCACCG
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
46 4 0.08
47 42 0.79
48 2 0.04
49 5 0.09
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.24
Consensus pattern (46 bp):
CACATAATCACCGATGCCATATCCCAAATATGGTCTTACACAGAAG
Found at i:24234295 original size:111 final size:112
Alignment explanation
Indices: 24234093--24234296 Score: 313
Period size: 111 Copynumber: 1.8 Consensus size: 112
24234083 TTTCTTTTCA
* * *
24234093 TTTTTTTGCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGATAGCCAAGCACCCTACC
1 TTTTTTTGCTTAAAAATATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTACC
*
24234158 CCGGTTACTCAGCCCAACATACTCCTAATTTATTATATTTATATATG
66 CCGGTTACTCAGCCCAACACACTCCTAATTTATTATATTTATATATG
*
24234205 TTTTTTT-CTTAAAAATATATTAAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCA-CCTCAC
1 TTTTTTTGCTTAAAAATATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCT-AC
* * *
24234268 CCTGGTTACTTAGCCCAACACATTCCTAA
65 CCCGGTTACTCAGCCCAACACACTCCTAA
24234297 AAATTTTTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
110 3 0.04
111 73 0.88
112 7 0.08
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (112 bp):
TTTTTTTGCTTAAAAATATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTACC
CCGGTTACTCAGCCCAACACACTCCTAATTTATTATATTTATATATG
Found at i:24236367 original size:10 final size:11
Alignment explanation
Indices: 24236351--24236380 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
24236341 AGGATTTGAG
24236351 AAAAATAAAAT
1 AAAAATAAAAT
24236362 -AAAATAAAAT
1 AAAAATAAAAT
24236372 AAAAATAAA
1 AAAAATAAA
24236381 CAAAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:24248647 original size:36 final size:36
Alignment explanation
Indices: 24248606--24248681 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
24248596 ATAGGAATGA
** * *
24248606 GAAATATTTAGAAATTATTATAGTTTTCTCCAAAAT
1 GAAATATGGAGAAATGAATATAGTTTTCTCCAAAAT
* *
24248642 GAAATATGGAGAAATGAATGTGGTTTTCTCCAAAAT
1 GAAATATGGAGAAATGAATATAGTTTTCTCCAAAAT
24248678 GAAA
1 GAAA
24248682 ATAAAGATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (36 bp):
GAAATATGGAGAAATGAATATAGTTTTCTCCAAAAT
Found at i:24251266 original size:5 final size:5
Alignment explanation
Indices: 24251256--24251303 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
24251246 ATAAAGAATA
* *
24251256 ATATT ATATT ATATC ATATT AT-TAT ATTATT ATATT ATAAT ATATT AT
1 ATATT ATATT ATATT ATATT ATAT-T A-TATT ATATT ATATT ATATT AT
24251304 TATCATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 1 0.03
5 31 0.86
6 3 0.08
7 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:24251284 original size:8 final size:8
Alignment explanation
Indices: 24251257--24251311 Score: 65
Period size: 8 Copynumber: 6.2 Consensus size: 8
24251247 TAAAGAATAA
24251257 TATTATAT
1 TATTATAT
24251265 TATATCATAT
1 TAT-T-ATAT
24251275 TATTATAT
1 TATTATAT
24251283 TATTATAT
1 TATTATAT
24251291 TATAATATAT
1 TAT--TATAT
24251301 TATTATCAT
1 TATTAT-AT
24251310 TA
1 TA
24251312 AATATAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
8 21 0.50
9 6 0.14
10 15 0.36
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (8 bp):
TATTATAT
Found at i:24251286 original size:26 final size:27
Alignment explanation
Indices: 24251257--24251311 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
24251247 TAAAGAATAA
24251257 TATTATATTAT-ATCATATTATTAT-AT
1 TATTATATTATAAT-ATATTATTATCAT
24251283 TATTATATTATAATATATTATTATCAT
1 TATTATATTATAATATATTATTATCAT
24251310 TA
1 TA
24251312 AATATAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TATTATATTATAATATATTATTATCAT
Found at i:24251315 original size:18 final size:18
Alignment explanation
Indices: 24251260--24251317 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
24251250 AGAATAATAT
* *
24251260 TATATTA-TATCATATTAT
1 TATATTATTATCAT-TAAA
24251278 TATATTATTAT-ATTATAA
1 TATATTATTATCATTA-AA
24251296 TATATTATTATCATTAAA
1 TATATTATTATCATTAAA
24251314 TATA
1 TATA
24251318 AAACAAAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.03
18 27 0.77
19 7 0.20
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTATTATCATTAAA
Found at i:24251389 original size:13 final size:14
Alignment explanation
Indices: 24251373--24251408 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
24251363 CAGGGGAATG
24251373 AAAGAAAGAAA-AA
1 AAAGAAAGAAAGAA
24251386 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
24251400 AAAGGAAAG
1 AAA-GAAAG
24251409 GGAAAATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.52
14 5 0.24
15 5 0.24
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:24262297 original size:19 final size:19
Alignment explanation
Indices: 24262269--24262306 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24262259 CAGCTGCTGC
24262269 CATTTAGTTCATTTTGGTT
1 CATTTAGTTCATTTTGGTT
* *
24262288 CATTTTGTTCTTTTTGGTT
1 CATTTAGTTCATTTTGGTT
24262307 GTTGTAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.63
Consensus pattern (19 bp):
CATTTAGTTCATTTTGGTT
Found at i:24265732 original size:22 final size:21
Alignment explanation
Indices: 24265707--24265755 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
24265697 AAATGGTAAC
*
24265707 AAAAAAGTGAG-AAAATAACAA
1 AAAAAAGT-AGCAAAACAACAA
*
24265728 GAAAATAGTAGCAAAACAACAA
1 -AAAAAAGTAGCAAAACAACAA
24265750 AAAAAA
1 AAAAAA
24265756 TAGAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.08
Consensus pattern (21 bp):
AAAAAAGTAGCAAAACAACAA
Found at i:24266462 original size:31 final size:31
Alignment explanation
Indices: 24266422--24266492 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
24266412 AAAATTTCAA
* * **
24266422 AATTCAAAAAGTATAAGGACTAAAATTGATC
1 AATTTAAAAAATATAAAAACTAAAATTGATC
*
24266453 AATTTAAAAAATATAAAAACTAAAATTGATG
1 AATTTAAAAAATATAAAAACTAAAATTGATC
*
24266484 AAATTAAAA
1 AATTTAAAA
24266493 TAAATTACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (31 bp):
AATTTAAAAAATATAAAAACTAAAATTGATC
Found at i:24266754 original size:12 final size:12
Alignment explanation
Indices: 24266737--24266770 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24266727 TAGCCCGCCC
24266737 ATATTAATTTTT
1 ATATTAATTTTT
*
24266749 ATATTACTTTTT
1 ATATTAATTTTT
24266761 ATA-TAATTTT
1 ATATTAATTTT
24266771 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:24266811 original size:17 final size:18
Alignment explanation
Indices: 24266771--24266809 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24266761 ATATAATTTT
*
24266771 AAAATATATAAACTATCA
1 AAAATATAAAAACTATCA
24266789 AAAATACTAAAAAC-ATCA
1 AAAATA-TAAAAACTATCA
24266807 AAA
1 AAA
24266810 TAAATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATATAAAAACTATCA
Found at i:24267053 original size:14 final size:14
Alignment explanation
Indices: 24267036--24267065 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24267026 ATAATGAGAA
24267036 AACAATAAGGAAAC
1 AACAATAAGGAAAC
24267050 AACAATAAGGAAAC
1 AACAATAAGGAAAC
24267064 AA
1 AA
24267066 TATTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.13, G:0.13, T:0.07
Consensus pattern (14 bp):
AACAATAAGGAAAC
Found at i:24267179 original size:16 final size:17
Alignment explanation
Indices: 24267154--24267191 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
24267144 CCTGGCCCGT
24267154 TTTTTAAACGGGCCTAA
1 TTTTTAAACGGGCCTAA
24267171 TTTTT-AACGGGCCTAA
1 TTTTTAAACGGGCCTAA
24267187 TTTTT
1 TTTTT
24267192 TTATCCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (17 bp):
TTTTTAAACGGGCCTAA
Found at i:24267564 original size:25 final size:25
Alignment explanation
Indices: 24267506--24267570 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
24267496 TTTTTCATCA
24267506 TATTATT-AAATTTATATTTAAAAAT
1 TATTATTAAAATTTA-ATTTAAAAAT
*
24267531 AATTA-TAAAATTTAATTT-AAAAT
1 TATTATTAAAATTTAATTTAAAAAT
*
24267554 TATTAATTAAAAATTAA
1 TATT-ATTAAAATTTAA
24267571 AATGAAATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 8 0.24
24 6 0.18
25 20 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTATTAAAATTTAATTTAAAAAT
Found at i:24272976 original size:12 final size:12
Alignment explanation
Indices: 24272956--24272989 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24272946 AAATTATAAG
*
24272956 TTTCTATTTTCA
1 TTTCCATTTTCA
*
24272968 TTTCCATTTCCA
1 TTTCCATTTTCA
24272980 TTTCCATTTT
1 TTTCCATTTT
24272990 TAGAACCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCCATTTTCA
Found at i:24274923 original size:35 final size:35
Alignment explanation
Indices: 24274845--24274915 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
24274835 ATATATAAGC
*
24274845 TCAATATAAACTCACATGTAACCAAATACACATGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
* * *
24274880 TCAATATAAATTCACATGTAACCGAATACTCAAGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
24274915 T
1 T
24274916 TGATATAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (35 bp):
TCAATATAAACTCACATGTAACCAAATACACAAGT
Found at i:24275093 original size:38 final size:41
Alignment explanation
Indices: 24275051--24275142 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 41
24275041 CGGTATAAAA
*
24275051 CCTGCTAGGCATAA-GCCTG-ATTCAA-CACTGGCACAAAG
1 CCTGCTAGGCACAAGGCCTGAATTCAATCACTGGCACAAAG
* * * *
24275089 CCTGCTAGACCCAAGGTCTGAAATTCAATCACTGGCACTAAG
1 CCTGCTAGGCACAAGGCCTG-AATTCAATCACTGGCACAAAG
24275131 CCTGCTAGGCAC
1 CCTGCTAGGCAC
24275143 GAAGCCCGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 11 0.26
39 4 0.09
41 6 0.14
42 22 0.51
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (41 bp):
CCTGCTAGGCACAAGGCCTGAATTCAATCACTGGCACAAAG
Found at i:24282772 original size:35 final size:35
Alignment explanation
Indices: 24282694--24282764 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
24282684 ATATATAAGC
*
24282694 TCAATATAAACTCACAGGTAACCAAATACACATGT
1 TCAATATAAACTCACAGGTAACCAAATACACAAGT
* * * *
24282729 TCAATATAAATTCACATGTAACCGAATACTCAAGT
1 TCAATATAAACTCACAGGTAACCAAATACACAAGT
24282764 T
1 T
24282765 TGATATAAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (35 bp):
TCAATATAAACTCACAGGTAACCAAATACACAAGT
Found at i:24285383 original size:76 final size:76
Alignment explanation
Indices: 24285298--24285494 Score: 199
Period size: 75 Copynumber: 2.6 Consensus size: 76
24285288 AAAGTTTCTC
* ** *
24285298 TATTTTATTTTACATCAATAATACTTATTTACAATCAACGAAAAAAATT-TAAAAATTGTTTATA
1 TATTTTATTTTA-AT-AATAATACTTATTTACAATCAACGAAAAAAATTAAAAAAAAGGCTTATA
*
24285362 TTGTATTATAT-T
64 TTGTATTATATCG
* * * *
24285374 TATTTTATTTCAATAACATATACTTATTTACAATCTAA--AAAAAAGTTAAAAAAAAGGCTTGTA
1 TATTTTATTTTAATAATA-ATACTTATTTACAATC-AACGAAAAAAATTAAAAAAAAGGCTTATA
*
24285437 TTGTATTCTATCG
64 TTGTATTATATCG
* *
24285450 TATGTCT-TTTTAATAAT-ATACTTATTTACAATCTACGAAAAAAAT
1 TAT-TTTATTTTAATAATAATACTTATTTACAATCAACGAAAAAAAT
24285495 GAAATTTTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
73 1 0.01
74 27 0.27
75 45 0.45
76 24 0.24
77 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.43
Consensus pattern (76 bp):
TATTTTATTTTAATAATAATACTTATTTACAATCAACGAAAAAAATTAAAAAAAAGGCTTATATT
GTATTATATCG
Found at i:24285408 original size:75 final size:74
Alignment explanation
Indices: 24285298--24285556 Score: 197
Period size: 75 Copynumber: 3.4 Consensus size: 74
24285288 AAAGTTTCTC
* * *
24285298 TATTTTATTTTACATCAATAATACTTATTTACAATCAACGAAAAAAATTTAAAAATTGTTTATAT
1 TATTTTATTTCA-ATAAAT-ATACTTATTTACAATCAACGAAAAAAATTAAAAAATTGTTTATAT
*
24285363 TGTATTATATT
64 TGTATTCTATT
* ** * *
24285374 TATTTTATTTCAATAACATATACTTATTTACAATCTAA--AAAAAAGTTAAAAAAAAGGCTTGTA
1 TATTTTATTTCAATAA-ATATACTTATTTACAATC-AACGAAAAAAATT-AAAAAATTGTTTATA
*
24285437 TTGTATTCTATCG
63 TTGTATTCTAT-T
* * ** *
24285450 TATGTCTT-TTT-AAT-AATATACTTATTTACAATCTACGAAAAAAA-TGAAATTTTTTTTATAT
1 TAT-T-TTATTTCAATAAATATACTTATTTACAATCAACGAAAAAAATTAAAAAATTGTTTATAT
** *
24285511 AATATTCTACCT
64 TGTATTCTA-TT
** *
24285523 TATTTTACATCAATAATATATACTTATTGACAAT
1 TATTTTATTTCAATAA-ATATACTTATTTACAAT
24285557 TTACCAAAAA
Statistics
Matches: 143, Mismatches: 27, Indels: 27
0.73 0.14 0.14
Matches are distributed among these distances:
71 2 0.01
72 2 0.01
73 22 0.15
74 28 0.20
75 62 0.43
76 21 0.15
77 4 0.03
78 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (74 bp):
TATTTTATTTCAATAAATATACTTATTTACAATCAACGAAAAAAATTAAAAAATTGTTTATATTG
TATTCTATT
Found at i:24287041 original size:25 final size:25
Alignment explanation
Indices: 24287007--24287059 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
24286997 AAAATATTTG
24287007 AAATATTTTAATAAAACTTAATATA
1 AAATATTTTAATAAAACTTAATATA
* * *
24287032 AAATATTTTAATATAATTTGATATA
1 AAATATTTTAATAAAACTTAATATA
24287057 AAA
1 AAA
24287060 CTAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATATTTTAATAAAACTTAATATA
Found at i:24287201 original size:60 final size:58
Alignment explanation
Indices: 24287092--24287226 Score: 164
Period size: 60 Copynumber: 2.3 Consensus size: 58
24287082 TTAATATAAA
*
24287092 AATAATTATATTAAAAATGTTATTAAATTATATATTATTTTTATTAAATTATATTTAAT
1 AATAATTATATTAAAAATG-TATTAAAGTATATATTATTTTTATTAAATTATATTTAAT
* * * *
24287151 AATAATTATATTGAAATATG-ATTAAAGTATTTATTTTTATTTTATTAAATTATTTTTAAT
1 AATAATTATATT-AAAAATGTATTAAAGTATATA-TTAT-TTTTATTAAATTATATTTAAT
**
24287211 AATAATCCTATTAAAA
1 AATAATTATATTAAAA
24287227 TTTAATAACA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
58 11 0.17
59 18 0.28
60 36 0.55
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (58 bp):
AATAATTATATTAAAAATGTATTAAAGTATATATTATTTTTATTAAATTATATTTAAT
Found at i:24294218 original size:170 final size:171
Alignment explanation
Indices: 24293936--24294256 Score: 425
Period size: 181 Copynumber: 1.8 Consensus size: 171
24293926 GCTCATAGGT
**
24293936 TTTTTTACATTGTATTTAAATAAAAAATAAAATTTTACCTTTTATTAATTAATTATGTTTTATTT
1 TTTTTTACATTGTATTTAAATAAAAAATAAAAGATTACCTTTTATTAATTAATTATGTTTTATTT
24294001 TTAAAATTATTTTAATTATAGTTAATTTAATAATAATAATTAAATAGAGATGTAAAATAACTTA-
66 TTAAAATTATTTTAATTATAG-----------ATAATAATTAAATAGAGATGTAAAATAACTTAT
24294065 ATATTATATTTAAAATGTTAACCGGAGCTGAAGCCCAAATGAAGCTTTTGGG
120 ATATTATATTTAAAATGTTAACCGGAGCTGAAGCCCAAATGAAGCTTTTGGG
*
24294117 TTTTTTACATTTTATTTAAATAAAAAGA-AAAAGATTACCTTTTATTAATTAATTATGTTTTTAA
1 TTTTTTACATTGTATTTAAATAAAAA-ATAAAAGATTACCTTTTATTAATTAATTATG-TTTT-A
* *
24294181 TTTTTAAAATTATTTTAATT-TAG-TAATAATTAAATAGAGATGTAAAATGACTTATTTATTATA
63 TTTTTAAAATTATTTTAATTATAGATAATAATTAAATAGAGATGTAAAATAACTTATATATTATA
* *
24294244 TTTATAATTTTAA
128 TTTAAAATGTTAA
24294257 AAAATTTGTT
Statistics
Matches: 129, Mismatches: 7, Indels: 18
0.84 0.05 0.12
Matches are distributed among these distances:
170 30 0.23
171 18 0.14
181 52 0.40
182 8 0.06
183 21 0.16
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (171 bp):
TTTTTTACATTGTATTTAAATAAAAAATAAAAGATTACCTTTTATTAATTAATTATGTTTTATTT
TTAAAATTATTTTAATTATAGATAATAATTAAATAGAGATGTAAAATAACTTATATATTATATTT
AAAATGTTAACCGGAGCTGAAGCCCAAATGAAGCTTTTGGG
Found at i:24298051 original size:31 final size:32
Alignment explanation
Indices: 24297990--24298055 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
24297980 AAAAAATCAT
24297990 TTTGACTCTTTTTAAAAATGTTGATGGTCAAA
1 TTTGACTCTTTTTAAAAATGTTGATGGTCAAA
*
24298022 TTTGATTCTTTTTAAAAA-GTTGA-GAGTCAAA
1 TTTGACTCTTTTTAAAAATGTTGATG-GTCAAA
24298053 TTT
1 TTT
24298056 AGCTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 1 0.03
31 14 0.44
32 17 0.53
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (32 bp):
TTTGACTCTTTTTAAAAATGTTGATGGTCAAA
Found at i:24298965 original size:23 final size:25
Alignment explanation
Indices: 24298939--24298985 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
24298929 TATCATTCAT
*
24298939 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
24298962 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
24298986 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:24299414 original size:46 final size:46
Alignment explanation
Indices: 24299246--24299465 Score: 244
Period size: 46 Copynumber: 5.0 Consensus size: 46
24299236 TTTAACGTGA
* * * * * *
24299246 TGCCATAGTGTCTTTCAACTATGGT-TGTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCT-TACACA-TTTCATATCAGGT
** * * *
24299292 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
24299338 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
24299384 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
24299422 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
24299466 AGAGCACACT
Statistics
Matches: 152, Mismatches: 12, Indels: 20
0.83 0.07 0.11
Matches are distributed among these distances:
38 33 0.22
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 104 0.68
47 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:24299430 original size:38 final size:38
Alignment explanation
Indices: 24299379--24299454 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
24299369 CATCTCATAT
24299379 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
24299417 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
24299455 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:24306455 original size:21 final size:20
Alignment explanation
Indices: 24306431--24306488 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
24306421 CAAAAAATAG
24306431 AATTTATAAAAGTTATAAAAA
1 AATTTATAAAA-TTATAAAAA
* *
24306452 AATTTACAAAA-AATATAAAA
1 AATTTATAAAATTATA-AAAA
24306472 AA-TTATAATAATTATAA
1 AATTTATAA-AATTATAA
24306489 TAATTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 8 0.27
20 9 0.30
21 13 0.43
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AATTTATAAAATTATAAAAA
Found at i:24306812 original size:25 final size:26
Alignment explanation
Indices: 24306761--24306815 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
24306751 ATAAATAATT
* **
24306761 ATTAAAATAAATTAGAATTTTGGAAA
1 ATTAAAATAAATGAGAATTTTCAAAA
*
24306787 ATTAAAATAAA-GAGATTTTTCAAAA
1 ATTAAAATAAATGAGAATTTTCAAAA
24306812 ATTA
1 ATTA
24306816 TAAAAATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.35
Consensus pattern (26 bp):
ATTAAAATAAATGAGAATTTTCAAAA
Found at i:24306869 original size:10 final size:10
Alignment explanation
Indices: 24306808--24306869 Score: 56
Period size: 11 Copynumber: 6.0 Consensus size: 10
24306798 GAGATTTTTC
24306808 AAAAATTATA
1 AAAAATTATA
*
24306818 AAAATTTGCA-A
1 AAAAATT--ATA
24306829 AAAAATTATTA
1 AAAAATTA-TA
24306840 AAAAATTATA
1 AAAAATTATA
*
24306850 TGAAAA-TATA
1 -AAAAATTATA
24306860 AAAAATTATA
1 AAAAATTATA
24306870 TTTTTTATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
9 5 0.12
10 16 0.38
11 20 0.48
12 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:24307060 original size:9 final size:9
Alignment explanation
Indices: 24307034--24307098 Score: 78
Period size: 9 Copynumber: 7.0 Consensus size: 9
24307024 ACTCTTTTAC
24307034 ATAATTTTT
1 ATAATTTTT
24307043 AATAA-TTTT
1 -ATAATTTTT
24307052 ATAATTTTT
1 ATAATTTTT
24307061 ATAATTTTT
1 ATAATTTTT
*
24307070 ATATTTTTT
1 ATAATTTTT
*
24307079 GTAATTTTT
1 ATAATTTTT
24307088 AATATATTTTT
1 -ATA-ATTTTT
24307099 TTCAATTTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
8 4 0.08
9 32 0.67
10 6 0.12
11 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
ATAATTTTT
Found at i:24309172 original size:3 final size:3
Alignment explanation
Indices: 24309164--24309206 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
24309154 CAAAGATGAG
24309164 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24309207 AGTGTGTGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24309478 original size:3 final size:3
Alignment explanation
Indices: 24309470--24309494 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24309460 TTGATGAATA
24309470 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
24309495 TAGGCACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24311601 original size:44 final size:45
Alignment explanation
Indices: 24311485--24311611 Score: 150
Period size: 45 Copynumber: 2.8 Consensus size: 45
24311475 TTGTGACTTG
* * **
24311485 TAGCTTTAATCT-ATTCCACTGCAACTTCAGGGAAATAAGATTCTC
1 TAGCTTCAATCTGA-TCCACTGCAACTTCAGGGAGATAAGATTCAA
* * *
24311530 TATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT-AA
1 TAGCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTCAA
* *
24311574 TGGCTTCCATCTGATCCACTGCAACTTCAGGGAGATAA
1 TAGCTTCAATCTGATCCACTGCAACTTCAGGGAGATAA
24311612 AATTTGCCAT
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 33 0.48
45 36 0.52
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (45 bp):
TAGCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTCAA
Found at i:24311752 original size:45 final size:44
Alignment explanation
Indices: 24311697--24311781 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
24311687 ATTTCACTAC
*
24311697 AACTTCAGGGAAATAAAATTCACTATCTTCAATCTGCTCCATCGT
1 AACTTCAGGGAAATAAAATT-ACTAGCTTCAATCTGCTCCATCGT
* * * * *
24311742 AACTTTAGGGAGATAAGATTAGTGGCTTCAATCTGCTCCA
1 AACTTCAGGGAAATAAAATTACTAGCTTCAATCTGCTCCA
24311782 CTGCAATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 17 0.50
45 17 0.50
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (44 bp):
AACTTCAGGGAAATAAAATTACTAGCTTCAATCTGCTCCATCGT
Found at i:24311842 original size:190 final size:190
Alignment explanation
Indices: 24311452--24311853 Score: 556
Period size: 190 Copynumber: 2.1 Consensus size: 190
24311442 ATCCGATTTT
* * * * *
24311452 CTGCAACTTTAGAGGTATAAGATTTGTGACTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGG
1 CTGCAACTTCAGAGGTATAGGACTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGG
* * *
24311517 AAATAAGATTCTCTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTAATGGCTTCC
66 AAATAAAATTCACTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTAATGGCTTCA
* * * * *
24311582 ATCTGATCCACTGCAACTTCAGGGAGATAAAATTTGCCATGATAGATTTGATCTGACCTA
131 ATCTGATCCACTGCAACTTCAAGGAGATAAAATTTGCCATGATAGATATAATCCGACCCA
* * *
24311642 CTGTAACTTCAGAGGTCTAGGACTTGTAACTTGTAGCTTTAATCTATTTCACTACAACTTCAGGG
1 CTGCAACTTCAGAGGTATAGGACTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGG
* *
24311707 AAATAAAATTCACTATCTTCAATCTGCTCCA-TCGTAACTTTAGGGAGATAAGATTAGTGGCTTC
66 AAATAAAATTCACTATCTTCAATCTGCTCCACT-GTAACTTCAGGGAGATAAGATTAATGGCTTC
* * * * *
24311771 AATCTGCTCCACTGCAATTTTAAGGAGATAAGATTTGCCATGAT-GACTATAATCCGTCCCA
130 AATCTGATCCACTGCAACTTCAAGGAGATAAAATTTGCCATGATAGA-TATAATCCGACCCA
*
24311832 CTGCAACTTCAGGGGTATAGGA
1 CTGCAACTTCAGAGGTATAGGA
24311854 TTTATGGTTT
Statistics
Matches: 184, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
189 3 0.02
190 181 0.98
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (190 bp):
CTGCAACTTCAGAGGTATAGGACTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGG
AAATAAAATTCACTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTAATGGCTTCA
ATCTGATCCACTGCAACTTCAAGGAGATAAAATTTGCCATGATAGATATAATCCGACCCA
Found at i:24313836 original size:36 final size:36
Alignment explanation
Indices: 24313789--24313863 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
24313779 ATTTTCTTAG
24313789 CCTCGACAGCGTTTACACACCTTAGTAGCACCTGAT
1 CCTCGACAGCGTTTACACACCTTAGTAGCACCTGAT
24313825 CCTCGACAGCGTTTACACACCTTAGTAGCACCTGAT
1 CCTCGACAGCGTTTACACACCTTAGTAGCACCTGAT
24313861 CCT
1 CCT
24313864 TTCTCCTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (36 bp):
CCTCGACAGCGTTTACACACCTTAGTAGCACCTGAT
Found at i:24320315 original size:19 final size:19
Alignment explanation
Indices: 24320291--24320328 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24320281 TTCCTGACCC
24320291 GATCTTGAGATCAGTGAAG
1 GATCTTGAGATCAGTGAAG
24320310 GATCTTGAGATCAGTGAAG
1 GATCTTGAGATCAGTGAAG
24320329 CTGTTCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (19 bp):
GATCTTGAGATCAGTGAAG
Found at i:24324051 original size:3 final size:3
Alignment explanation
Indices: 24324043--24324100 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
24324033 TTAATGAATA
24324043 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24324091 AAT AAT AAT A
1 AAT AAT AAT A
24324101 TAGGCACAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24331147 original size:39 final size:39
Alignment explanation
Indices: 24331102--24331183 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
24331092 ATTCAAGACA
24331102 CTGGAAATGTATCCGGGCTAAAG-TCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTTCC-GCAGGCTTCGTG
*
24331141 CTGGAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTTCCGCAGGCTTCGTG
24331180 CTGG
1 CTGG
24331184 TAATATAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 38 0.93
40 3 0.07
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.27
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTTCCGCAGGCTTCGTG
Found at i:24337617 original size:18 final size:18
Alignment explanation
Indices: 24337594--24337641 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
24337584 AAAATGTGAG
*
24337594 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
24337612 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
24337630 AAATGATGTTCA
1 AAATGATGTTCA
24337642 ATTGATGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:24338148 original size:72 final size:72
Alignment explanation
Indices: 24338069--24338405 Score: 428
Period size: 72 Copynumber: 4.7 Consensus size: 72
24338059 CAATGCTAAA
*
24338069 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
24338134 GTGTAAT
66 GTGTAAT
* *
24338141 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
24338206 GTGTAAT
66 GTGTAAT
* * * * * *
24338213 CTTGTTCTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGGTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
**
24338278 GCT-TAGGG
66 G-TGTA-AT
* * *
24338286 CTAGTTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTTTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
***
24338351 GCAAAAT
66 GTGTAAT
* * * * * *
24338358 -TAGTTTTAACAATTGTTGTTTATATAT-GATTTTGGATATAAAATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTAT
24338406 TCACAGGTGA
Statistics
Matches: 230, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
70 18 0.08
71 22 0.10
72 131 0.57
73 59 0.26
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:24338344 original size:145 final size:144
Alignment explanation
Indices: 24338080--24338351 Score: 420
Period size: 145 Copynumber: 1.9 Consensus size: 144
24338070 TAGTTTTATC
* * *
24338080 AATAGTTATTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTATGTGTAATCTAG
1 AATAGTTATTTATGTTTGGTCTTTGGATATTAAATTTATGGTCTACTTATTTATGTGTAAGCTAG
** * *
24338145 TTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
66 TTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTATGTGT
24338210 AATCTTGTTCTATT
131 AATCTTGTTCTATT
* * *
24338224 AATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGGTCTACTTATTTATGCT-TAGGGCT
1 AATAGTTATTTATGTTTGGTCTTTGGATATTAAATTTATGGTCTACTTATTTATG-TGTA-AGCT
*
24338288 AGTTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTTTACTTATTTATG
64 AGTTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTATG
24338352 CAAAATTAGT
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
144 53 0.46
145 62 0.54
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.55
Consensus pattern (144 bp):
AATAGTTATTTATGTTTGGTCTTTGGATATTAAATTTATGGTCTACTTATTTATGTGTAAGCTAG
TTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTATGTGT
AATCTTGTTCTATT
Found at i:24351802 original size:16 final size:16
Alignment explanation
Indices: 24351769--24351809 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
24351759 TGAGTTAGGG
24351769 TTCTACTC-AATTCGA
1 TTCTACTCGAATTCGA
24351784 TTCTACTCGAATTTC-A
1 TTCTACTCGAA-TTCGA
*
24351800 TTCCACTCGA
1 TTCTACTCGA
24351810 CTTGATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 12 0.52
17 3 0.13
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.39
Consensus pattern (16 bp):
TTCTACTCGAATTCGA
Found at i:24359826 original size:20 final size:20
Alignment explanation
Indices: 24359798--24359943 Score: 91
Period size: 20 Copynumber: 7.3 Consensus size: 20
24359788 ATTCATTTTT
* *
24359798 ATTCGTATAAACTGTAATTC
1 ATTCATATAAACAGTAATTC
*
24359818 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAAC-AGTAATTC
*
24359838 A-TCTATATAACCAGTAATTC
1 ATTC-ATATAAACAGTAATTC
* * * *
24359858 ATCCGTA-ATAACAATAATTT
1 ATTCATATA-AACAGTAATTC
* * *
24359878 ATTTATATCAACAATAATTC
1 ATTCATATAAACAGTAATTC
* * * *
24359898 ATCCGTATCAATAGTAATTC
1 ATTCATATAAACAGTAATTC
* *
24359918 ATTCATTTCAACAGTAATTC
1 ATTCATATAAACAGTAATTC
24359938 ATTCAT
1 ATTCAT
24359944 TTCAACATAG
Statistics
Matches: 96, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
19 6 0.06
20 87 0.91
21 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (20 bp):
ATTCATATAAACAGTAATTC
Found at i:24359916 original size:40 final size:40
Alignment explanation
Indices: 24359852--24359939 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
24359842 ATATAACCAG
* *
24359852 TAATTCATCCGTAATAACAATAATTTATTTATATCAACAA
1 TAATTCATCCGTAATAACAATAATTCATTCATATCAACAA
* * * *
24359892 TAATTCATCCGT-ATCAATAGTAATTCATTCATTTCAACAG
1 TAATTCATCCGTAAT-AACAATAATTCATTCATATCAACAA
24359932 TAATTCAT
1 TAATTCAT
24359940 TCATTTCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.05
40 39 0.95
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.39
Consensus pattern (40 bp):
TAATTCATCCGTAATAACAATAATTCATTCATATCAACAA
Found at i:24359944 original size:20 final size:20
Alignment explanation
Indices: 24359885--24359950 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
24359875 TTTATTTATA
* * * *
24359885 TCAACAATAATTCATCCGTA
1 TCAACAGTAATTCATTCATT
*
24359905 TCAATAGTAATTCATTCATT
1 TCAACAGTAATTCATTCATT
24359925 TCAACAGTAATTCATTCATT
1 TCAACAGTAATTCATTCATT
24359945 TCAACA
1 TCAACA
24359951 TAGCTTATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (20 bp):
TCAACAGTAATTCATTCATT
Found at i:24360167 original size:22 final size:22
Alignment explanation
Indices: 24360119--24360183 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
24360109 GCTGATAAAT
*
24360119 AGTAAGCTCTATTGAGCT-AAA
1 AGTAAGCTCTATCGAGCTGAAA
*
24360140 ACGTAAGCTCTATCGAGCTGAAC
1 A-GTAAGCTCTATCGAGCTGAAA
24360163 AGTAAGCT-TATACGAGCTGAA
1 AGTAAGCTCTAT-CGAGCTGAA
24360184 TCGGTAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.10
22 32 0.82
23 3 0.08
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (22 bp):
AGTAAGCTCTATCGAGCTGAAA
Found at i:24360227 original size:47 final size:45
Alignment explanation
Indices: 24360106--24360229 Score: 112
Period size: 47 Copynumber: 2.7 Consensus size: 45
24360096 AAGCTCCTCC
* *
24360106 TGAGCTGATAAATAGTAAGCTC-TATTGAGCTAAAACGTAAGCTCTA
1 TGAGCTG-TAAATAGTAAGCTCTTA-TGAGCTGAAACGTAAGCTCAA
* * * *
24360152 TCGAGCTG--AACAGTAAGCT-TATACGAGCTGAATCGGTAATCTCCAA
1 T-GAGCTGTAAATAGTAAGCTCT-TATGAGCTGAAAC-GTAAGCT-CAA
24360198 TGAGCTGTAAATAGTAAGCTCTTATGAGCTGA
1 TGAGCTGTAAATAGTAAGCTCTTATGAGCTGA
24360230 TATATCGATA
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
44 18 0.29
45 14 0.23
46 4 0.06
47 25 0.40
48 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (45 bp):
TGAGCTGTAAATAGTAAGCTCTTATGAGCTGAAACGTAAGCTCAA
Found at i:24366339 original size:55 final size:55
Alignment explanation
Indices: 24366255--24366384 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 55
24366245 CATGGCCGTG
* ** * *
24366255 CGAACCTGCCAAAACAACACGGGCGTGCGACATGCCCGTGCCT-GAAAACCGTGGC
1 CGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCTAG-AAACCATGGC
* * * * *
24366310 CGAACCTGTCAAATTAACATGGGCTTGCGACACGTCCGTGCCTAGCAACCATGGG
1 CGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCTAGAAACCATGGC
*
24366365 CGAACCTGTCAGATTAACAC
1 CGAACCTGTCAAATTAACAC
24366385 TACATACACA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
55 61 0.98
56 1 0.02
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.16
Consensus pattern (55 bp):
CGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCTAGAAACCATGGC
Found at i:24376431 original size:44 final size:44
Alignment explanation
Indices: 24376380--24376474 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
24376370 CGATTAAAAT
24376380 AATCTCTAGGTTTCTTTGATGAGGAATGATAAGATTTATTCATC
1 AATCTCTAGGTTTCTTTGATGAGGAATGATAAGATTTATTCATC
*
24376424 GATCTCTAGGTTTCTTTGATGAGGAATGATAAGATTTATTCATC
1 AATCTCTAGGTTTCTTTGATGAGGAATGATAAGATTTATTCATC
24376468 AATCTCT
1 AATCTCT
24376475 TCCTCGAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (44 bp):
AATCTCTAGGTTTCTTTGATGAGGAATGATAAGATTTATTCATC
Found at i:24376486 original size:13 final size:15
Alignment explanation
Indices: 24376468--24376499 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
24376458 TTTATTCATC
24376468 AATCTCTT-CCTC-G
1 AATCTCTTGCCTCTG
24376481 AATCTCTTGCCTCTG
1 AATCTCTTGCCTCTG
24376496 AATC
1 AATC
24376500 CGCCTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.19, C:0.34, G:0.09, T:0.38
Consensus pattern (15 bp):
AATCTCTTGCCTCTG
Found at i:24382268 original size:696 final size:695
Alignment explanation
Indices: 24380930--24382276 Score: 2288
Period size: 696 Copynumber: 1.9 Consensus size: 695
24380920 GCATTTGGTG
*
24380930 GGCTTCGTGGGATAAATTATGCATGGCGAAGAAGTTTGGCAGAATGGAATTTCATAATCTTCACT
1 GGCTTCGTGGGATAAATTATGCATGGCGAAGAAGTCTGGCAGAATGGAATTTCATAATCTTCACT
*
24380995 ATTTTAATTTAGCTATGCTTTGTAAGCAAGGTTAGAGTTTTATTTCAATCTCCAGTCTCTTCCTA
66 ATTTTAATTTAGATATGCTTTGTAAGCAAGGTTAGAGTTTTATTTCAATCTCCAGTCTCTTCCTA
24381060 GTAGAATTTTCAAGCTAGATATTTTCTGTGTTGTGGCTTTTTTAAAGCCACAAAGGGCAATAACC
131 GTAGAATTTTCAAGCTAGATATTTTCTGTGTTGTGGCTTTTTTAAAGCCACAAAGGGCAATAACC
* * * * *
24381125 CTTTATTTATATGGAAGAGCATTTTTTCTGCTAAGCATCTCCTCATTATAGTGTTGGATCTGATG
196 CTTCATTTATATGGAAGAGCATTTTTTCTGCCAAGCATCTACTCATTATAGTGTTGAATCCGATG
24381190 CTCTAAGTGTAGTATATTCATTTGTACATTTGTAATTTTTTTGAACAAATTTATTAATAAAATTA
261 CTCTAAGTGTAGTATATTCATTTGTACATTTGTAATTTTTTTGAACAAATTTATTAATAAAATTA
*
24381255 TTCATGAATTACACTAATATTCTTTGTATAATGTCCTCATGTGATTTTTTCATGTAAAGCAAAAT
326 TTCATGAATTACACTAATATTATTTGTATAATGTCCTCATGTGATTTTTTCATGTAAAGCAAAAT
** * *
24381320 AGAAGCAAATATTAGCTCATTGGTTGTTTAATGTTTAACTAATACTGACCAGTATTACGTGGTTG
391 AGAAAAAAATATTAGCTCATTGGTTGTCTAATATTTAACTAATACTGACCAGTATTACGTGGTTG
* *
24381385 GATCGTAATGCTAAAAGACAGTTTATATTAGTAGACGGGCCCAAACATGTCATTAGTCTAATCAG
456 GATCATAATGCTAAAAGACAGTTTATATTAGTAGACGGGCCCAAACATGTAATTAGTCTAATCAG
* *
24381450 AAAATAGCAAACCAATTGAATGACTAATATGTTGTCTATCAAGTCCAATTAGAGAGATGCTTTGT
521 AAAATAGAAAACCAATTGAATGACTAATATGTTGTCTATCAAGTCCAATTAGAAAGATGCTTTGT
** * * *
24381515 TTTAGGCATTGGAATAGATGACTCTTAGAATATAGAGACATAGATGTGACTGACTGGATTGACAG
586 TTTAGGCATCAGAACAGATGACTCCTAGAAGATAGAGACATAGATGTGACTGACTGGATTGACAG
24381580 TACATTGAATTGGACCCAAGTAAAATATACCGTAAATATGTTTTA
651 TACATTGAATTGGACCCAAGTAAAATATACCGTAAATATGTTTTA
24381625 GGCTTCGTGGGATAAATTATGCATGGCGAAGAAGTCTGGCAGAATGGAATTTCATAATCTTCACT
1 GGCTTCGTGGGATAAATTATGCATGGCGAAGAAGTCTGGCAGAATGGAATTTCATAATCTTCACT
* *
24381690 ATTTTAATTTAGATATGCTTTGTAAGCAAGGTTGGAGTTTTATTTCAATCTCGA-TCTCTTCCTA
66 ATTTTAATTTAGATATGCTTTGTAAGCAAGGTTAGAGTTTTATTTCAATCTCCAGTCTCTTCCTA
*
24381754 GTAGAATTTTCAAAGCTAGATATTTTCTGTGTTGTGGCTTTTTTAAAGCCACAAAGGGTAATAAC
131 GTAGAATTTTC-AAGCTAGATATTTTCTGTGTTGTGGCTTTTTTAAAGCCACAAAGGGCAATAAC
* * *
24381819 CCTTCGTTTATATGGAAGAGTATTTTTTTCTGCCAAGCATCTATTCATTATAGTGTTGAATCCGA
195 CCTTCATTTATATGGAAGAGCA-TTTTTTCTGCCAAGCATCTACTCATTATAGTGTTGAATCCGA
*
24381884 TGCTCTAAGTGTAGTATATTCATTTGTACATTTGTAATTTTTTTGAACTAATTTATTAATAAAAT
259 TGCTCTAAGTGTAGTATATTCATTTGTACATTTGTAATTTTTTTGAACAAATTTATTAATAAAAT
24381949 TATTCATGAATTACACTAATATTATTTGTATAATGTCCTCATGTGATTTTTTCATGTAAAGCAAA
324 TATTCATGAATTACACTAATATTATTTGTATAATGTCCTCATGTGATTTTTTCATGTAAAGCAAA
* * *
24382014 ATAGAAAAAAATATTAGCTCATTGGTTGTCTAATATTTAACTAATAGTGA-GAGGTATTATGTGG
389 ATAGAAAAAAATATTAGCTCATTGGTTGTCTAATATTTAACTAATACTGACCA-GTATTACGTGG
* *
24382078 TTGGATCATAATGCTAAAAGACAGTTTATATTAGTAGATGGGCCTAAACATGTAATTAGTCTAAT
453 TTGGATCATAATGCTAAAAGACAGTTTATATTAGTAGACGGGCCCAAACATGTAATTAGTCTAAT
*
24382143 C-GAAAATGAGAAAACCAATTGAATGACTAATATGTTGTCTATCAAGTCCAATTGGAAAGATGCT
518 CAGAAAAT-AGAAAACCAATTGAATGACTAATATGTTGTCTATCAAGTCCAATTAGAAAGATGCT
** *
24382207 TTGTTTTAGGCATCAGTGCGGATGACTCCTAGAAGATAGAGACATAGATGTGA-TCGACTGGATT
582 TTGTTTTAGGCATCAGAACAGATGACTCCTAGAAGATAGAGACATAGATGTGACT-GACTGGATT
24382271 GACAGT
646 GACAGT
24382277 GTAACAACCC
Statistics
Matches: 610, Mismatches: 37, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
694 21 0.03
695 194 0.32
696 395 0.65
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (695 bp):
GGCTTCGTGGGATAAATTATGCATGGCGAAGAAGTCTGGCAGAATGGAATTTCATAATCTTCACT
ATTTTAATTTAGATATGCTTTGTAAGCAAGGTTAGAGTTTTATTTCAATCTCCAGTCTCTTCCTA
GTAGAATTTTCAAGCTAGATATTTTCTGTGTTGTGGCTTTTTTAAAGCCACAAAGGGCAATAACC
CTTCATTTATATGGAAGAGCATTTTTTCTGCCAAGCATCTACTCATTATAGTGTTGAATCCGATG
CTCTAAGTGTAGTATATTCATTTGTACATTTGTAATTTTTTTGAACAAATTTATTAATAAAATTA
TTCATGAATTACACTAATATTATTTGTATAATGTCCTCATGTGATTTTTTCATGTAAAGCAAAAT
AGAAAAAAATATTAGCTCATTGGTTGTCTAATATTTAACTAATACTGACCAGTATTACGTGGTTG
GATCATAATGCTAAAAGACAGTTTATATTAGTAGACGGGCCCAAACATGTAATTAGTCTAATCAG
AAAATAGAAAACCAATTGAATGACTAATATGTTGTCTATCAAGTCCAATTAGAAAGATGCTTTGT
TTTAGGCATCAGAACAGATGACTCCTAGAAGATAGAGACATAGATGTGACTGACTGGATTGACAG
TACATTGAATTGGACCCAAGTAAAATATACCGTAAATATGTTTTA
Found at i:24392648 original size:13 final size:13
Alignment explanation
Indices: 24392630--24392654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24392620 AAGATTATGC
24392630 TAGTAATAAGTAT
1 TAGTAATAAGTAT
24392643 TAGTAATAAGTA
1 TAGTAATAAGTA
24392655 AAATAGAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
TAGTAATAAGTAT
Found at i:24414463 original size:13 final size:13
Alignment explanation
Indices: 24414445--24414469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24414435 TTTTAGTAAA
24414445 CTTGTACAATCAG
1 CTTGTACAATCAG
24414458 CTTGTACAATCA
1 CTTGTACAATCA
24414470 ACATTATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (13 bp):
CTTGTACAATCAG
Found at i:24433821 original size:18 final size:18
Alignment explanation
Indices: 24433795--24433831 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24433785 ATATATTAAC
24433795 CCAAGTACCCAACCCAAT
1 CCAAGTACCCAACCCAAT
*
24433813 CCAATTACCCAACCCAAT
1 CCAAGTACCCAACCCAAT
24433831 C
1 C
24433832 ATAAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.46, G:0.03, T:0.14
Consensus pattern (18 bp):
CCAAGTACCCAACCCAAT
Found at i:24433896 original size:7 final size:6
Alignment explanation
Indices: 24433855--24433895 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
24433845 ATAATTTAAT
*
24433855 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
24433896 AACATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:24433896 original size:20 final size:20
Alignment explanation
Indices: 24433858--24433896 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24433848 ATTTAATAAA
**
24433858 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
24433878 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
24433897 ACATATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:24433984 original size:9 final size:9
Alignment explanation
Indices: 24433916--24433983 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
24433906 TTTATACAAA
24433916 TAATTCGGT
1 TAATTCGGT
24433925 TAATTCGGT
1 TAATTCGGT
* *
24433934 TAATTTGGA
1 TAATTCGGT
*
24433943 TAATTCGGG
1 TAATTCGGT
24433952 TAATTCGGT
1 TAATTCGGT
**
24433961 TAATTCAAT
1 TAATTCGGT
*
24433970 TAATTTGGT
1 TAATTCGGT
24433979 TAATT
1 TAATT
24433984 TTATAATTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:24434752 original size:13 final size:13
Alignment explanation
Indices: 24434734--24434758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24434724 ACATTACGCT
24434734 AAACCAATAAGAC
1 AAACCAATAAGAC
24434747 AAACCAATAAGA
1 AAACCAATAAGA
24434759 TTACTGGGAA
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:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (13 bp):
AAACCAATAAGAC
Found at i:24434882 original size:185 final size:185
Alignment explanation
Indices: 24434570--24434935 Score: 723
Period size: 185 Copynumber: 2.0 Consensus size: 185
24434560 AAGAAAAGTC
24434570 AAGATTACTGGGAATTATCAGCAAGATTCATAAAAGATCATTTAATCGATCTTGAAATTAACGTG
1 AAGATTACTGGGAATTATCAGCAAGATTCATAAAAGATCATTTAATCGATCTTGAAATTAACGTG
24434635 TATAGAAATTCTACAAGTATTTGATATCTAAACATCTGGATTCAGAATGTTCTTACCAATCTTGG
66 TATAGAAATTCTACAAGTATTTGATATCTAAACATCTGGATTCAGAATGTTCTTACCAATCTTGG
*
24434700 CAATGTTAAATACTAGATTTGATGACATTACGCTAAACCAATAAGACAAACCAAT
131 CAATGTTAAATACTAGATTTGACGACATTACGCTAAACCAATAAGACAAACCAAT
24434755 AAGATTACTGGGAATTATCAGCAAGATTCATAAAAGATCATTTAATCGATCTTGAAATTAACGTG
1 AAGATTACTGGGAATTATCAGCAAGATTCATAAAAGATCATTTAATCGATCTTGAAATTAACGTG
24434820 TATAGAAATTCTACAAGTATTTGATATCTAAACATCTGGATTCAGAATGTTCTTACCAATCTTGG
66 TATAGAAATTCTACAAGTATTTGATATCTAAACATCTGGATTCAGAATGTTCTTACCAATCTTGG
24434885 CAATGTTAAATACTAGATTTGACGACATTACGCTAAACCAATAAGACAAAC
131 CAATGTTAAATACTAGATTTGACGACATTACGCTAAACCAATAAGACAAAC
24434936 GGTTGAACGA
Statistics
Matches: 180, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 180 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (185 bp):
AAGATTACTGGGAATTATCAGCAAGATTCATAAAAGATCATTTAATCGATCTTGAAATTAACGTG
TATAGAAATTCTACAAGTATTTGATATCTAAACATCTGGATTCAGAATGTTCTTACCAATCTTGG
CAATGTTAAATACTAGATTTGACGACATTACGCTAAACCAATAAGACAAACCAAT
Found at i:24447482 original size:5 final size:5
Alignment explanation
Indices: 24447472--24447500 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
24447462 TAATTTATGA
24447472 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
24447501 AAATAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:24452094 original size:20 final size:20
Alignment explanation
Indices: 24452071--24452111 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24452061 AAATAGTAGC
*
24452071 TCATCCATATAAACAGTATT
1 TCATCCAAATAAACAGTATT
24452091 TCATCCAAATAAACAGTATT
1 TCATCCAAATAAACAGTATT
24452111 T
1 T
24452112 ATGCTCGTTG
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:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (20 bp):
TCATCCAAATAAACAGTATT
Found at i:24452275 original size:23 final size:24
Alignment explanation
Indices: 24452246--24452299 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
24452236 GAGCTGATGG
** *
24452246 ACAGTAAACTCTATTGAGCT-GAA
1 ACAGTAAACTCTAACGAGCTAAAA
*
24452269 ACAGTAAGCTCTAACGAGCTAAAA
1 ACAGTAAACTCTAACGAGCTAAAA
24452293 ACAGTAA
1 ACAGTAA
24452300 GCTTTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (24 bp):
ACAGTAAACTCTAACGAGCTAAAA
Found at i:24452299 original size:24 final size:24
Alignment explanation
Indices: 24452267--24452351 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 24
24452257 TATTGAGCTG
*
24452267 AAACAGTAAGCTCTAACGAGCTAA
1 AAACAGTAAGCTCTAACAAGCTAA
* * * *
24452291 AAACAGTAAGCTTTTATAAGC-AG
1 AAACAGTAAGCTCTAACAAGCTAA
* * * *
24452314 AAATAGTAAGCTCCAACAAGTTGA
1 AAACAGTAAGCTCTAACAAGCTAA
24452338 AAACAGTAAGCTCT
1 AAACAGTAAGCTCT
24452352 TACGAGCTGA
Statistics
Matches: 45, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
23 16 0.36
24 29 0.64
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (24 bp):
AAACAGTAAGCTCTAACAAGCTAA
Found at i:24454852 original size:20 final size:20
Alignment explanation
Indices: 24454829--24454877 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
24454819 AAATTTTAAT
*
24454829 AAAAAATATAAAAAT-CATTA
1 AAAAAAT-TAAAAATGAATTA
24454849 AAAAAATTAAAAATGAATT-
1 AAAAAATTAAAAATGAATTA
24454868 AAAAAATTAA
1 AAAAAATTAA
24454878 TTAATAGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATTAAAAATGAATTA
Found at i:24461620 original size:17 final size:18
Alignment explanation
Indices: 24461597--24461638 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
24461587 GAAATTAGGC
*
24461597 CGTGTGGG-CCACATGGG
1 CGTGTGGGCCCACAAGGG
*
24461614 TGTGTGGGCCCACAAGGG
1 CGTGTGGGCCCACAAGGG
24461632 CGTGTGG
1 CGTGTGG
24461639 AATTCTGGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.19
Consensus pattern (18 bp):
CGTGTGGGCCCACAAGGG
Found at i:24463242 original size:16 final size:16
Alignment explanation
Indices: 24463213--24463246 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24463203 AGCATAATAT
* *
24463213 ATTATTAATTAATAAA
1 ATTATAAATCAATAAA
24463229 ATTATAAATCAATAAA
1 ATTATAAATCAATAAA
24463245 AT
1 AT
24463247 CATTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTATAAATCAATAAA
Found at i:24465716 original size:17 final size:17
Alignment explanation
Indices: 24465685--24465718 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24465675 CATGGTAAAT
* *
24465685 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
24465702 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
24465719 CAAGAATAAA
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:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:24468074 original size:44 final size:42
Alignment explanation
Indices: 24468025--24468310 Score: 230
Period size: 44 Copynumber: 6.5 Consensus size: 42
24468015 ATCTACTCTG
* * * *
24468025 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGAT-CTTT-CTTCAATCTGCTCCA
* * * * * *
24468069 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGAT-CTTTCTTCAATCTGCTCCA
* * * *
24468112 CTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCT-TT-CTTCAATCTGCTCCA
* * * * * *
24468156 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGAT-CTTTCTTCAATCTGCTCCA
* *
24468199 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCT-T-TCTTCAATCTGCTCCA
* ** *
24468243 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTCCGGTCTACTCCA
1 CTGTAACCTCAGGGAGATAAGATCT----TTCTTCAATCTGCTCCA
24468289 CTGTAACCTCAGGGAGATAAGA
1 CTGTAACCTCAGGGAGATAAGA
24468311 CCTGTATAAT
Statistics
Matches: 188, Mismatches: 46, Indels: 14
0.76 0.19 0.06
Matches are distributed among these distances:
42 2 0.01
43 61 0.32
44 90 0.48
45 1 0.01
46 33 0.18
47 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
CTGTAACCTCAGGGAGATAAGATCTTTCTTCAATCTGCTCCA
Found at i:24468129 original size:87 final size:87
Alignment explanation
Indices: 24468013--24468261 Score: 392
Period size: 87 Copynumber: 2.9 Consensus size: 87
24468003 AGACTTGATG
* * * *
24468013 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC-TTATTTTAATCCGCTCCACTGTAACT
24468077 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
24468100 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTT
24468165 CAGGGAGATAGGATAGTGTCTT
66 CAGGGAGATAGGATAGTGTCTT
*** * * *
24468187 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTT
24468252 CAGGGAGATA
66 CAGGGAGATA
24468262 AGATCTGAAA
Statistics
Matches: 151, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
87 150 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (87 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTT
CAGGGAGATAGGATAGTGTCTT
Found at i:24491633 original size:27 final size:26
Alignment explanation
Indices: 24491603--24491669 Score: 62
Period size: 28 Copynumber: 2.5 Consensus size: 26
24491593 TATTATTATT
* *
24491603 AATGACATATTTAAAAATTAATTTAAA
1 AATGAAATATTTAAAAA-TAATTAAAA
* *
24491630 AATGAGATTACTTTAAATATAATTAAAA
1 AATGA-AATA-TTTAAAAATAATTAAAA
*
24491658 AATAAAATATTT
1 AATGAAATATTT
24491670 TTAAAAACTC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 3 0.09
27 8 0.25
28 14 0.44
29 7 0.22
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.37
Consensus pattern (26 bp):
AATGAAATATTTAAAAATAATTAAAA
Found at i:24491880 original size:3 final size:3
Alignment explanation
Indices: 24491872--24491924 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
24491862 AATAACCTTA
24491872 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
24491920 AAG AA
1 AAG AA
24491925 AAGGGGTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24507167 original size:43 final size:43
Alignment explanation
Indices: 24507098--24507257 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
24507088 AAATTTTGCT
* * *
24507098 TATAGAAAATGACCTTTAACAGCGCTTCTCCTGCAAACACCGA-
1 TATAGAACATGACCTTTAGCGGCGCTTCTCCTGCAAACACC-AC
* *
24507141 TATA-AAGCATGACCTTTAGCGGCGCTTTTACCT-CAAACGCCAC
1 TATAGAA-CATGACCTTTAGCGGCGCTTCT-CCTGCAAACACCAC
* * * * *
24507184 TATAGAACATGACATTTAGCGGTGCTTCTACTGCAAACGCCGC
1 TATAGAACATGACCTTTAGCGGCGCTTCTCCTGCAAACACCAC
* ** * *
24507227 TAAAGAACAAAACTTTTAGCGGTGCTTCTCC
1 TATAGAACATGACCTTTAGCGGCGCTTCTCC
24507258 CACATATGCC
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 5 0.05
43 87 0.90
44 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
TATAGAACATGACCTTTAGCGGCGCTTCTCCTGCAAACACCAC
Found at i:24508502 original size:9 final size:9
Alignment explanation
Indices: 24508479--24508509 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
24508469 ATTTATATTT
24508479 TATTAAAAA
1 TATTAAAAA
24508488 TA-TAAAAA
1 TATTAAAAA
24508496 TATTAAAAA
1 TATTAAAAA
24508505 TATTA
1 TATTA
24508510 CCTTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:24508585 original size:56 final size:55
Alignment explanation
Indices: 24508474--24508594 Score: 156
Period size: 56 Copynumber: 2.2 Consensus size: 55
24508464 GCATTATTTA
* ** * *
24508474 TATTTTATTAAAAATATAAAAATATTAAAAATATTACCTTATTTAAAAGAACTTT
1 TATTTTATTAAAAATATAAAAATAGTAAAAATATTAAATTATTAAAAACAACTTT
24508529 TATTTTATTAAAAATATAAAAA-AGTAAATTACA-ATTAAATTATTAAAAACAACTTT
1 TATTTTATTAAAAATATAAAAATAGTAAA--A-ATATTAAATTATTAAAAACAACTTT
24508585 TATTTTATTA
1 TATTTTATTA
24508595 GATGAAACAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
54 5 0.09
55 22 0.38
56 30 0.52
57 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (55 bp):
TATTTTATTAAAAATATAAAAATAGTAAAAATATTAAATTATTAAAAACAACTTT
Found at i:24508641 original size:8 final size:9
Alignment explanation
Indices: 24508622--24508684 Score: 69
Period size: 9 Copynumber: 7.2 Consensus size: 9
24508612 AAGTTTGTAC
24508622 AAAAATATT
1 AAAAATATT
24508631 AAAAATA-T
1 AAAAATATT
24508639 AAAAATATT
1 AAAAATATT
24508648 AAAAATATT
1 AAAAATATT
***
24508657 -ACCTTATT
1 AAAAATATT
24508665 AAAAAATATT
1 -AAAAATATT
24508675 AAAAA-ATT
1 AAAAATATT
24508683 AA
1 AA
24508685 TGTTGGTGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 18 0.40
9 22 0.49
10 5 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:24508644 original size:17 final size:17
Alignment explanation
Indices: 24508622--24508655 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24508612 AAGTTTGTAC
24508622 AAAAATATTAAAAATAT
1 AAAAATATTAAAAATAT
24508639 AAAAATATTAAAAATAT
1 AAAAATATTAAAAATAT
24508656 TACCTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATATTAAAAATAT
Found at i:24508795 original size:21 final size:22
Alignment explanation
Indices: 24508757--24508799 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
24508747 CCTTGGTTCA
* *
24508757 GCTTCCGGTGGGGGTTGTGGTT
1 GCTTCCGGAGGGGATTGTGGTT
24508779 GCTT-CGGAGGGGATTGTGGTT
1 GCTTCCGGAGGGGATTGTGGTT
24508800 CCTCCGACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.05, C:0.12, G:0.49, T:0.35
Consensus pattern (22 bp):
GCTTCCGGAGGGGATTGTGGTT
Found at i:24509090 original size:18 final size:18
Alignment explanation
Indices: 24509067--24509103 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24509057 GAAAAATGAA
*
24509067 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
24509085 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
24509103 A
1 A
24509104 TGCACGTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:24511266 original size:31 final size:31
Alignment explanation
Indices: 24511231--24511291 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
24511221 GAAATTGATA
24511231 TTTGGACTACATCAAATGTAATCAATTATTG
1 TTTGGACTACATCAAATGTAATCAATTATTG
24511262 TTTGGACTACATCAAATGTAATCAATTATT
1 TTTGGACTACATCAAATGTAATCAATTATT
24511292 TAACAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (31 bp):
TTTGGACTACATCAAATGTAATCAATTATTG
Found at i:24514462 original size:9 final size:9
Alignment explanation
Indices: 24514446--24514506 Score: 86
Period size: 9 Copynumber: 6.8 Consensus size: 9
24514436 GGTATTTTTC
24514446 GGTAATTCG
1 GGTAATTCG
* *
24514455 GTTAATTCT
1 GGTAATTCG
*
24514464 GTTAATTCG
1 GGTAATTCG
*
24514473 GTTAATTCG
1 GGTAATTCG
24514482 GGTAATTCG
1 GGTAATTCG
24514491 GGTAATTCG
1 GGTAATTCG
24514500 GGTAATT
1 GGTAATT
24514507 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (9 bp):
GGTAATTCG
Found at i:24514471 original size:18 final size:18
Alignment explanation
Indices: 24514446--24514506 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
24514436 GGTATTTTTC
*
24514446 GGTAATTCGGTTAATTCT
1 GGTAATTCGGTTAATTCG
*
24514464 GTTAATTCGGTTAATTCG
1 GGTAATTCGGTTAATTCG
*
24514482 GGTAATTCGGGTAATTCG
1 GGTAATTCGGTTAATTCG
24514500 GGTAATT
1 GGTAATT
24514507 TTTAACCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (18 bp):
GGTAATTCGGTTAATTCG
Found at i:24514684 original size:12 final size:12
Alignment explanation
Indices: 24514667--24514691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24514657 AGTAATTTCG
24514667 GGTCGGTTAACC
1 GGTCGGTTAACC
24514679 GGTCGGTTAACC
1 GGTCGGTTAACC
24514691 G
1 G
24514692 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:24520882 original size:13 final size:11
Alignment explanation
Indices: 24520846--24520876 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
24520836 CAGCCCGTAT
24520846 TAATTTTTATA
1 TAATTTTTATA
*
24520857 TTATTTTTATA
1 TAATTTTTATA
24520868 TAATTTTTA
1 TAATTTTTA
24520877 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:24521058 original size:22 final size:22
Alignment explanation
Indices: 24521033--24521075 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24521023 TATCCAAATA
24521033 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
24521055 ATAATAGTAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
24521076 AATATGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:24527101 original size:12 final size:12
Alignment explanation
Indices: 24527084--24527115 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24527074 CGGCCCGCCC
24527084 ATATTAATTTTT
1 ATATTAATTTTT
24527096 ATATT-ATTTTT
1 ATATTAATTTTT
24527107 ATA-TAATTT
1 ATATTAATTT
24527116 AAAATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:24527290 original size:30 final size:31
Alignment explanation
Indices: 24527238--24527297 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
24527228 ACTTAACAAT
24527238 CAAATGTCTCCAAAATTAATAACAAAATTAG
1 CAAATGTCTCCAAAATTAATAACAAAATTAG
**
24527269 CAAATGTCTTTAAAA-TAATAACAAAATTA
1 CAAATGTCTCCAAAATTAATAACAAAATTA
24527298 ACAATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.28
Consensus pattern (31 bp):
CAAATGTCTCCAAAATTAATAACAAAATTAG
Done.