Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 60 of 187
Found at i:17828065 original size:36 final size:38
Alignment explanation
Indices: 17828022--17828108 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 38
17828012 GCAGTTGTAA
* * *
17828022 GTGACTATTCATCTATATCAC-TAAATAC-TAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATACATAAGAGTT
* *
17828058 GTGACTATTCATTTACATAACTTAGATACTATAAGAGTT
1 GTGACTATTCATCTACATAACTTAAATAC-ATAAGAGTT
17828097 GTGACTATTCAT
1 GTGACTATTCAT
17828109 GCATGTGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 18 0.42
37 6 0.14
39 19 0.44
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (38 bp):
GTGACTATTCATCTACATAACTTAAATACATAAGAGTT
Found at i:17828186 original size:32 final size:32
Alignment explanation
Indices: 17828117--17828193 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
17828107 ATGCATGTGT
* *
17828117 GTAACTTTTCATCTTCAAGTCTCTTCGCATTA
1 GTAACTTTTCATATTCAAGTCTCTTCACATTA
* * *
17828149 TTAACTCTTCATATTCAAGTCTCCTT-ACATTC
1 GTAACTTTTCATATTCAAGTCT-CTTCACATTA
17828181 GTAACTTTTCATA
1 GTAACTTTTCATA
17828194 ATTTGTTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
32 34 0.92
33 3 0.08
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGTCTCTTCACATTA
Found at i:17854117 original size:27 final size:27
Alignment explanation
Indices: 17854072--17854157 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
17854062 CTTTGAACCC
*
17854072 TGAACCC-AAACCC-AAACTCTAAACT
1 TGAACCCAAAACCCTAAACTCAAAACT
* * *
17854097 TGAACCTC-GAACTCTAAACTCAAAATT
1 TGAACC-CAAAACCCTAAACTCAAAACT
* *
17854124 TGAACCCAAAACCCTAAACTCGAACCT
1 TGAACCCAAAACCCTAAACTCAAAACT
17854151 TGAACCC
1 TGAACCC
17854158 TAATCCAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 6 0.12
26 6 0.12
27 37 0.76
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.19
Consensus pattern (27 bp):
TGAACCCAAAACCCTAAACTCAAAACT
Found at i:17854241 original size:21 final size:21
Alignment explanation
Indices: 17854181--17854242 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
17854171 AAAGTCTAGG
* *
17854181 GTTCAATATTTAAGGTTTAAA
1 GTTCAAGATTTAAAGTTTAAA
* *
17854202 GTT-TAGAATTCGAAA-TTTAAA
1 GTTCAAG-ATT-TAAAGTTTAAA
17854223 GTTCAAGATTTAAAGTTTAA
1 GTTCAAGATTTAAAGTTTAA
17854243 GTTTAGGGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (21 bp):
GTTCAAGATTTAAAGTTTAAA
Found at i:17867510 original size:25 final size:25
Alignment explanation
Indices: 17867459--17867545 Score: 106
Period size: 25 Copynumber: 3.5 Consensus size: 25
17867449 GCACATGTAT
* * *
17867459 GCTCATACGAGCGATA-AACGGTAA
1 GCTCATACGAGCTAAATAATGGTAA
*
17867483 GCTCCT-CTGAGCTAAATAATGGTAA
1 GCTCATAC-GAGCTAAATAATGGTAA
*
17867508 GCTCATACGAGCTAAATAATGGTAT
1 GCTCATACGAGCTAAATAATGGTAA
17867533 GCTCATACGAGCT
1 GCTCATACGAGCT
17867546 GAGTATCAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
23 1 0.02
24 11 0.20
25 41 0.76
26 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTAAATAATGGTAA
Found at i:17867561 original size:25 final size:25
Alignment explanation
Indices: 17867491--17867564 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
17867481 AAGCTCCTCT
*
17867491 GAGCTAAATAATGGTAAGCTCATAC
1 GAGCTAAATAATAGTAAGCTCATAC
* *
17867516 GAGCTAAATAATGGTATGCTCATAC
1 GAGCTAAATAATAGTAAGCTCATAC
* *
17867541 GAGCTGAGT-ATCAGTAAGCTCATA
1 GAGCTAAATAAT-AGTAAGCTCATA
17867565 AAAGCTAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 2 0.05
25 41 0.95
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (25 bp):
GAGCTAAATAATAGTAAGCTCATAC
Found at i:17867716 original size:28 final size:26
Alignment explanation
Indices: 17867683--17867742 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
17867673 TTATACATAA
*
17867683 TAATTAAACCAT-TCACATACACATATT
1 TAATTAAACCATAT-AAATACACA-ATT
*
17867710 TCAATTAAAGCATATAAATACACAATT
1 T-AATTAAACCATATAAATACACAATT
17867737 TAATTA
1 TAATTA
17867743 CACGAACTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 5 0.17
27 5 0.17
28 18 0.62
29 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (26 bp):
TAATTAAACCATATAAATACACAATT
Found at i:17870668 original size:27 final size:27
Alignment explanation
Indices: 17870638--17870748 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
17870628 GATAAACCCT
* *
17870638 AAAAGAATGCCTTTGTGGCGTAATATG
1 AAAAGAACGCCTTTGTGGCGCAATATG
*
17870665 AAAAGAACGTCTTTGTGGCGCAATATG
1 AAAAGAACGCCTTTGTGGCGCAATATG
* * *
17870692 AAAGGAAAGCCTCTGTGGCGCAATATG
1 AAAAGAACGCCTTTGTGGCGCAATATG
* * * *
17870719 AAAGGAACACCTTTTTGGTGCAATATG
1 AAAAGAACGCCTTTGTGGCGCAATATG
17870746 AAA
1 AAA
17870749 TATAATAAGT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (27 bp):
AAAAGAACGCCTTTGTGGCGCAATATG
Found at i:17871821 original size:21 final size:21
Alignment explanation
Indices: 17871797--17871839 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
17871787 TTTTACCTAA
*
17871797 AATATGAATTGGATTTAATTG
1 AATATGAATTGGATTAAATTG
*
17871818 AATATGAATTGTATTAAATTG
1 AATATGAATTGGATTAAATTG
17871839 A
1 A
17871840 GTTAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (21 bp):
AATATGAATTGGATTAAATTG
Found at i:17876399 original size:27 final size:27
Alignment explanation
Indices: 17876369--17876526 Score: 154
Period size: 27 Copynumber: 5.9 Consensus size: 27
17876359 CTAAAAGAAA
* *
17876369 ACCTTTGTGGCTCAATATGAAAGGAAT
1 ACCTTTGTGGCACAATATGAAAGGAAC
*** *
17876396 ACCTTTGTGGTGTAATATGAAAAGAAC
1 ACCTTTGTGGCACAATATGAAAGGAAC
* * * * *
17876423 GCTTTTGTAGCGCAATATGAAATGAAC
1 ACCTTTGTGGCACAATATGAAAGGAAC
* * * *
17876450 GCCTTTGTGTCGCAATATGAAAAGAAC
1 ACCTTTGTGGCACAATATGAAAGGAAC
* *
17876477 CCCTTTGTGGCACAATATAAAAGGAAC
1 ACCTTTGTGGCACAATATGAAAGGAAC
*
17876504 ACCTTTATGGCACAATATGAAAG
1 ACCTTTGTGGCACAATATGAAAG
17876527 AGTATCTTTT
Statistics
Matches: 108, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
ACCTTTGTGGCACAATATGAAAGGAAC
Found at i:17876419 original size:54 final size:54
Alignment explanation
Indices: 17876361--17876525 Score: 179
Period size: 54 Copynumber: 3.1 Consensus size: 54
17876351 AGCGAGCCCT
* * * *
17876361 AAAAGAAAACCTTTGTGGCTCAATATGAAAGGAATACCTTTGTGGT-GTAATATG
1 AAAAGAACACCTTTGTGGCACAATATGAAAGGAACACCTTTGT-GTCGCAATATG
* * * * * *
17876415 AAAAGAACGCTTTTGTAGCGCAATATGAAATGAACGCCTTTGTGTCGCAATATG
1 AAAAGAACACCTTTGTGGCACAATATGAAAGGAACACCTTTGTGTCGCAATATG
* * * * *
17876469 AAAAGAACCCCTTTGTGGCACAATATAAAAGGAACACCTTTATGGCACAATATG
1 AAAAGAACACCTTTGTGGCACAATATGAAAGGAACACCTTTGTGTCGCAATATG
17876523 AAA
1 AAA
17876526 GAGTATCTTT
Statistics
Matches: 91, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 2 0.02
54 89 0.98
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (54 bp):
AAAAGAACACCTTTGTGGCACAATATGAAAGGAACACCTTTGTGTCGCAATATG
Found at i:17880947 original size:15 final size:15
Alignment explanation
Indices: 17880927--17880956 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17880917 CACCATTATG
*
17880927 TAAATATTATTAAAA
1 TAAATAATATTAAAA
17880942 TAAATAATATTAAAA
1 TAAATAATATTAAAA
17880957 CTATCAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATAATATTAAAA
Found at i:17881481 original size:20 final size:18
Alignment explanation
Indices: 17881458--17881534 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 18
17881448 ATTATTTTAA
17881458 TTTATCAAATTATATTCAAT
1 TTTAT-AAATT-TATTCAAT
*
17881478 TTTATAAATTTATTAAATAT
1 TTTATAAATTTATT-CA-AT
17881498 TAATATATCAAATTATATTCAAT
1 T--T-TAT-AAATT-TATTCAAT
17881521 TTTATAAATTTATT
1 TTTATAAATTTATT
17881535 AAATATTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
18 8 0.17
19 11 0.23
20 11 0.23
21 1 0.02
22 1 0.02
23 6 0.12
24 6 0.12
25 4 0.08
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATAAATTTATTCAAT
Found at i:17881489 original size:8 final size:9
Alignment explanation
Indices: 17881456--17881538 Score: 50
Period size: 9 Copynumber: 9.3 Consensus size: 9
17881446 TTATTATTTT
*
17881456 AATTTATCA
1 AATTTATTA
*
17881465 AATTATATTC
1 AATT-TATTA
17881475 AATTT-TATA
1 AATTTAT-TA
17881484 AATTTATTA
1 AATTTATTA
17881493 AA--TATT-
1 AATTTATTA
* *
17881499 AATATATCA
1 AATTTATTA
*
17881508 AATTATATTC
1 AATT-TATTA
17881518 AATTT-TATA
1 AATTTAT-TA
17881527 AATTTATTA
1 AATTTATTA
17881536 AAT
1 AAT
17881539 ATTAATATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
6 2 0.04
7 4 0.07
8 5 0.09
9 30 0.53
10 16 0.28
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTTATTA
Found at i:17881507 original size:43 final size:43
Alignment explanation
Indices: 17881454--17881548 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
17881444 TTTTATTATT
*
17881454 TTAATTTATCAAATTATATTCAATTTTATAAATTTATTAAATA
1 TTAATATATCAAATTATATTCAATTTTATAAATTTATTAAATA
17881497 TTAATATATCAAATTATATTCAATTTTATAAATTTATTAAATA
1 TTAATATATCAAATTATATTCAATTTTATAAATTTATTAAATA
17881540 TTAATATAT
1 TTAATATAT
17881549 TATGCTATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (43 bp):
TTAATATATCAAATTATATTCAATTTTATAAATTTATTAAATA
Found at i:17882926 original size:22 final size:23
Alignment explanation
Indices: 17882901--17882980 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 23
17882891 TATTATATGA
17882901 TAATAATAAAAATATATTATT-T
1 TAATAATAAAAATATATTATTAT
* ** *
17882923 TAAT-ATTAATTTATAATATTAT
1 TAATAATAAAAATATATTATTAT
17882945 TAATAAT-AAAATATATTATTAT
1 TAATAATAAAAATATATTATTAT
*
17882967 TAATTAAAAAAAAT
1 TAA-TAATAAAAAT
17882981 TCAAAACTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 12 0.26
22 24 0.52
23 5 0.11
24 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATAAAAATATATTATTAT
Found at i:17882930 original size:11 final size:12
Alignment explanation
Indices: 17882914--17882952 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
17882904 TAATAAAAAT
17882914 ATATTATTT-TA
1 ATATTATTTATA
17882925 ATATTAATTTATA
1 ATATT-ATTTATA
*
17882938 ATATTATTAATA
1 ATATTATTTATA
17882950 ATA
1 ATA
17882953 AAATATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 5 0.20
12 13 0.52
13 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATATTATTTATA
Found at i:17885418 original size:11 final size:11
Alignment explanation
Indices: 17885402--17885426 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17885392 TTCAATTCAA
17885402 ATAATCAATAT
1 ATAATCAATAT
17885413 ATAATCAATAT
1 ATAATCAATAT
17885424 ATA
1 ATA
17885427 TATACCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:17886194 original size:88 final size:88
Alignment explanation
Indices: 17886045--17886221 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
17886035 TAAGTAATAT
17886045 TGAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAATTGAATAAATTGGCTTACCAATTAA
1 TGAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAATTGAATAAATTGGCTTACCAATTAA
17886110 GCCTTGAACTTTGAAACCTTAAC
66 GCCTTGAACTTTGAAACCTTAAC
17886133 TGAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAATTGAATAAATTGGCTTACCAATTAA
1 TGAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAATTGAATAAATTGGCTTACCAATTAA
*
17886198 GCTTTGAACTTTGAAACCTTAAC
66 GCCTTGAACTTTGAAACCTTAAC
17886221 T
1 T
17886222 TCTCCTTTAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.29
Consensus pattern (88 bp):
TGAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAATTGAATAAATTGGCTTACCAATTAA
GCCTTGAACTTTGAAACCTTAAC
Found at i:17886254 original size:25 final size:25
Alignment explanation
Indices: 17886226--17886277 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
17886216 TTAACTTCTC
* *
17886226 CTTTATTTCTT-TCCCTTTTTCTTTT
1 CTTTATTT-TTCTCCCTGTTTCGTTT
*
17886251 CTTTCTTTTTCTCCCTGTTTCGTTT
1 CTTTATTTTTCTCCCTGTTTCGTTT
17886276 CT
1 CT
17886278 ATTCTGTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.02, C:0.27, G:0.04, T:0.67
Consensus pattern (25 bp):
CTTTATTTTTCTCCCTGTTTCGTTT
Found at i:17886291 original size:15 final size:16
Alignment explanation
Indices: 17886265--17886295 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
17886255 CTTTTTCTCC
17886265 CTGTTTCGTTTCTATT
1 CTGTTTCGTTTCTATT
17886281 CTGTTTC-TTTCTATT
1 CTGTTTCGTTTCTATT
17886296 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.06, C:0.19, G:0.10, T:0.65
Consensus pattern (16 bp):
CTGTTTCGTTTCTATT
Found at i:17886740 original size:13 final size:14
Alignment explanation
Indices: 17886715--17886749 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
17886705 TATACAAATA
17886715 ACAGAATCAGATAT
1 ACAGAATCAGATAT
*
17886729 GCAGAA-CAGATAT
1 ACAGAATCAGATAT
17886742 ACAGAATC
1 ACAGAATC
17886750 CTACCCCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (14 bp):
ACAGAATCAGATAT
Found at i:17887949 original size:3 final size:3
Alignment explanation
Indices: 17887943--17887971 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17887933 AGAAGAAGAA
17887943 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
17887972 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:17891510 original size:15 final size:15
Alignment explanation
Indices: 17891492--17891551 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
17891482 AACCCTTTTC
*
17891492 CTATTAGCCACATCA
1 CTATTAGACACATCA
*
17891507 CTATTAGATACATCA
1 CTATTAGACACATCA
* *
17891522 TTAATAGACACATCA
1 CTATTAGACACATCA
*
17891537 CTATCAGACACATCA
1 CTATTAGACACATCA
17891552 AAATCAGACA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (15 bp):
CTATTAGACACATCA
Found at i:17891557 original size:15 final size:15
Alignment explanation
Indices: 17891527--17891561 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17891517 CATCATTAAT
**
17891527 AGACACATCACTATC
1 AGACACATCAAAATC
17891542 AGACACATCAAAATC
1 AGACACATCAAAATC
17891557 AGACA
1 AGACA
17891562 TTTCTTCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.29, G:0.09, T:0.14
Consensus pattern (15 bp):
AGACACATCAAAATC
Found at i:17891561 original size:30 final size:30
Alignment explanation
Indices: 17891500--17891561 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
17891490 TCCTATTAGC
* * *
17891500 CACATCACTATTAGATACATCATTAATAGA
1 CACATCACTATCAGACACATCATAAATAGA
17891530 CACATCACTATCAGACACATCA-AAATCAGA
1 CACATCACTATCAGACACATCATAAAT-AGA
17891560 CA
1 CA
17891562 TTTCTTCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (30 bp):
CACATCACTATCAGACACATCATAAATAGA
Found at i:17892446 original size:40 final size:40
Alignment explanation
Indices: 17892391--17892480 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
17892381 TACCAATCAA
*
17892391 TTTCTAACCCTAAACC-CTATTAATCGATTATCGAATCGAT
1 TTTCTAACCCTAAACCAC-ATTAATCGATTACCGAATCGAT
* * *
17892431 TTTCTAGCCCTAAACCAACCTTAATCGATTCCCGAATCGA-
1 TTTCTAACCCTAAACC-ACATTAATCGATTACCGAATCGAT
17892471 TTTCTAACCC
1 TTTCTAACCC
17892481 AAATCCCTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
40 24 0.56
41 18 0.42
42 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (40 bp):
TTTCTAACCCTAAACCACATTAATCGATTACCGAATCGAT
Found at i:17892663 original size:21 final size:21
Alignment explanation
Indices: 17892639--17892700 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
17892629 CAACATGGCA
*
17892639 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAACT
* *
17892660 AGTTAATTGGTCACATCAACT
1 AGTTAACTGGCCACATCAACT
* *
17892681 AGTTAGCTTGCCACATCAAC
1 AGTTAACTGGCCACATCAAC
17892701 AGTCTCGTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAACT
Found at i:17896527 original size:31 final size:31
Alignment explanation
Indices: 17896491--17896552 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
17896481 CTTTTTTTGT
* *
17896491 CTAATTTGATAACTAAATTTTACAATTTTTC
1 CTAATTTGATAACTAAACTTGACAATTTTTC
* * *
17896522 CTAATTTGGTACCTAAACTTGACACTTTTTC
1 CTAATTTGATAACTAAACTTGACAATTTTTC
17896553 TTACGTTGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (31 bp):
CTAATTTGATAACTAAACTTGACAATTTTTC
Found at i:17896636 original size:60 final size:60
Alignment explanation
Indices: 17896524--17896634 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
17896514 AATTTTTCCT
* * * *
17896524 AATTTGGTACCTAAACTTGACACTTTTTCTTACGTTGGTACTTGAACTTTTTTAGAGTCC
1 AATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACTCGAACTTTTTTAGAGTCC
* *
17896584 AATTTGATACCTAAACTTGACTCTTTTTCCTAATTTGGTAC-CG-ACTTTTTT
1 AATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACTCGAACTTTTTT
17896635 TTTGATTTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 8 0.18
59 1 0.02
60 36 0.80
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (60 bp):
AATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACTCGAACTTTTTTAGAGTCC
Found at i:17896792 original size:4 final size:4
Alignment explanation
Indices: 17896783--17896808 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
17896773 TACTTTTAGT
17896783 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
17896809 AATTGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:17898296 original size:27 final size:26
Alignment explanation
Indices: 17898249--17898305 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
17898239 TTAAAAGCTT
** *
17898249 AATTAAAAAAACTTATTTTTTTTTAAA
1 AATTAAAAAAACTTA-ACTTTTTAAAA
17898276 AATTAAAAAAAAC-TAACTTTTTAAAA
1 AATT-AAAAAAACTTAACTTTTTAAAA
17898302 AATT
1 AATT
17898306 TATAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 12 0.46
27 6 0.23
28 8 0.31
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTAAAAAAACTTAACTTTTTAAAA
Found at i:17899019 original size:20 final size:20
Alignment explanation
Indices: 17898996--17899061 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
17898986 TTCTAAACTT
*
17898996 AATTTTTAAATATTTTTATT
1 AATTTTTAAATATTTTTATA
* *
17899016 AATTATTAATTATTTTT-TA
1 AATTTTTAAATATTTTTATA
**
17899035 AATTTATTTCATATTTTTATA
1 AATTT-TTAAATATTTTTATA
17899056 AATTTT
1 AATTTT
17899062 AATAATGTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.14
20 25 0.68
21 7 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTTTAAATATTTTTATA
Found at i:17904389 original size:50 final size:49
Alignment explanation
Indices: 17904335--17904475 Score: 112
Period size: 49 Copynumber: 2.9 Consensus size: 49
17904325 TTTAGGAATA
* *
17904335 CTCATACGAG-C-ATGTAATATGAAAGCTCTTTCGAGCCATATAACAAGAAG
1 CTCATACGAGCCAAT-TAATA-GAAAGCTCATACGAGCCATA-AACAAGAAG
* * * *
17904385 CTCATATGAGCCAATTATTAGGAAGCTCATACGAGCCATAAACGAGAAG
1 CTCATACGAGCCAATTAATAGAAAGCTCATACGAGCCATAAACAAGAAG
* * * *
17904434 CTCA-AGAGAGCCAAAT-ATCGAAAAGCTCATACAAGCCA-AAAC
1 CTCATA-CGAGCCAATTAATAG-AAAGCTCATACGAGCCATAAAC
17904476 CGGAAAACTC
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
48 7 0.09
49 35 0.47
50 26 0.35
51 5 0.07
52 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (49 bp):
CTCATACGAGCCAATTAATAGAAAGCTCATACGAGCCATAAACAAGAAG
Found at i:17904395 original size:25 final size:25
Alignment explanation
Indices: 17904335--17904471 Score: 77
Period size: 25 Copynumber: 5.5 Consensus size: 25
17904325 TTTAGGAATA
* * *
17904335 CTCATACGAG-CATGTAATATGAAAG
1 CTCATACGAGCCATATAACAAG-AAG
* *
17904360 CTCTTTCGAGCCATATAACAAGAAG
1 CTCATACGAGCCATATAACAAGAAG
* ** *
17904385 CTCATATGAGCCA-ATTATTAGGAAG
1 CTCATACGAGCCATA-TAACAAGAAG
*
17904410 CTCATACGAGCCATA-AACGAGAAG
1 CTCATACGAGCCATATAACAAGAAG
* * *
17904434 CTCA-AGAGAGCCAAATATCGAA-AAG
1 CTCATA-CGAGCCATATAAC-AAGAAG
*
17904459 CTCATACAAGCCA
1 CTCATACGAGCCA
17904472 AAACCGGAAA
Statistics
Matches: 83, Mismatches: 22, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
23 1 0.01
24 17 0.20
25 54 0.65
26 11 0.13
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (25 bp):
CTCATACGAGCCATATAACAAGAAG
Found at i:17904472 original size:25 final size:23
Alignment explanation
Indices: 17904407--17904488 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 23
17904397 AATTATTAGG
* *
17904407 AAGCTCATACGAGCCATAAACGAG
1 AAGCTCATACAAGCCA-AAACGAA
*
17904431 AAGCTCA-AGAGAGCCAAATATCGAA
1 AAGCTCATACA-AGCCAAA-A-CGAA
17904456 AAGCTCATACAAGCCAAAACCGGAA
1 AAGCTCATACAAGCCAAAA-C-GAA
17904481 AA-CTCATA
1 AAGCTCATA
17904489 AGAGCCGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.06
24 21 0.44
25 22 0.46
26 2 0.04
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.12
Consensus pattern (23 bp):
AAGCTCATACAAGCCAAAACGAA
Found at i:17904494 original size:24 final size:26
Alignment explanation
Indices: 17904407--17904494 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 26
17904397 AATTATTAGG
*
17904407 AAGCTCATAC-GAGCCATAA-A-CGAG
1 AAGCTCATACAGAGCCA-AATACCGAA
* *
17904431 AAGCTCA-AGAGAGCCAAATATCGAA
1 AAGCTCATACAGAGCCAAATACCGAA
17904456 AAGCTCATACA-AGCCAAA-ACCGGAA
1 AAGCTCATACAGAGCCAAATACC-GAA
17904481 AA-CTCATA-AGAGCC
1 AAGCTCATACAGAGCC
17904495 GTAATTAGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
23 4 0.07
24 26 0.48
25 22 0.41
26 2 0.04
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (26 bp):
AAGCTCATACAGAGCCAAATACCGAA
Found at i:17916210 original size:12 final size:13
Alignment explanation
Indices: 17916186--17916214 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17916176 CTTTAGTTAG
17916186 TTTTAGATTTTTA
1 TTTTAGATTTTTA
17916199 TTTTAG-TTTTTA
1 TTTTAGATTTTTA
17916211 TTTT
1 TTTT
17916215 CTTTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTTAGATTTTTA
Found at i:17931789 original size:57 final size:57
Alignment explanation
Indices: 17931715--17931883 Score: 176
Period size: 57 Copynumber: 3.0 Consensus size: 57
17931705 GTTGCCACAA
* *
17931715 TTAACAGGTTCACCACAAAGGCTTACCTCTCCAAAGTTTTGCTACTAAGGCTGTCCT
1 TTAACAGGTTCACCACAAAGGCTTACCTCTCCAAAGTTTTGCCACAAAGGCTGTCCT
* * * * * * **
17931772 TTAACATGTTCATCACAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGTTTGTCCT
1 TTAACAGGTTCACCACAAAGGCTTACCTCTCCAAAGTTTTGCCACAAAGGCTGTCCT
* * * * * * * *
17931829 TTAGCAGGTTCACCACATAGGCTTACTTTTCTAGAGTTTTACCACAAAGGTTGTC
1 TTAACAGGTTCACCACAAAGGCTTACCTCTCCAAAGTTTTGCCACAAAGGCTGTC
17931884 TTTTCACTAG
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 95 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (57 bp):
TTAACAGGTTCACCACAAAGGCTTACCTCTCCAAAGTTTTGCCACAAAGGCTGTCCT
Found at i:17931886 original size:29 final size:29
Alignment explanation
Indices: 17931799--17931888 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
17931789 AAGGCTTACC
* *
17931799 TTTCTAGAGTTTTTCCACAAAGTTTGTC-
1 TTTCTAGAGTTTTACCACAAAGGTTGTCT
* * * * *
17931827 CTT-TAGCAGGTTCACCACATAGGCTT-ACT
1 TTTCTAG-AGTTTTACCACAAAGG-TTGTCT
17931856 TTTCTAGAGTTTTACCACAAAGGTTGTCT
1 TTTCTAGAGTTTTACCACAAAGGTTGTCT
17931885 TTTC
1 TTTC
17931889 ACTAGTGTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
27 3 0.07
28 16 0.36
29 23 0.51
30 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (29 bp):
TTTCTAGAGTTTTACCACAAAGGTTGTCT
Found at i:17932115 original size:53 final size:52
Alignment explanation
Indices: 17932007--17932368 Score: 359
Period size: 53 Copynumber: 6.9 Consensus size: 52
17931997 AAATTTTTCG
* * * *
17932007 TATAATGTCATAACCCACCAGTTATGATCTTACAC--TATGGCCTTCTTCTCG
1 TATAATGCCATAACCCACTAGTTATGATCTTACACGATATGGTCTTCTTC-CA
* * *
17932058 TATAATGCCATAACCCACTAGTTATAACCTTGCACGATATGGTCTTCTTCCTA
1 TATAATGCCATAACCCACTAGTTATGATCTTACACGATATGGTCTTCTTCC-A
* *
17932111 TATAATTCCATAACCCACTAGTTATGGTCTTACACGATATGGTCTTCTTCCCA
1 TATAATGCCATAACCCACTAGTTATGATCTTACACGATATGGTCTTCTT-CCA
* * *
17932164 TATGATGCCATAACCCATTAGTTATGGTCTTACACGATATGGTCTTCTTCACA
1 TATAATGCCATAACCCACTAGTTATGATCTTACACGATATGGTCTTCTTC-CA
* * * * * *
17932217 TATGATGCCATAACCTACCAGTTACGATCTTCCATGATATGGTCTTCTTACCA
1 TATAATGCCATAACCCACTAGTTATGATCTTACACGATATGGTCTTCTT-CCA
* * * ** * * * * * *
17932270 TATGATGCCATAACCCACCAATTACAATTTTACACAAGATGATCTTATTTTCA
1 TATAATGCCATAACCCACTAGTTATGATCTTACACGATATGGTCTT-CTTCCA
* * * *
17932323 TATGATGCCATAACCCACCAGCTACGATCTTACACGATATGGTCTT
1 TATAATGCCATAACCCACTAGTTATGATCTTACACGATATGGTCTT
17932369 TTTCAGAGTC
Statistics
Matches: 264, Mismatches: 40, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
51 30 0.11
52 2 0.01
53 227 0.86
54 5 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (52 bp):
TATAATGCCATAACCCACTAGTTATGATCTTACACGATATGGTCTTCTTCCA
Found at i:17932303 original size:159 final size:159
Alignment explanation
Indices: 17932015--17932373 Score: 409
Period size: 159 Copynumber: 2.3 Consensus size: 159
17932005 CGTATAATGT
* * * *
17932015 CATAACCCACCAGTTATGATCTTACAC--TATGGCCTTCTTCTCGTATAATGCCATAACCCACTA
1 CATAACCCACCAGTTATGATCTTACACGATATGGTCTTCTTCACATATAATGCCATAACCCACCA
* * * * * ***
17932078 GTTATAACCTTGCACGATATGGTCTTCTTCCTATATAATTCCATAACCCACTAGTTATGGTCTTA
66 GTTACAACCTTCCACGATATGGTCTTCTTCCTATATAATGCCATAACCCACCAATTACAATCTTA
* * * *
17932143 CACGATATGGTCTTCTTCCCATATGATGC
131 CACAAGATGATCTTATTCCCATATGATGC
** * * *
17932172 CATAACCCATTAGTTATGGTCTTACACGATATGGTCTTCTTCACATATGATGCCATAACCTACCA
1 CATAACCCACCAGTTATGATCTTACACGATATGGTCTTCTTCACATATAATGCCATAACCCACCA
* * * * *
17932237 GTTACGATCTTCCATGATATGGTCTTCTTACC-ATATGATGCCATAACCCACCAATTACAATTTT
66 GTTACAACCTTCCACGATATGGTCTTCTT-CCTATATAATGCCATAACCCACCAATTACAATCTT
**
17932301 ACACAAGATGATCTTATTTTCATATGATGC
130 ACACAAGATGATCTTATTCCCATATGATGC
* * *
17932331 CATAACCCACCAGCTACGATCTTACACGATATGGTCTTTTTCA
1 CATAACCCACCAGTTATGATCTTACACGATATGGTCTTCTTCA
17932374 GAGTCATGGC
Statistics
Matches: 165, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
157 24 0.15
159 139 0.84
160 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (159 bp):
CATAACCCACCAGTTATGATCTTACACGATATGGTCTTCTTCACATATAATGCCATAACCCACCA
GTTACAACCTTCCACGATATGGTCTTCTTCCTATATAATGCCATAACCCACCAATTACAATCTTA
CACAAGATGATCTTATTCCCATATGATGC
Found at i:17932825 original size:16 final size:17
Alignment explanation
Indices: 17932799--17932831 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17932789 AAATAACTAG
*
17932799 ATGCAAAATTATCCTAA
1 ATGCAAAATTAACCTAA
17932816 ATGC-AAATTAACCTAA
1 ATGCAAAATTAACCTAA
17932832 GTGTGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (17 bp):
ATGCAAAATTAACCTAA
Found at i:17936512 original size:15 final size:15
Alignment explanation
Indices: 17936502--17936530 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17936492 ATTAATCTAA
17936502 TTAAACATAATTAAG
1 TTAAACATAATTAAG
17936517 TTAAACATAATTAA
1 TTAAACATAATTAA
17936531 AAATTTTGGT
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:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAACATAATTAAG
Found at i:17940273 original size:57 final size:58
Alignment explanation
Indices: 17940205--17940329 Score: 193
Period size: 57 Copynumber: 2.2 Consensus size: 58
17940195 CAATTCCAGG
17940205 TCCATTTTCATTTTTATTTTGGAGAAAA-C-TACATTCATTTCCAAATAATT-TCATTTC
1 TCCATTTTCATTTTTATTTTGGAGAAAACCGTA-A-TCATTTCCAAATAATTCTCATTTC
**
17940262 TCCATTTTCATTTTTATTTTGGAGAAAACCGTAATCATTTCCAAATGTTTCTCATTTC
1 TCCATTTTCATTTTTATTTTGGAGAAAACCGTAATCATTTCCAAATAATTCTCATTTC
17940320 TCCATTTTCA
1 TCCATTTTCA
17940330 CCATTTCTAT
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
57 42 0.67
58 19 0.30
59 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.47
Consensus pattern (58 bp):
TCCATTTTCATTTTTATTTTGGAGAAAACCGTAATCATTTCCAAATAATTCTCATTTC
Found at i:17949128 original size:17 final size:15
Alignment explanation
Indices: 17949100--17949146 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
17949090 AGTACATATG
*
17949100 CTTTCCCTTTTTTTT
1 CTTTTCCTTTTTTTT
*
17949115 CTCATTTTCTTTTTTTT
1 CT--TTTCCTTTTTTTT
17949132 CTTTTCCTTTTTTTT
1 CTTTTCCTTTTTTTT
17949147 ATCACGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 14 0.52
17 13 0.48
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTCCTTTTTTTT
Found at i:17956246 original size:20 final size:18
Alignment explanation
Indices: 17956221--17956257 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
17956211 ACCTAACACG
17956221 AATTAAATTTAAACCATATT
1 AATTAAA-TTAAA-CATATT
17956241 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
17956258 CAACATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:17962059 original size:41 final size:41
Alignment explanation
Indices: 17962002--17962092 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
17961992 AAATGTAATA
17962002 TTAGATTTTAATTGCATAACCAATTGATTGGGTTCTCTGTT
1 TTAGATTTTAATTGCATAACCAATTGATTGGGTTCTCTGTT
17962043 TTAGATTTTAATTGCATAACCAATTGATTGGGTTCTCTGTT
1 TTAGATTTTAATTGCATAACCAATTGATTGGGTTCTCTGTT
*
17962084 TTACATTTT
1 TTAGATTTT
17962093 TGGTTTTCAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (41 bp):
TTAGATTTTAATTGCATAACCAATTGATTGGGTTCTCTGTT
Found at i:17964610 original size:24 final size:24
Alignment explanation
Indices: 17964578--17964627 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
17964568 AATGCACAAG
17964578 TTAGTGCATACATACATAAATTAC
1 TTAGTGCATACATACATAAATTAC
17964602 TTAGTGCATACATACATAAATTAC
1 TTAGTGCATACATACATAAATTAC
17964626 TT
1 TT
17964628 GAATTAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (24 bp):
TTAGTGCATACATACATAAATTAC
Found at i:17965588 original size:17 final size:17
Alignment explanation
Indices: 17965566--17965600 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17965556 AAGTCCTTGA
17965566 ACTATTAAAATTTCAAC
1 ACTATTAAAATTTCAAC
*
17965583 ACTATTAATATTTCAAC
1 ACTATTAAAATTTCAAC
17965600 A
1 A
17965601 ATTTAGTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
ACTATTAAAATTTCAAC
Found at i:17969336 original size:9 final size:9
Alignment explanation
Indices: 17969322--17969353 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
17969312 TTAATTAATT
17969322 AATTTTTAA
1 AATTTTTAA
17969331 AATTTTT-A
1 AATTTTTAA
17969339 AATTTTTAA
1 AATTTTTAA
17969348 AATTTT
1 AATTTT
17969354 ATTGAACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
AATTTTTAA
Found at i:17970485 original size:5 final size:5
Alignment explanation
Indices: 17970475--17970506 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
17970465 ACAATTAATT
17970475 ATTTA ATTTA ATTTA ATTTA A-TTA A-TTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
17970507 TTCTTTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:17971507 original size:20 final size:19
Alignment explanation
Indices: 17971473--17971513 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17971463 TGATTGGCAG
*
17971473 TTTTATTTTCTTTCTTTGT
1 TTTTATTTTCTTTCTCTGT
*
17971492 TTTTCTTTTCCTTTCTCTGT
1 TTTTATTTT-CTTTCTCTGT
17971512 TT
1 TT
17971514 CTTTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTATTTTCTTTCTCTGT
Found at i:17971516 original size:18 final size:17
Alignment explanation
Indices: 17971493--17971536 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
17971483 TTTCTTTGTT
*
17971493 TTTCTTTTCCTTTCTCTG
1 TTTCTTTTCATTT-TCTG
*
17971511 TTTCTTTTAATTTTCTG
1 TTTCTTTTCATTTTCTG
*
17971528 TTTTTTTTC
1 TTTCTTTTC
17971537 TCTATAAGCG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTCTTTTCATTTTCTG
Found at i:17971529 original size:17 final size:18
Alignment explanation
Indices: 17971493--17971534 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17971483 TTTCTTTGTT
**
17971493 TTTCTTTTCCTTTCTCTG
1 TTTCTTTTAATTTCTCTG
17971511 TTTCTTTTAATTT-TCTG
1 TTTCTTTTAATTTCTCTG
17971528 TTT-TTTT
1 TTTCTTTT
17971535 TCTCTATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 11 0.50
ACGTcount: A:0.05, C:0.17, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTCTTTTAATTTCTCTG
Found at i:17977564 original size:43 final size:43
Alignment explanation
Indices: 17977516--17977597 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
17977506 AAGTCGGGTC
17977516 GGGTCGAATCAAGTGAAATTGTTCATGTTAGATTAAAAAATTA
1 GGGTCGAATCAAGTGAAATTGTTCATGTTAGATTAAAAAATTA
**
17977559 GGGTCGAATCGCGTGAAATTGTTCATGTTAGATTAAAAA
1 GGGTCGAATCAAGTGAAATTGTTCATGTTAGATTAAAAA
17977598 TTAAACATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (43 bp):
GGGTCGAATCAAGTGAAATTGTTCATGTTAGATTAAAAAATTA
Found at i:17977813 original size:10 final size:10
Alignment explanation
Indices: 17977800--17977856 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
17977790 CTTTACATAT
17977800 TTTTTTGAAA
1 TTTTTTGAAA
17977810 TTTTTT-AAA
1 TTTTTTGAAA
* *
17977819 ATTTTTAAAA
1 TTTTTTGAAA
17977829 TTTTTAT-AAA
1 TTTTT-TGAAA
*
17977839 TATTTTG-AA
1 TTTTTTGAAA
17977848 -TTTTTGAAA
1 TTTTTTGAAA
17977857 ATTATTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
8 5 0.13
9 13 0.33
10 20 0.51
11 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (10 bp):
TTTTTTGAAA
Found at i:17977823 original size:9 final size:9
Alignment explanation
Indices: 17977801--17977859 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
17977791 TTTACATATT
*
17977801 TTTTTGAAAT
1 TTTTT-AAAA
17977811 TTTTTAAAA
1 TTTTTAAAA
17977820 TTTTTAAAA
1 TTTTTAAAA
17977829 TTTTTATAAA
1 TTTTTA-AAA
*
17977839 TATTTT-GAA
1 T-TTTTAAAA
17977848 TTTTTGAAAA
1 TTTTT-AAAA
17977858 TT
1 TT
17977860 ATTTTAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 4 0.10
9 21 0.50
10 13 0.31
11 4 0.10
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:17977849 original size:19 final size:19
Alignment explanation
Indices: 17977808--17977869 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
17977798 ATTTTTTTGA
* *
17977808 AATTTTTTAAAATT-TTTAA
1 AATTTTTGAAAATTATTT-T
17977827 AATTTTT-ATAAA-TATTTT
1 AATTTTTGA-AAATTATTTT
17977845 GAATTTTTGAAAATTATTTT
1 -AATTTTTGAAAATTATTTT
17977865 AATTT
1 AATTT
17977870 CTTTTTGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 2 0.05
19 28 0.76
20 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
AATTTTTGAAAATTATTTT
Found at i:17980462 original size:8 final size:8
Alignment explanation
Indices: 17980449--17980478 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
17980439 GAGTAGGCCC
17980449 ATGATCCA
1 ATGATCCA
17980457 ATGATCCA
1 ATGATCCA
*
17980465 ATGATCCC
1 ATGATCCA
17980473 ATGATC
1 ATGATC
17980479 TTTTTCCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (8 bp):
ATGATCCA
Found at i:17981159 original size:5 final size:5
Alignment explanation
Indices: 17981149--17981173 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17981139 TTGTAATGGA
17981149 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
17981174 TCTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:17983708 original size:65 final size:65
Alignment explanation
Indices: 17983603--17983744 Score: 194
Period size: 65 Copynumber: 2.2 Consensus size: 65
17983593 TTAAGGCCTA
* * * * *
17983603 TGTTTAGGGTTTTAGGGTTTAATTAGGGTTTAGGATAAATTAAATTAAAGTATTATGTTTTTAAT
1 TGTTTAGAGTTTTAGGGTTTAATTAAGGTTTAGGAAAAATTAAAGTAAAGTATTATATTTTTAAT
* * **
17983668 TGTTTAGAGTTTTAGGGTTTTATTAAGGTTTAGGAAAAATTGAAGTACGGTATTATATTTTTAAT
1 TGTTTAGAGTTTTAGGGTTTAATTAAGGTTTAGGAAAAATTAAAGTAAAGTATTATATTTTTAAT
*
17983733 TGTTTAGTGTTT
1 TGTTTAGAGTTT
17983745 AGGAAAAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.49
Consensus pattern (65 bp):
TGTTTAGAGTTTTAGGGTTTAATTAAGGTTTAGGAAAAATTAAAGTAAAGTATTATATTTTTAAT
Found at i:17983748 original size:46 final size:46
Alignment explanation
Indices: 17983694--17983790 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
17983684 GTTTTATTAA
** * * *
17983694 GGTTTAGGAAAAATTGAAGTACGGTATTATATTTTTAATTGTTTAG
1 GGTTTAGGAAAAATACAAGTACGGTATTAGATTTTAAATTATTTAG
* * *
17983740 TGTTTAGGAAAAATACAATTAGGGTATTAGATTTTAAATTATTTAG
1 GGTTTAGGAAAAATACAAGTACGGTATTAGATTTTAAATTATTTAG
17983786 GGTTT
1 GGTTT
17983791 TAAGGTTTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (46 bp):
GGTTTAGGAAAAATACAAGTACGGTATTAGATTTTAAATTATTTAG
Found at i:17983908 original size:29 final size:29
Alignment explanation
Indices: 17983834--17983909 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
17983824 TCTGGGAAAT
* *
17983834 ATAATTTTGACAAGATGGGTTCTGAAAAA
1 ATAATTTTAACGAGATGGGTTCTGAAAAA
* * * *
17983863 ATAAATTTACCGTGATGTGTTCTGAAAAA
1 ATAATTTTAACGAGATGGGTTCTGAAAAA
17983892 A-ATATTTTAACGAGATGG
1 ATA-ATTTTAACGAGATGG
17983910 ATTTTGTTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (29 bp):
ATAATTTTAACGAGATGGGTTCTGAAAAA
Found at i:17985080 original size:40 final size:40
Alignment explanation
Indices: 17985026--17985123 Score: 97
Period size: 40 Copynumber: 2.5 Consensus size: 40
17985016 GCGTTTGTAT
* *
17985026 AAAAACACCGCTAAAAATCAAGCATTACCGACACTTTTAA
1 AAAAACGCCACTAAAAATCAAGCATTACCGACACTTTTAA
* * * * * * **
17985066 AAAAATGCCACTAAAGATCGAGTATTAGCGACGCTTTTTG
1 AAAAACGCCACTAAAAATCAAGCATTACCGACACTTTTAA
*
17985106 AAAAACGTCACTAAAAAT
1 AAAAACGCCACTAAAAAT
17985124 GAGTATTAGC
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.22
Consensus pattern (40 bp):
AAAAACGCCACTAAAAATCAAGCATTACCGACACTTTTAA
Found at i:17985266 original size:41 final size:41
Alignment explanation
Indices: 17985200--17985389 Score: 256
Period size: 41 Copynumber: 4.6 Consensus size: 41
17985190 TTTTCAGGGA
* * ** *
17985200 TTTAGCGGCGTTTCT-CAAGAAGCGCCGCTAATGCTCGGGGC
1 TTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGCTCTAGTC
* *
17985241 TTTAGCGGCGTTTTTGGAAATGCGCCGCTAATGTTCTAGTC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTAGTC
*
17985282 TTTAGCGGCGTTTTTGGAAAAGCACCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTAGTC
* *
17985323 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTAGTC
* *
17985364 TTTAGCAGCGTTTTTGGAAAAACGCC
1 TTTAGCGGCGTTTTTGGAAAAGCGCC
17985390 ACAAAAAGTA
Statistics
Matches: 132, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 130 0.98
42 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTAGTC
Found at i:17985913 original size:14 final size:15
Alignment explanation
Indices: 17985896--17985933 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17985886 ATTTATGATT
17985896 TAGGGTTTAAGAG-A
1 TAGGGTTTAAGAGTA
* *
17985910 TAGGGGTTAAGAGTT
1 TAGGGTTTAAGAGTA
17985925 TAGGGTTTA
1 TAGGGTTTA
17985934 GATTAATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (15 bp):
TAGGGTTTAAGAGTA
Found at i:17988232 original size:15 final size:15
Alignment explanation
Indices: 17988206--17988246 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
17988196 ATTGTATAGA
17988206 AATAATATAAATAAAT
1 AATAA-ATAAATAAAT
17988222 AATAAATAAATAAAT
1 AATAAATAAATAAAT
17988237 AA-AAATAAAT
1 AATAAATAAAT
17988247 CAATGACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.32
15 12 0.48
16 5 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAATAAATAAAT
Found at i:17988246 original size:4 final size:4
Alignment explanation
Indices: 17988205--17988239 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
17988195 AATTGTATAG
17988205 AAAT AATAT AAAT AAAT -AAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
17988240 AATAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:17988740 original size:23 final size:24
Alignment explanation
Indices: 17988698--17988746 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
17988688 ATATTAGTTG
17988698 AAAAAAAATAAATATGTACATATAT
1 AAAAAAAATAAATA-GTACATATAT
*
17988723 AAAAGAAATAAATA-TACATATAT
1 AAAAAAAATAAATAGTACATATAT
17988746 A
1 A
17988747 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.43
25 13 0.57
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAAAAATAAATAGTACATATAT
Found at i:17988765 original size:25 final size:27
Alignment explanation
Indices: 17988752--17988805 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
17988742 ATATATATTT
17988752 AAAAAATAATTACATATGAAAATTATAA
1 AAAAAATAATTACATATGAAAATTAT-A
*
17988780 AAAAAATAATTACATTATTAAAATTA
1 AAAAAATAATTACA-TATGAAAATTA
17988806 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAAATAATTACATATGAAAATTATA
Found at i:17992450 original size:43 final size:43
Alignment explanation
Indices: 17992389--17992474 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
17992379 CAATGATGTA
* * * *
17992389 CAAGATTTCCTTTATTAAGTAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
* *
17992432 CAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
17992475 TTTGCATATG
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:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
Found at i:17992863 original size:43 final size:43
Alignment explanation
Indices: 17992723--17993028 Score: 357
Period size: 43 Copynumber: 7.2 Consensus size: 43
17992713 GATATGTTTT
* * *
17992723 TAGC-GCGTTTGTGTGAAAAGCGCCGCTAAAGGTC-TGATCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
17992764 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * ** * *
17992806 TAGTGGCATTTGTGGGAAAAGCTTCGCTAAAAGTGATTATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* *
17992849 TAGCGGCGTTTGTGGGAACAGCGCCGCTAAAAGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
*
17992892 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
17992935 TAGCGGCGTTTATAGGAAAAACGCCGCTAAAAGTCATGATCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * * * * *
17992978 TAGCGACGTTTGTTGAAAAAGTGCCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
17993021 TAGCGGCG
1 TAGCGGCG
17993029 GTGTCAATAG
Statistics
Matches: 227, Mismatches: 36, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
41 4 0.02
42 63 0.28
43 160 0.70
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:17994121 original size:29 final size:28
Alignment explanation
Indices: 17994073--17994141 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
17994063 GCTATTATAA
* *
17994073 AAAAAATATAAA-AAATATTAATTATATT
1 AAAAAAT-TAAATAAAAATTAATAATATT
17994101 ATAAAAATTAAATAAAAATTAATAATATT
1 A-AAAAATTAAATAAAAATTAATAATATT
*
17994130 AAAAAATGAAAT
1 AAAAAATTAAAT
17994142 TAACCCTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 15 0.42
29 21 0.58
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAAAATTAAATAAAAATTAATAATATT
Found at i:17999065 original size:278 final size:279
Alignment explanation
Indices: 17997634--17999434 Score: 2145
Period size: 278 Copynumber: 6.4 Consensus size: 279
17997624 AATTTTAGAA
* * * *
17997634 ATATTGTAATTATTATAAAATAGTGAATATTGACGCCATAATTTAGACCTATCCTAAATTATAGT
1 ATATAGTAATTATTATAAAATAATGAATATTGGCGCCATAATTTAGACCTATCCTAAATTATAGC
** * *
17997699 GTTATAACTTAAATCTAAATATTTTGTTTATTTACCCTTATTAAAATCTTTCTTTAAGCTTAACA
66 GTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACT-AAATCTTTCTTTAAGCTTAACA
* * *
17997764 TCAAGAATTG-CGT-AACTCAATTGTAGAAATTATTAAGCATAAATTTTAAAAAGAATAATATTA
130 TCATGAA-TGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTT-TAAA-AA-AATATTA
* * * * *
17997827 TTGTTTAAATCTAAACATTAATTTCATTTTTTACTTACTAAATCTATCATTAATCTTAACGTCAC
191 TTGTTTAAATCTAAACATTAATTCCA-TTTTTACTTACTAAATCTATCATTGAGCTTAACATGAC
* * * * *
17997892 GAATAACCATCAACTAAATTTTAAAA
255 CAATGA-CGTCAACTAAATTATAAAG
* * * ** * * *
17997918 ATATAGTAAAT-TTATAAAATAATAAATAATT-TCATCATAAATTAGACATATCCTAAATTATTG
1 ATATAGTAATTATTATAAAATAATGAAT-ATTGGCGCCATAATTTAGACCTATCCTAAATTATAG
** * * * *
17997981 CGTTATTGCTTAAATCTAAACATTAC-TTTCATTTATACTTACTGAATCTTTCTTTAAGCTTTAC
65 CGTTATAACTTAAATCTAAATATTACGTTT-ATTTACACTTACTAAATCTTTCTTTAAGCTTAAC
* * *
17998045 ATCATGAATCACGTCAACTCAATTGTAAAAATTATTAAACATAAAATTTTAAAAAATATATTATT
129 ATCATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTTAAAAAA-ATATTATT
* * * * * * *
17998110 GTTTAAATCTGAACATTAATTTCATTTTTACTTACTAAATATACCATTGAGCTTAATACGACAAA
193 GTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCAA
* * **
17998175 TGGCGTCAAGTTTATTATAAAG
258 TGACGTCAACTAAATTATAAAG
* * * *
17998197 ATATAGTAATTATCAT-AAATAATGAATATTGGTGCCATAATTTAGACCTAACCTAAATTATAGT
1 ATATAGTAATTATTATAAAATAATGAATATTGGCGCCATAATTTAGACCTATCCTAAATTATAGC
*
17998261 GTTATAACTTAAATCTAAATATATATTACGTTTATTTACACTTACTAAATCTTT-TTTAAGTTTA
66 GTTATAACTTAAATCT--A-A-ATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTA
* * * *
17998325 ATATCATGAATGACGTTAACTCAATTGTAGATATGATTAAACATAAATTTTATAAAAATAATATT
127 ACATCATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTT-TAAAAA-AATATT
* *
17998390 ATTGTTTAAATCTAAACAGTAGTTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGAC
190 ATTGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGAC
*
17998455 CGATGACGTCAACTAAATTATAAAG
255 CAATGACGTCAACTAAATTATAAAG
*
17998480 ATATAGTAATTATGATAAAATAATGAATATTGGCGCCATAATTTAGACCTATCCTAAATTATAGC
1 ATATAGTAATTATTATAAAATAATGAATATTGGCGCCATAATTTAGACCTATCCTAAATTATAGC
* * * * ** *
17998545 ATTATAACTTGAATCTAAATATTATGTTTATTTACACTTATTATTTTTTTCTTTAAGCTTAACAT
66 GTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAACAT
* **
17998610 CATGAATGAC-TCAACTC-ATTGTAGAAATGATTAAACAT-AATTTATTTTAAAAATATTATTGT
131 CATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTT-TTAAAAAAATATTATTGT
*
17998672 TTAAATATAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCAATG
195 TTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCAATG
*
17998737 ACATCAACTAAATTATAAAG
260 ACGTCAACTAAATTATAAAG
* * * * *
17998757 AAATAATAATTATGATAAAATAATGAATATTGGCACCATAATTTAGACTTATCCTAAATTATAGC
1 ATATAGTAATTATTATAAAATAATGAATATTGGCGCCATAATTTAGACCTATCCTAAATTATAGC
* * * * *
17998822 GTTCTAACTTGAATCTACATATTCCGTTTATTTACACTTACTAAATCTTTTTTTAAGCTTAACAT
66 GTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAACAT
* * * *** *
17998887 TATGAATGACATCAACTCAATTGCAGAAATTATTAAACAT-AATTTTTTTTAAAATATTGTTGTT
131 CATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTTAAAAAAATATTATTGTT
* *
17998951 TAAATCTAAACATTAATTCCATTTTTATTTACTAAATCTATCATCGAGCTTAACATGACCAATGA
196 TAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCAATGA
* * *
17999016 CGTTAACTAGATTATAGAG
261 CGTCAACTAAATTATAAAG
* *
17999035 ATATAGTAATTATTATAAAATAATGAATATTAGCGTCATAATTTAGACCTATCCTAAATTATAGC
1 ATATAGTAATTATTATAAAATAATGAATATTGGCGCCATAATTTAGACCTATCCTAAATTATAGC
* * * * * * *
17999100 GTTATGACTTGAATCTAAACATCACTTTTATTTACACTTACTATATCTTTCTTTATGCTTAACAT
66 GTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAACAT
* * * * *
17999165 AATGAAT-AGCGTCAATTCAATTGAAGAAATTATTAAACATAATTTTTTAAAAAATAGTATAATT
131 CATGAATGA-CGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTTAAAAAA-A-TATTATT
* * * * *
17999229 GTTTAAGTCTAAACATTAATTCCA-TTTTACTTACTAATTCTATTATTGAGCTTGACATGACGAA
193 GTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCAA
* *
17999293 TGGCGTCAACTAAATTATAGAG
258 TGACGTCAACTAAATTATAAAG
* * * ** * *
17999315 ATATAGTAATTATTATAAAACAATAAATATTGGCACCATAATTTAGATTTATCCTAAATTACAAC
1 ATATAGTAATTATTATAAAATAATGAATATTGGCGCCATAATTTAGACCTATCCTAAATTATAGC
* * * ** *
17999380 GCTATAACTTAAACCTAATTATTATTTTTATTTACACTAACTAAAAT-TTTCTTTA
66 GTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACT-AAATCTTTCTTTA
17999435 CTTACTAAAT
Statistics
Matches: 1304, Mismatches: 189, Indels: 52
0.84 0.12 0.03
Matches are distributed among these distances:
277 217 0.17
278 260 0.20
279 125 0.10
280 221 0.17
281 89 0.07
282 89 0.07
283 228 0.17
284 75 0.06
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (279 bp):
ATATAGTAATTATTATAAAATAATGAATATTGGCGCCATAATTTAGACCTATCCTAAATTATAGC
GTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAACAT
CATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTTAAAAAAATATTATTGTT
TAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCAATGA
CGTCAACTAAATTATAAAG
Found at i:18000363 original size:28 final size:28
Alignment explanation
Indices: 18000323--18000378 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
18000313 TCTCAAGGTG
18000323 GGTGACACCCATAATTGTTTTTGGTTTT
1 GGTGACACCCATAATTGTTTTTGGTTTT
18000351 GGTGACACCCATAATTGTTTTTGGTTTT
1 GGTGACACCCATAATTGTTTTTGGTTTT
18000379 CTTTTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.46
Consensus pattern (28 bp):
GGTGACACCCATAATTGTTTTTGGTTTT
Found at i:18000411 original size:9 final size:10
Alignment explanation
Indices: 18000380--18000421 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
18000370 TTTGGTTTTC
18000380 TTTTTGTTA-
1 TTTTTGTTAT
18000389 TTTTTGTTAT
1 TTTTTGTTAT
* *
18000399 TTTTTTTTGT
1 TTTTTGTTAT
*
18000409 TTTTTGATAT
1 TTTTTGTTAT
18000419 TTT
1 TTT
18000422 GGTTTGCAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (10 bp):
TTTTTGTTAT
Found at i:18000412 original size:20 final size:23
Alignment explanation
Indices: 18000375--18000421 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 23
18000365 TTGTTTTTGG
*
18000375 TTTTCTTTTTGTTATTTTTGTTA
1 TTTTCTTTTTGTTATTTTTGATA
18000398 TTTT-TTTTTG-T-TTTTTGATA
1 TTTTCTTTTTGTTATTTTTGATA
18000418 TTTT
1 TTTT
18000422 GGTTTGCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 1 0.04
22 6 0.26
23 4 0.17
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.81
Consensus pattern (23 bp):
TTTTCTTTTTGTTATTTTTGATA
Found at i:18000427 original size:20 final size:20
Alignment explanation
Indices: 18000389--18000427 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18000379 CTTTTTGTTA
* **
18000389 TTTTTGTTATTTTTTTTTGT
1 TTTTTGATATTTTGGTTTGT
18000409 TTTTTGATATTTTGGTTTG
1 TTTTTGATATTTTGGTTTG
18000428 CAGAATAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (20 bp):
TTTTTGATATTTTGGTTTGT
Found at i:18002221 original size:21 final size:21
Alignment explanation
Indices: 18002197--18002243 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
18002187 TGACGATGAT
*
18002197 GATGATGAGGAGGAGGAAGAG
1 GATGATGAGGAAGAGGAAGAG
*
18002218 GATGATGAGGAAGAGGATGAG
1 GATGATGAGGAAGAGGAAGAG
18002239 GATGA
1 GATGA
18002244 GGATGCTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.49, T:0.13
Consensus pattern (21 bp):
GATGATGAGGAAGAGGAAGAG
Found at i:18002229 original size:15 final size:15
Alignment explanation
Indices: 18002209--18002237 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18002199 TGATGAGGAG
18002209 GAGGAAGAGGATGAT
1 GAGGAAGAGGATGAT
18002224 GAGGAAGAGGATGA
1 GAGGAAGAGGATGA
18002238 GGATGAGGAT
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:0.41, C:0.00, G:0.48, T:0.10
Consensus pattern (15 bp):
GAGGAAGAGGATGAT
Found at i:18002259 original size:15 final size:15
Alignment explanation
Indices: 18002239--18002267 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18002229 AGAGGATGAG
18002239 GATGAGGATGCTGAT
1 GATGAGGATGCTGAT
18002254 GATGAGGATGCTGA
1 GATGAGGATGCTGA
18002268 CGAAGGAAGT
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:0.07, G:0.41, T:0.24
Consensus pattern (15 bp):
GATGAGGATGCTGAT
Found at i:18014030 original size:3 final size:3
Alignment explanation
Indices: 18014022--18014065 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18014012 TTCTTTGTCT
18014022 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
18014066 TTTAAGCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:18019910 original size:17 final size:18
Alignment explanation
Indices: 18019884--18019917 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18019874 ATGAACTACA
18019884 AATAACCAATA-AATACC
1 AATAACCAATACAATACC
*
18019901 AATAAGCAATACAATAC
1 AATAACCAATACAATAC
18019918 GCACAAGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (18 bp):
AATAACCAATACAATACC
Found at i:18020161 original size:13 final size:11
Alignment explanation
Indices: 18020136--18020166 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
18020126 TGAAAGTTTG
18020136 AAATAAATTAA
1 AAATAAATTAA
18020147 AAATATAATTAA
1 AAATA-AATTAA
18020159 AAATAAAT
1 AAATAAAT
18020167 ACTACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATAAATTAA
Found at i:18022610 original size:30 final size:31
Alignment explanation
Indices: 18022571--18022630 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
18022561 GGAGGTGGGA
**
18022571 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
* *
18022602 TGGG-AGGGAGTAAAAAATTTGGGGGAAAA
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAA
18022631 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
Found at i:18026158 original size:16 final size:16
Alignment explanation
Indices: 18026139--18026180 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
18026129 TTAAACTTAA
18026139 TATTTTTTCTTTATTT
1 TATTTTTTCTTTATTT
18026155 TATTTTATT-TTTATTT
1 TATTTT-TTCTTTATTT
*
18026171 T-TCTTTTCTT
1 TATTTTTTCTT
18026181 CTTCCTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 5 0.22
16 14 0.61
17 2 0.09
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTTTCTTTATTT
Found at i:18026193 original size:22 final size:24
Alignment explanation
Indices: 18026168--18026219 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
18026158 TTTATTTTTA
*
18026168 TTTTTCTTTTCT-TC-TTCCTTCT
1 TTTTTCTATTCTATCGTTCCTTCT
18026190 TTTTTCTATTCTATCGTTCCTTCT
1 TTTTTCTATTCTATCGTTCCTTCT
18026214 TTTTTC
1 TTTTTC
18026220 CTCTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 11 0.41
23 2 0.07
24 14 0.52
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTTCTATTCTATCGTTCCTTCT
Found at i:18029696 original size:30 final size:31
Alignment explanation
Indices: 18029657--18029716 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
18029647 GGAGGTGGGA
**
18029657 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
* *
18029688 TGGG-AGGGAGTAAAAAATTTGGGGGAAAA
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAA
18029717 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
Found at i:18029747 original size:163 final size:163
Alignment explanation
Indices: 18029574--18030030 Score: 473
Period size: 164 Copynumber: 2.8 Consensus size: 163
18029564 AAGTAAATAG
** * **
18029574 GGGGAGTAAAATTTTGGAGGGAAAAT-AT-TA-A-AAAAAAATTGGAGGGGGGA-GG-GTTTGGG
1 GGGGAGTAAAATTTTGGAGAAAAAATAATGGAGAGAAAAAAATTGG-GGGGAAATGGAGTTTGGG
*
18029633 ATAGATGGGAGGTGGGAGGTGGGATGGGAAGGGAATAAAAGTTTT-AGGGGAAAAGTGGGAGGGA
65 -TAGAT---AGG-GGG-GGTGGGAGGGGAAGGGAATAAAAGTTTTGAGGGGAAAAGTGGGAGGGA
18029697 GTAAAAAATTTGGGGGAAAATAAAAGGTTTTGAGGGTTTT
124 GTAAAAAATTTGGGGGAAAATAAAAGGTTTTGAGGGTTTT
* ** * *
18029737 GGGGAGTAAAATTTT-GAGAAAAAATAAATGGGAGAGTAAAATTTTGGTGGGAAATGGATTTTGG
1 GGGGAGTAAAATTTTGGAGAAAAAAT-AAT-GGAGAGAAAAAAATTGGGGGGAAATGGAGTTTGG
* * * * * *
18029801 GTAGATTGGGGGGTTGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGGAAAGTGGGAGGGAGTAAA
64 GTAGATAGGGGGGGTGGGAGGGGAAGGGAATAAAAGTTTTGAGGGGAAAAGTGGGAGGGAGTAAA
*
18029866 AATTTTGGGGGAAAATAAAAGGTTTTGAGGGTTTT
129 AAATTTGGGGGAAAATAAAAGGTTTTGAGGGTTTT
* * ** * *
18029901 TGGGAGTAAAATTTT-GAGAAAAAATAAATGGGAGAGTAAAATTTTGGTGGGAAATGGATTTTGG
1 GGGGAGTAAAATTTTGGAGAAAAAAT-AAT-GGAGAGAAAAAAATTGGGGGGAAATGGAGTTTGG
* * * * * * *
18029965 GTAGATTGGGGGGTTGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGGAAAGTGGGAAGGAGTAAA
64 GTAGATAGGGGGGGTGGGAGGGGAAGGGAATAAAAGTTTTGAGGGGAAAAGTGGGAGGGAGTAAA
18030030 A
129 A
18030031 GTTTTGAAGG
Statistics
Matches: 265, Mismatches: 20, Indels: 17
0.88 0.07 0.06
Matches are distributed among these distances:
162 8 0.03
163 39 0.15
164 189 0.71
165 2 0.01
166 1 0.00
167 5 0.02
168 15 0.06
169 6 0.02
ACGTcount: A:0.34, C:0.00, G:0.42, T:0.24
Consensus pattern (163 bp):
GGGGAGTAAAATTTTGGAGAAAAAATAATGGAGAGAAAAAAATTGGGGGGAAATGGAGTTTGGGT
AGATAGGGGGGGTGGGAGGGGAAGGGAATAAAAGTTTTGAGGGGAAAAGTGGGAGGGAGTAAAAA
ATTTGGGGGAAAATAAAAGGTTTTGAGGGTTTT
Found at i:18029882 original size:164 final size:164
Alignment explanation
Indices: 18029652--18030056 Score: 686
Period size: 164 Copynumber: 2.5 Consensus size: 164
18029642 AGGTGGGAGG
* * * * * *
18029652 TGGGATGGGAAGGGAATAAAAGTTTT-AGGGGAAAAGTGGGAGGGAGTAAAAAATTTGGGGGAAA
1 TGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGGAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAA
18029716 ATAAAAGGTTTTGAGGGTTTTGGGGAGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTT
66 ATAAAAGGTTTTGAGGGTTTTGGGGAGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTT
18029781 TGGTGGGAAATGGATTTTGGGTAGATTGGGGGGT
131 TGGTGGGAAATGGATTTTGGGTAGATTGGGGGGT
18029815 TGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGGAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGGAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAA
*
18029880 ATAAAAGGTTTTGAGGGTTTTTGGGAGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTT
66 ATAAAAGGTTTTGAGGGTTTTGGGGAGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTT
18029945 TGGTGGGAAATGGATTTTGGGTAGATTGGGGGGT
131 TGGTGGGAAATGGATTTTGGGTAGATTGGGGGGT
* * **
18029979 TGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGGAAAGTGGGAAGGAGTAAAAGTTTTGAAGGAAA
1 TGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGGAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAA
18030044 AGTAAAAAGGTTT
66 A-T-AAAAGGTTT
18030057 GGGAGTTTGG
Statistics
Matches: 228, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
163 23 0.10
164 195 0.86
165 1 0.00
166 9 0.04
ACGTcount: A:0.34, C:0.00, G:0.40, T:0.25
Consensus pattern (164 bp):
TGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGGAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAA
ATAAAAGGTTTTGAGGGTTTTGGGGAGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTT
TGGTGGGAAATGGATTTTGGGTAGATTGGGGGGT
Found at i:18030571 original size:2 final size:2
Alignment explanation
Indices: 18030566--18030595 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18030556 AAAAATGTAA
18030566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18030596 GAAAGATGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18036002 original size:22 final size:20
Alignment explanation
Indices: 18035955--18035994 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18035945 ATTTATAAAG
*
18035955 ATTTTTATAATTTTATATTC
1 ATTTTTATAATATTATATTC
18035975 ATTTTTATAAAGTATTATAT
1 ATTTTTAT-AA-TATTATAT
18035995 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 2 0.12
22 7 0.41
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
ATTTTTATAATATTATATTC
Found at i:18037409 original size:22 final size:23
Alignment explanation
Indices: 18037356--18037409 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
18037346 TAGAGAAACG
*
18037356 GAAGAAATAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
18037380 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
18037401 GAAGAAAAA
1 GAAGAAAAA
18037410 ATAAGGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.31, T:0.02
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Found at i:18039825 original size:16 final size:15
Alignment explanation
Indices: 18039794--18039835 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
18039784 ACAAAATCAA
*
18039794 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
18039809 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
18039825 ATAAAAATTAA
1 ATAAAAGTTAA
18039836 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:18039915 original size:38 final size:38
Alignment explanation
Indices: 18039872--18039953 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
18039862 AAAAAGTCAG
18039872 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
18039910 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
18039948 TTATAA
1 TTATAA
18039954 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:18040063 original size:60 final size:60
Alignment explanation
Indices: 18039987--18040108 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
18039977 ATACTAAACT
* * * * * *
18039987 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATT-AATTATAAAATAATTAC
*
18040047 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
18040107 AA
1 AA
18040109 TATTCATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 4 0.07
60 50 0.93
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:18040136 original size:8 final size:8
Alignment explanation
Indices: 18040123--18040284 Score: 53
Period size: 8 Copynumber: 19.4 Consensus size: 8
18040113 CATACAAAAA
18040123 ATTACAAT
1 ATTACAAT
18040131 ATTACAAT
1 ATTACAAT
* * *
18040139 ATATCCCGAC
1 AT-T-ACAAT
18040149 ATTACAAT
1 ATTACAAT
*
18040157 ATTCATACAAA
1 A-T--TACAAT
18040168 ATTACAAT
1 ATTACAAT
18040176 ATTACAAT
1 ATTACAAT
18040184 ATT-C-AT
1 ATTACAAT
** * *
18040190 ACAAAAAA
1 ATTACAAT
*
18040198 ATTGCAAT
1 ATTACAAT
*
18040206 ATTCATACAAA
1 A-T--TACAAT
*
18040217 ATTATAAT
1 ATTACAAT
18040225 ATTACAAT
1 ATTACAAT
18040233 ATT-C-AT
1 ATTACAAT
** * *
18040239 ACAAAAAA
1 ATTACAAT
18040247 ATTACAAT
1 ATTACAAT
*
18040255 ATTCATACAAA
1 A-T--TACAAT
18040266 ATTACAAT
1 ATTACAAT
18040274 ATTACAAT
1 ATTACAAT
18040282 ATT
1 ATT
18040285 CATACAAAAA
Statistics
Matches: 107, Mismatches: 32, Indels: 30
0.63 0.19 0.18
Matches are distributed among these distances:
6 6 0.06
7 2 0.02
8 70 0.65
9 5 0.05
10 7 0.07
11 17 0.16
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (8 bp):
ATTACAAT
Found at i:18040226 original size:49 final size:49
Alignment explanation
Indices: 18040096--18040344 Score: 353
Period size: 49 Copynumber: 5.1 Consensus size: 49
18040086 AATTAATTAT
* *
18040096 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTGCAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** * *
18040144 -CCGACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
18040192 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
18040241 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
18040290 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
18040339 AAAAAA
1 AAAAAA
18040345 TATTCATACA
Statistics
Matches: 181, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
45 20 0.11
46 1 0.01
47 18 0.10
48 1 0.01
49 141 0.78
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (49 bp):
AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:18040250 original size:30 final size:27
Alignment explanation
Indices: 18040149--18040388 Score: 240
Period size: 27 Copynumber: 9.1 Consensus size: 27
18040139 ATATCCCGAC
18040149 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
18040176 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
18040198 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
18040225 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
18040247 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
18040274 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* * *
18040296 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
18040323 ATTACAATATTCATACAAAAAATATTCATACAAA
1 ATTACAATATTCATAC---AAA-A-T--TACAAT
18040357 ATTACAATATTCATACAAAAAATTACAAT
1 ATTACAATATTCATAC--AAAATTACAAT
18040386 ATT
1 ATT
18040389 CATACAAATT
Statistics
Matches: 183, Mismatches: 8, Indels: 42
0.79 0.03 0.18
Matches are distributed among these distances:
22 46 0.25
23 15 0.08
24 3 0.02
25 3 0.02
26 15 0.08
27 62 0.34
29 8 0.04
30 3 0.02
31 2 0.01
32 1 0.01
33 5 0.03
34 20 0.11
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:18040348 original size:15 final size:15
Alignment explanation
Indices: 18040328--18040379 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 15
18040318 ATAATATTAC
18040328 AATATTCATACAAAA
1 AATATTCATACAAAA
18040343 AATATTCATACAAAATTA
1 AATATTCATAC-AAA--A
18040361 CAATATTCATACAAAA
1 -AATATTCATACAAAA
18040377 AAT
1 AAT
18040380 TACAATATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 14 0.42
16 4 0.12
18 4 0.12
19 11 0.33
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (15 bp):
AATATTCATACAAAA
Found at i:18040421 original size:82 final size:81
Alignment explanation
Indices: 18040268--18040477 Score: 214
Period size: 82 Copynumber: 2.6 Consensus size: 81
18040258 CATACAAAAT
* * ** *
18040268 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTACAATAT
1 TACAAAATTACAATATTCATAC-AAAAAATTACAATATTCATACAAAACTATAATACCAAAATAT
**
18040333 TCATACAAAAA-ATATTCA
65 AAATACAAAAATA-ATT-A
*
18040351 TACAAAATTACAATATTCATACAAAAAATTACAATATTCATAC-AAATTACTAAT-CCAAAACTA
1 TACAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAACTA-TAATACCAAAA-TA
**
18040414 TAAATACAAATTTAATTA
64 TAAATACAAAAATAATTA
* * *
18040432 TAAAATAATTACAATATTCATAC--AACATTACAATATTCATAAAAAA
1 TACAA-AATTACAATATTCATACAAAAAATTACAATATTCATACAAAA
18040478 ATTACAATAT
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
80 17 0.16
81 16 0.15
82 54 0.50
83 22 0.20
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (81 bp):
TACAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAACTATAATACCAAAATATA
AATACAAAAATAATTA
Found at i:18040508 original size:22 final size:21
Alignment explanation
Indices: 18040343--18040519 Score: 151
Period size: 21 Copynumber: 8.7 Consensus size: 21
18040333 TCATACAAAA
18040343 AATATTCATAC--AAAATTAC
1 AATATTCATACAAAAAATTAC
18040362 AATATTCATACAAAAAATTAC
1 AATATTCATACAAAAAATTAC
18040383 AATATTCATAC---AAATTAC
1 AATATTCATACAAAAAATTAC
* * * * *
18040401 TA-ATCCAAAACTATAAA-TAC
1 AATATTC-ATACAAAAAATTAC
* *
18040421 AA-ATTTAATTATAAAATAATTAC
1 AATA-TTCA-TACAAAA-AATTAC
*
18040444 AATATTCATAC--AACATTAC
1 AATATTCATACAAAAAATTAC
18040463 AATATTCATA-AAAAAATTAC
1 AATATTCATACAAAAAATTAC
*
18040483 AATATTCATACAAAAAAGTTAG
1 AATATTCATACAAAAAA-TTAC
18040505 AATATTCATACAAAA
1 AATATTCATACAAAA
18040520 TTCTAATCTA
Statistics
Matches: 128, Mismatches: 15, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
17 3 0.02
18 11 0.09
19 26 0.20
20 25 0.20
21 32 0.25
22 22 0.17
23 8 0.06
24 1 0.01
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.31
Consensus pattern (21 bp):
AATATTCATACAAAAAATTAC
Found at i:18040509 original size:61 final size:60
Alignment explanation
Indices: 18040268--18040518 Score: 234
Period size: 61 Copynumber: 4.1 Consensus size: 60
18040258 CATACAAAAT
*
18040268 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTACAATAT
1 TACAA-ATTACAATATTCAT--AAAAAAATTACAATATTCATAC-AAA--AT-A-ATTACAATAT
18040333 TCA
58 TCA
*
18040336 TACAAA--A-AATATTCAT-ACAAAATTACAATATTCATACAAAA-AATTACAATATTCA
1 TACAAATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAATTACAATATTCA
* * * *
18040391 TACAAATTACTA-ATCCA-AAACTATAAA-TACAA-ATTTAATTATAAAATAATTACAATATTCA
1 TACAAATTACAATATTCATAAA--A-AAATTACAATA-TTCA-TACAAAATAATTACAATATTCA
*
18040452 TACAACATTACAATATTCATAAAAAAATTACAATATTCATACAAAA-AAGTTAGAATATTCA
1 TACAA-ATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAA-TTACAATATTCA
18040513 TACAAA
1 TACAAA
18040519 ATTCTAATCT
Statistics
Matches: 155, Mismatches: 12, Indels: 40
0.75 0.06 0.19
Matches are distributed among these distances:
55 19 0.12
56 1 0.01
57 6 0.04
58 3 0.02
59 9 0.06
60 15 0.10
61 63 0.41
62 15 0.10
63 5 0.03
64 12 0.08
65 1 0.01
67 1 0.01
68 5 0.03
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (60 bp):
TACAAATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAATTACAATATTCA
Found at i:18040548 original size:61 final size:61
Alignment explanation
Indices: 18040362--18040548 Score: 179
Period size: 61 Copynumber: 3.1 Consensus size: 61
18040352 ACAAAATTAC
* *
18040362 AATATTCATACAAAAAATTACAATATTCATAC-AAATTACTAATCCAAAACTATAAATAC-A
1 AATATTCATACAAAAAATTACAATATTCATACAAAATTACTAAT-CTAAACTATAAAAACTA
* * * * ** * *
18040422 AAT-TTAATTATAAAATAATTACAATATTCATACAACATTAC-AATATTCA-TAAAAAAATTA
1 AATATTCA-TACAAAA-AATTACAATATTCATACAAAATTACTAATCTAAACTATAAAAACTA
* *
18040482 CAATATTCATACAAAAAAGTTAGAATATTCATACAAAATT-CTAATCTAAACTATAAACACTA
1 -AATATTCATACAAAAAA-TTACAATATTCATACAAAATTACTAATCTAAACTATAAAAACTA
18040544 AATAT
1 AATAT
18040549 AGATAATTTA
Statistics
Matches: 98, Mismatches: 20, Indels: 17
0.73 0.15 0.13
Matches are distributed among these distances:
59 9 0.09
60 14 0.14
61 58 0.59
62 17 0.17
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (61 bp):
AATATTCATACAAAAAATTACAATATTCATACAAAATTACTAATCTAAACTATAAAAACTA
Found at i:18040601 original size:122 final size:121
Alignment explanation
Indices: 18040323--18040555 Score: 300
Period size: 121 Copynumber: 2.0 Consensus size: 121
18040313 AAACTATAAT
* *
18040323 ATTACAATATTCATAC-AAA--A-AATATTCAT-ACAAAATTACAATATTCATACAAAAAATTAC
1 ATTACAATATTAATACAAAATTACAATATTCATAAAAAAATTACAATATTCATACAAAAAATTAC
* * *
18040383 AATATTCATACAAATTACTAATCCAAAACTATAAATACAAATTTAATTATAAAATA
66 AATATTCATACAAATTACTAATCCAAAACTATAAACACAAATATAATAATAAAATA
* *
18040439 ATTACAATATTCATACAACATTACAATATTCATAAAAAAATTACAATATTCATACAAAAAAGTTA
1 ATTACAATATTAATACAAAATTACAATATTCATAAAAAAATTACAATATTCATACAAAAAA-TTA
* *
18040504 GAATATTCATACAAAATT-CTAAT-CTAAACTATAAACACTAAATATAGATAAT
65 CAATATTCATAC-AAATTACTAATCCAAAACTATAAACAC-AAATATA-ATAAT
18040556 TTATAATTAA
Statistics
Matches: 101, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
116 16 0.16
117 2 0.02
119 1 0.01
120 9 0.09
121 39 0.39
122 25 0.25
123 9 0.09
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (121 bp):
ATTACAATATTAATACAAAATTACAATATTCATAAAAAAATTACAATATTCATACAAAAAATTAC
AATATTCATACAAATTACTAATCCAAAACTATAAACACAAATATAATAATAAAATA
Found at i:18040896 original size:5 final size:5
Alignment explanation
Indices: 18040886--18040914 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
18040876 GATAGGCGCC
18040886 ACCCG ACCCG ACCCG ACCCG ACCCG ACCC
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACCC
18040915 TTTGACCATA
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:0.21, C:0.62, G:0.17, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:18043238 original size:101 final size:102
Alignment explanation
Indices: 18043123--18043342 Score: 275
Period size: 101 Copynumber: 2.2 Consensus size: 102
18043113 GCACGGATTG
* * *
18043123 TGTGTAGGCCACTATGTA-ACAGTGAAAGTGATGGTCACGTGTGTAGTACTATGTTCAGGCTACT
1 TGTGTAGGCTACTATGTATACAG-GAAAGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACT
*
18043187 ACGTGTACTAGAATGAT-A-GGTCGCATGTGTAGTACAA
65 ACGTGTA-TAGAATGATAATGGTCACATGTGTAGTACAA
* * * **
18043224 TGTGTAGGCTACTATGCATACCGGATAGTTTTGATCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGGCTACTATGTATACAGGAAAGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACTA
* * * *
18043289 CGTGTATCGGATGGTAATGGTCACATGTGTAGTACTA
66 CGTGTATAGAATGATAATGGTCACATGTGTAGTACAA
*
18043326 TGTGCAGGCTACTATGT
1 TGTGTAGGCTACTATGT
18043343 GAACCGAACA
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
100 6 0.06
101 60 0.59
102 35 0.35
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (102 bp):
TGTGTAGGCTACTATGTATACAGGAAAGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACTA
CGTGTATAGAATGATAATGGTCACATGTGTAGTACAA
Found at i:18043271 original size:51 final size:51
Alignment explanation
Indices: 18043210--18043341 Score: 165
Period size: 51 Copynumber: 2.6 Consensus size: 51
18043200 TGATAGGTCG
* * **
18043210 CATGTGTAGTACAATGTGTAGGCTACTATGCATACCGGATAGTTTTGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAATGATCA
* * ** * * *
18043261 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAATGATCA
18043312 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
18043342 TGAACCGAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAATGATCA
Found at i:18043343 original size:26 final size:26
Alignment explanation
Indices: 18043263--18043343 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
18043253 TTTGATCACG
18043263 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
18043289 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
18043314 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
18043340 TGTG
1 TGTG
18043344 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:18043406 original size:45 final size:45
Alignment explanation
Indices: 18043345--18043437 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
18043335 TACTATGTGA
* * *
18043345 ACCGAACATTATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
18043390 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
18043435 ACC
1 ACC
18043438 AAGTATCTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:18044940 original size:29 final size:29
Alignment explanation
Indices: 18044898--18044956 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
18044888 TTTATAAGTG
*
18044898 TATGTGTTCTGGTAATGCCTCGTACCCTA
1 TATGTGTTCTGGTAATGCCCCGTACCCTA
18044927 TATGTGTTCTGGTAATGCCCCGTACCCTA
1 TATGTGTTCTGGTAATGCCCCGTACCCTA
18044956 T
1 T
18044957 TTCGGCGTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.37
Consensus pattern (29 bp):
TATGTGTTCTGGTAATGCCCCGTACCCTA
Found at i:18051307 original size:39 final size:37
Alignment explanation
Indices: 18051264--18051339 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
18051254 ACATTAACTT
*
18051264 AAATATTAATAAGAT-AATCACTTTAATATTAAATTAATA
1 AAATACTAATAAGATAAAT-A-TTTAAT-TTAAATTAATA
* *
18051303 AAATACTATTAAGATAAATATTTAATTTAATTTAATA
1 AAATACTAATAAGATAAATATTTAATTTAAATTAATA
18051340 TTAAACTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 10 0.30
38 6 0.18
39 14 0.42
40 3 0.09
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (37 bp):
AAATACTAATAAGATAAATATTTAATTTAAATTAATA
Found at i:18051348 original size:37 final size:37
Alignment explanation
Indices: 18051285--18051360 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
18051275 AGATAATCAC
*
18051285 TTTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTTAATATTAAATTAATAAAATACTATTAAAAT-AATA
* *
18051323 TTTAAT-TTAATTTAATATTAA-ACTATTAAAATAATA
1 TTTAATATTAAATTAATA-AAATACTATTAAAATAATA
18051359 TT
1 TT
18051361 ATTTTGGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 6 0.18
37 20 0.59
38 8 0.24
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (37 bp):
TTTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:18053269 original size:22 final size:22
Alignment explanation
Indices: 18053241--18053282 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18053231 TACATAAACT
*
18053241 TGGTGAAGCTTAACCTTATACA
1 TGGTGAAGCTCAACCTTATACA
*
18053263 TGGTGAAGCTCAGCCTTATA
1 TGGTGAAGCTCAACCTTATA
18053283 GGCTTGCCAA
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:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (22 bp):
TGGTGAAGCTCAACCTTATACA
Found at i:18058911 original size:17 final size:16
Alignment explanation
Indices: 18058888--18058934 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
18058878 CCAATTAGAA
18058888 TTTTCTTTCCTCTCCC
1 TTTTCTTTCCTCTCCC
*
18058904 TATTTC-TTCTCTCTTCC
1 T-TTTCTTTC-CTCTCCC
*
18058921 TTTTTTTTCCTCTC
1 TTTTCTTTCCTCTC
18058935 TTACATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTCTTTCCTCTCCC
Found at i:18060184 original size:47 final size:47
Alignment explanation
Indices: 18060079--18060199 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
18060069 AGTCGGTAGT
* * * * *
18060079 TCATCTACTCGACCAATGGTTTATCCACAACGTATTTTAGTCTCCAA
1 TCATCTACTCGACTAGTGATTTATCCACAACATATTTTAGTCGCCAA
* * *
18060126 TCATCTGCTCGATTAGTGATTTATCCACAACATATTTTAGTCGGCAA
1 TCATCTACTCGACTAGTGATTTATCCACAACATATTTTAGTCGCCAA
* *
18060173 -CTATCTACTCGACTAGTGGTTCATCCA
1 TC-ATCTACTCGACTAGTGATTTATCCA
18060200 ACACGTATTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 1 0.02
47 60 0.98
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (47 bp):
TCATCTACTCGACTAGTGATTTATCCACAACATATTTTAGTCGCCAA
Found at i:18060286 original size:90 final size:90
Alignment explanation
Indices: 18060156--18060323 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 90
18060146 TTATCCACAA
* * *
18060156 CATATTTTAGTCGGCAACTATCTACTCGACTAGTGGTTCATCCAAC-ACGTATTAGCAGCTTTTA
1 CATATTTTAGTCGACAACTATCTACTCGACCAGTGGTTCAT-CAACAACGTATTAGCAACTTTTA
**
18060220 TTTGCACAAATGGATGGTTCATTCAC
65 CCTGCACAAATGGATGGTTCATTCAC
* * * * *
18060246 CATATTTTAGTCGAC-AGTCATCTGCTCGACCAGTGTTTCATCTACAATGTATTAGCAACTTTTA
1 CATATTTTAGTCGACAACT-ATCTACTCGACCAGTGGTTCATCAACAACGTATTAGCAACTTTTA
*
18060310 CCTGCATAAATGGA
65 CCTGCACAAATGGA
18060324 CAGTTCACAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 5 0.08
90 60 0.92
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (90 bp):
CATATTTTAGTCGACAACTATCTACTCGACCAGTGGTTCATCAACAACGTATTAGCAACTTTTAC
CTGCACAAATGGATGGTTCATTCAC
Found at i:18064291 original size:23 final size:23
Alignment explanation
Indices: 18064254--18064300 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
18064244 CCCGTTTTCT
* *
18064254 ATTTAGTTTTATTTTTACTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
* *
18064277 ATTTAGGTTTCTTTTCAGTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
18064300 A
1 A
18064301 GCGTAGTTTA
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:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (23 bp):
ATTTAGGTTTATTTTCACTTGTA
Found at i:18068751 original size:13 final size:13
Alignment explanation
Indices: 18068733--18068764 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
18068723 AAGCTTCTTA
18068733 AATCAAGATTTTC
1 AATCAAGATTTTC
18068746 AATCAAGATTTTC
1 AATCAAGATTTTC
18068759 AATCAA
1 AATCAA
18068765 TGAATTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (13 bp):
AATCAAGATTTTC
Done.