Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 53 of 163
Found at i:16982553 original size:23 final size:23
Alignment explanation
Indices: 16982523--16982574 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
16982513 CGTGTGGGCC
*
16982523 CTGTAATATCCCAAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
16982546 CTGTAATACCCCGAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
16982569 CAGTAA
1 CTGTAA
16982575 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (23 bp):
CTGTAATACCCCAAAAATTACTA
Found at i:16985042 original size:27 final size:27
Alignment explanation
Indices: 16984942--16985031 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 27
16984932 AAAAGGTTGT
*
16984942 TAAAATGACCGAAATACCCCCATA-GA
1 TAAAATGACCAAAATACCCCCATAGGA
* * *
16984968 GTAAAATAACCAAAATACCCTCATAGGG
1 -TAAAATGACCAAAATACCCCCATAGGA
16984996 TAAAATGACCAAAATACCCCCATAGGA
1 TAAAATGACCAAAATACCCCCATAGGA
16985023 TAAAATGAC
1 TAAAATGAC
16985032 TGTTATACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCCCATAGGA
Found at i:16998351 original size:78 final size:78
Alignment explanation
Indices: 16998209--16998548 Score: 404
Period size: 78 Copynumber: 4.4 Consensus size: 78
16998199 GGGAAATTAA
16998209 AAGT-AAAT-AAAATCATTTCGGGATTGATTCCCGT-GTTCAACGATTTTATTCCAAATTTGTTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGTCGTTCAACGATTTTATTCCAAATTTGTTT
*
16998271 TA-TT-CAAAAAA
66 TATTTCCAAAAAC
** * * * * *
16998282 AAGTAAAATAAAAAAATTGTTTCGGTATTGATTCCCGTTGTTCAACGATTTTATTTCAAAATTCT
1 AAGTAAAAT--AAAAATCATTTCGGGATTGATTCCCGTCGTTCAACGATTTTATTCCAAATTTGT
**
16998347 TTTATTTTTAAAAAC
64 TTTATTTCCAAAAAC
* * * * *
16998362 GAGTAAAATAAAAATCGTTTCGGGATTGATTCCTGCCGTTCAACGATTTTATTCCAAATTTATTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGTCGTTCAACGATTTTATTCCAAATTTGTTT
16998427 TATTTCCAAAAAC
66 TATTTCCAAAAAC
* * * * *
16998440 GAGTAAAATAAAAATCATTTCAGGATTGGTTCCCGTCATTCAACGATTTCATTCCAAATTTGTTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGTCGTTCAACGATTTTATTCCAAATTTGTTT
16998505 TATTTCCAAAAAC
66 TATTTCCAAAAAC
* * *
16998518 AAGTAACAT-AGAATCCTTTTCGGGATTGATT
1 AAGTAAAATAAAAAT-CATTTCGGGATTGATT
16998549 GCCACCGTTC
Statistics
Matches: 226, Mismatches: 33, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
73 4 0.02
74 4 0.02
77 27 0.12
78 176 0.78
79 2 0.01
80 13 0.06
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (78 bp):
AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGTCGTTCAACGATTTTATTCCAAATTTGTTT
TATTTCCAAAAAC
Found at i:16998702 original size:84 final size:84
Alignment explanation
Indices: 16998611--16998830 Score: 259
Period size: 84 Copynumber: 2.6 Consensus size: 84
16998601 TTAAATACAG
*
16998611 TAAAATCTATCTCGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTATGTTGGTTCC
1 TAAAATCTATTTCGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTATGTTGGTTCC
* *
16998676 AAATTCAAA-CT-AAATTAAA
66 AAA--CAAAGATGAAATCAAA
* * * * *
16998695 TAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTGTTTTGTTTCC
1 TAAAATCTATTTCGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTATGTTGGTTCC
*
16998760 AAACAAAGATGTAATCAAA
66 AAACAAAGATGAAATCAAA
* * * * *
16998779 T-AATTCTATTTCGGGATTTATTCCTGTCATTTGA-TAGATTTTATTTTGATTT
1 TAAAATCTATTTCGGGATTTATTCCTGCCGTTTAACAAGATTTTA-TTTGATTT
16998831 AATGATATAA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
82 12 0.10
83 36 0.31
84 69 0.59
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (84 bp):
TAAAATCTATTTCGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTATGTTGGTTCC
AAACAAAGATGAAATCAAA
Found at i:17005096 original size:20 final size:20
Alignment explanation
Indices: 17005071--17005108 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17005061 ACCCTCTTTA
17005071 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
17005091 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
17005109 CGAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:17011418 original size:7 final size:7
Alignment explanation
Indices: 17011408--17011434 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17011398 GAGATGAGAA
17011408 GGATGAG
1 GGATGAG
17011415 GGATGAG
1 GGATGAG
17011422 GGATGAG
1 GGATGAG
17011429 GGATGA
1 GGATGA
17011435 TTGAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GGATGAG
Found at i:17013984 original size:34 final size:34
Alignment explanation
Indices: 17013936--17014000 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
17013926 CAAATGGGCT
17013936 TGCGAATATTTTAGCCCAACACGAATTTATTGCC
1 TGCGAATATTTTAGCCCAACACGAATTTATTGCC
*
17013970 TGCGGATATTTTAGCCCAACACGAATTTATT
1 TGCGAATATTTTAGCCCAACACGAATTTATT
17014001 TTCCACAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (34 bp):
TGCGAATATTTTAGCCCAACACGAATTTATTGCC
Found at i:17015553 original size:14 final size:15
Alignment explanation
Indices: 17015523--17015557 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
17015513 ATTTAATACT
17015523 TTTAATAAATATTAA
1 TTTAATAAATATTAA
*
17015538 TTTAAT-AATTTTAA
1 TTTAATAAATATTAA
17015552 TTTAAT
1 TTTAAT
17015558 CCAAAGAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAATAAATATTAA
Found at i:17017285 original size:10 final size:10
Alignment explanation
Indices: 17017270--17017326 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
17017260 TATATTTTCT
17017270 TTATATATTA
1 TTATATATTA
17017280 -T-TATATTA
1 TTATATATTA
*
17017288 TTA-ACATTA
1 TTATATATTA
17017297 TTTATATATTA
1 -TTATATATTA
17017308 TTATATATTA
1 TTATATATTA
17017318 TTATATATT
1 TTATATATT
17017327 TAAATTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 7 0.17
9 7 0.17
10 22 0.54
11 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATATATTA
Found at i:17017326 original size:28 final size:27
Alignment explanation
Indices: 17017269--17017342 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
17017259 ATATATTTTC
17017269 TTTATATATTATTATATTATTAACATTA
1 TTTATATATTATTATA-TATTAACATTA
**
17017297 TTTATATATTATTATATATTATTATATA
1 TTTATATATTATTATATATTAACAT-TA
*
17017325 TTTAAAT-TTA-TATATATT
1 TTTATATATTATTATATATT
17017343 TAAATGATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.19
27 10 0.24
28 24 0.57
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTATATATTATTATATATTAACATTA
Found at i:17017340 original size:16 final size:16
Alignment explanation
Indices: 17017296--17017347 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
17017286 TATTAACATT
*
17017296 ATTTATATAT-TATTAT
1 ATTTATATATAT-TTAA
17017312 ATATTATTATATATTTAA
1 AT-TTA-TATATATTTAA
17017330 ATTTATATATATTTAA
1 ATTTATATATATTTAA
17017346 AT
1 AT
17017348 GATAAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 15 0.47
17 6 0.19
18 10 0.31
19 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTATATATATTTAA
Found at i:17017516 original size:21 final size:21
Alignment explanation
Indices: 17017476--17017514 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17017466 AAATCATGGA
17017476 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
17017497 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
17017515 TCATAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:17019453 original size:15 final size:15
Alignment explanation
Indices: 17019435--17019471 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
17019425 AAGAAGAAGG
17019435 ATTAAATCAATCTTA
1 ATTAAATCAATCTTA
**
17019450 ATTAAATTGATCTTA
1 ATTAAATCAATCTTA
17019465 ATTAAAT
1 ATTAAAT
17019472 TGTGGATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (15 bp):
ATTAAATCAATCTTA
Found at i:17019472 original size:15 final size:15
Alignment explanation
Indices: 17019444--17019473 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17019434 GATTAAATCA
17019444 ATCTTAATTAAATTG
1 ATCTTAATTAAATTG
17019459 ATCTTAATTAAATTG
1 ATCTTAATTAAATTG
17019474 TGGATTGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
ATCTTAATTAAATTG
Found at i:17020090 original size:21 final size:21
Alignment explanation
Indices: 17020064--17020106 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
17020054 TAGTGTAAAA
17020064 AGAAAAAAAGTATGTGATGCT
1 AGAAAAAAAGTATGTGATGCT
17020085 AGAAAAAAAGTATGTGATGCT
1 AGAAAAAAAGTATGTGATGCT
17020106 A
1 A
17020107 AGATGGGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.23, T:0.23
Consensus pattern (21 bp):
AGAAAAAAAGTATGTGATGCT
Found at i:17024125 original size:230 final size:227
Alignment explanation
Indices: 17023727--17024155 Score: 610
Period size: 230 Copynumber: 1.9 Consensus size: 227
17023717 ATAAATCATT
* * *
17023727 TTTTTGGTTTAATTATACAAAGTCCTTGAAGAGTTAAAGAAATCAGAGATTTTCCCGAAGATTTA
1 TTTTTGGTTTAATTACACAAAGCCCTTGAAGAGTTAAAGAAATCAGAGATTTACCCGAAGATTTA
* * * *
17023792 CTGATGATCGATTTAGTGCTGAGTTGTTGTGACACTCAAATTAACCAAAAATCAAGGAAAAATCA
66 CTGATGACCGATTTAATCCTGAGTTGTTGTGACACTCAAATTAACCAAAAATCAAGAAAAAATCA
* * *
17023857 GCCACCTTTCCTCAATTCATGGCCGGCCACTCTTGGAGGAAGTTTCAAAGGATGGACACTCACCA
131 GCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTGTCAAAGGATGGACACTC-CCA
17023922 ATTTTTGACTGCACATTTCTGATTATAAACCAA
195 ATTTTTGACTGCACATTTCTGATTATAAACCAA
* * * * * *
17023955 TTTTTGGTTTAATTACATAAGGCCCTTGAAGAGTTAAAGAAATCATATATTTACCTGAAGATTTG
1 TTTTTGGTTTAATTACACAAAGCCCTTGAAGAGTTAAAGAAATCAGAGATTTACCCGAAGATTTA
* *
17024020 CTGGA-GACCGAGTCTTAATCCTGAGTTGTTGTGGCATTCAAATTGAA-CAAAAATCAAGAAAAA
66 CT-GATGACCGA-T-TTAATCCTGAGTTGTTGTGACACTCAAATT-AACCAAAAATCAAGAAAAA
* *
17024083 ATTAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAGGTGTCAAAGGATGGACACTC
127 ATCAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTGTCAAAGGATGGACACTC
*
17024148 CTAATTTT
192 CCAATTTT
17024156 AGCAAACTAG
Statistics
Matches: 176, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
228 63 0.36
229 10 0.06
230 101 0.57
231 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (227 bp):
TTTTTGGTTTAATTACACAAAGCCCTTGAAGAGTTAAAGAAATCAGAGATTTACCCGAAGATTTA
CTGATGACCGATTTAATCCTGAGTTGTTGTGACACTCAAATTAACCAAAAATCAAGAAAAAATCA
GCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTGTCAAAGGATGGACACTCCCAA
TTTTTGACTGCACATTTCTGATTATAAACCAA
Found at i:17024232 original size:14 final size:15
Alignment explanation
Indices: 17024213--17024259 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
17024203 ACTTTTTCAA
17024213 TCATCCCTAATCC-C
1 TCATCCCTAATCCTC
*
17024227 TCATCCCTCATCCTTC
1 TCATCCCTAATCC-TC
*
17024243 TCATCTCTAATCCTC
1 TCATCCCTAATCCTC
17024258 TC
1 TC
17024260 TCTCAACTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.43
15 4 0.14
16 12 0.43
ACGTcount: A:0.17, C:0.47, G:0.00, T:0.36
Consensus pattern (15 bp):
TCATCCCTAATCCTC
Found at i:17034527 original size:35 final size:35
Alignment explanation
Indices: 17034469--17034627 Score: 212
Period size: 35 Copynumber: 4.5 Consensus size: 35
17034459 TAATCCAAAT
17034469 GAAACACACCAGATGCTCATAAGAGCTAATCCATCC
1 GAAACACACCA-ATGCTCATAAGAGCTAATCCATCC
* * *
17034505 GGAACACATCAATGCTCATAAGAGCTAATCCATCT
1 GAAACACACCAATGCTCATAAGAGCTAATCCATCC
*
17034540 GAAACACACCAATGCTCATTAGAGCTAATCCATCC
1 GAAACACACCAATGCTCATAAGAGCTAATCCATCC
* * * *
17034575 GAAACACACCAATGCTTATAAAAG-TTATACATCC
1 GAAACACACCAATGCTCATAAGAGCTAATCCATCC
* *
17034609 GAAACAGATCAATGCTCAT
1 GAAACACACCAATGCTCAT
17034628 CAAAGCTTAA
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 24 0.22
35 75 0.69
36 9 0.08
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.21
Consensus pattern (35 bp):
GAAACACACCAATGCTCATAAGAGCTAATCCATCC
Found at i:17047765 original size:27 final size:27
Alignment explanation
Indices: 17047720--17048011 Score: 219
Period size: 27 Copynumber: 10.6 Consensus size: 27
17047710 CTATGTGTTA
* **
17047720 CACAAAGGCATCCCCTTTATAGATCAC
1 CACAAAGGCTTCCTTTTTATAGATCAC
**
17047747 CATGAAGGCTTCCTTTTTATAGATCAC
1 CACAAAGGCTTCCTTTTTATAGATCAC
* *
17047774 CACAAAGGCTTCCTTTTCAGAGATCAC
1 CACAAAGGCTTCCTTTTTATAGATCAC
* * * * *
17047801 CACAAATGTTTCCTATTCATAGATCGC
1 CACAAAGGCTTCCTTTTTATAGATCAC
* *
17047828 TACAAAGGCTTCCTTTTCATAGATAGCCACAC
1 CACAAAGGCTTCCTTTTTATAGAT-----CAC
* * *
17047860 CACAAAGGCTTTCTTTTTATATATCGC
1 CACAAAGGCTTCCTTTTTATAGATCAC
* * * *
17047887 CACAAATGCTTTCTTTTCATTGAT-AGC
1 CACAAAGGCTTCCTTTTTATAGATCA-C
* * *
17047914 TACAAAGGCTTCCTTTTCATAGATCGC
1 CACAAAGGCTTCCTTTTTATAGATCAC
* * *
17047941 CACAAAGGCTTCATTTTCATTGAT-AGC
1 CACAAAGGCTTCCTTTTTATAGATCA-C
* **
17047968 CACAAAGGATTCCTTTCAATAGATCAC
1 CACAAAGGCTTCCTTTTTATAGATCAC
* *
17047995 CATAAAGGCTTTCTTTT
1 CACAAAGGCTTCCTTTT
17048012 ATGATGTATT
Statistics
Matches: 209, Mismatches: 47, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
27 186 0.89
28 1 0.00
32 22 0.11
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (27 bp):
CACAAAGGCTTCCTTTTTATAGATCAC
Found at i:17047802 original size:54 final size:54
Alignment explanation
Indices: 17047720--17048011 Score: 259
Period size: 54 Copynumber: 5.3 Consensus size: 54
17047710 CTATGTGTTA
* * ** * *
17047720 CACAAAGGCATCCCCTTT-ATAGATCACCATGAAGGCTTCCTTTTTATAGATCAC
1 CACAAAGGC-TTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTCATAGATCGC
* * * *
17047774 CACAAAGGCTTCCTTTTCAGAGATCACCACAAATGTTTCCTATTCATAGATCGC
1 CACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTCATAGATCGC
* * * *
17047828 TACAAAGGCTTCCTTTTCATAGATAGCCACACCACAAAGGCTTTCTTTTTATATATCGC
1 CACAAAGGCTTCCTTTTCATAGAT-----CACCACAAAGGCTTCCTTTTCATAGATCGC
* * * *
17047887 CACAAATGCTTTCTTTTCATTGAT-AGCTACAAAGGCTTCCTTTTCATAGATCGC
1 CACAAAGGCTTCCTTTTCATAGATCA-CCACAAAGGCTTCCTTTTCATAGATCGC
* * * *
17047941 CACAAAGGCTTCATTTTCATTGAT-AGCCACAAAGGATTCC-TTTCAATAGATCAC
1 CACAAAGGCTTCCTTTTCATAGATCA-CCACAAAGGCTTCCTTTTC-ATAGATCGC
* *
17047995 CATAAAGGCTTTCTTTT
1 CACAAAGGCTTCCTTTT
17048012 ATGATGTATT
Statistics
Matches: 195, Mismatches: 35, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
53 11 0.06
54 140 0.72
59 44 0.23
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (54 bp):
CACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTCATAGATCGC
Found at i:17047870 original size:32 final size:32
Alignment explanation
Indices: 17047829--17047890 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
17047819 ATAGATCGCT
17047829 ACAAAGGCTTCCTTTTCATAGATAGCCACACC
1 ACAAAGGCTTCCTTTTCATAGATAGCCACACC
* * * *
17047861 ACAAAGGCTTTCTTTTTATATATCGCCACA
1 ACAAAGGCTTCCTTTTCATAGATAGCCACA
17047891 AATGCTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (32 bp):
ACAAAGGCTTCCTTTTCATAGATAGCCACACC
Found at i:17047906 original size:86 final size:86
Alignment explanation
Indices: 17047771--17047944 Score: 251
Period size: 86 Copynumber: 2.0 Consensus size: 86
17047761 TTTTATAGAT
*
17047771 CACCACAAAGGCTTCCTTTTCAGAGATCACCACAAATGTTTCCTATTCATAGATCGCTACAAAGG
1 CACCACAAAGGCTTCCTTTTCAGAGATCACCACAAATGTTTCCTATTCATAGATAGCTACAAAGG
17047836 CTTCCTTTTCATAGATAGCCA
66 CTTCCTTTTCATAGATAGCCA
* * * * * * *
17047857 CACCACAAAGGCTTTCTTTTTATATATCGCCACAAATGCTTT-CTTTTCATTGATAGCTACAAAG
1 CACCACAAAGGCTTCCTTTTCAGAGATCACCACAAATG-TTTCCTATTCATAGATAGCTACAAAG
*
17047921 GCTTCCTTTTCATAGATCGCCA
65 GCTTCCTTTTCATAGATAGCCA
17047943 CA
1 CA
17047945 AAGGCTTCAT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 75 0.96
87 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (86 bp):
CACCACAAAGGCTTCCTTTTCAGAGATCACCACAAATGTTTCCTATTCATAGATAGCTACAAAGG
CTTCCTTTTCATAGATAGCCA
Found at i:17047919 original size:113 final size:113
Alignment explanation
Indices: 17047751--17048011 Score: 300
Period size: 113 Copynumber: 2.4 Consensus size: 113
17047741 GATCACCATG
* *
17047751 AAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATCACCACAAATGTTTCCTA
1 AAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATCACCACAAAGGCTTCCTA
* *
17047816 TTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATAGCCACACCACA
66 TTCATAGATCGCCACAAAGGCTTCATTTTCATAGATAGCCACACCACA
* * * * * ** *
17047864 AAGGCTTTCTTTTTATATATCGCCACAAATGCTTTCTTTTCATTGAT-AGCTACAAAGGCTTCCT
1 AAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATCA-CCACAAAGGCTTCCT
* *
17047928 TTTCATAGATCGCCACAAAGGCTTCATTTTCATTGATAG-----CCACA
65 ATTCATAGATCGCCACAAAGGCTTCATTTTCATAGATAGCCACACCACA
* ** * *
17047972 AAGGATTCCTTTCAATAGATCACCATAAAGGCTTTCTTTT
1 AAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTT
17048012 ATGATGTATT
Statistics
Matches: 125, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
108 37 0.30
112 1 0.01
113 87 0.70
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (113 bp):
AAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATCACCACAAAGGCTTCCTA
TTCATAGATCGCCACAAAGGCTTCATTTTCATAGATAGCCACACCACA
Found at i:17054525 original size:7 final size:7
Alignment explanation
Indices: 17054513--17054539 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17054503 CCTATAAATA
17054513 AGAAAAG
1 AGAAAAG
17054520 AGAAAAG
1 AGAAAAG
17054527 AGAAAAG
1 AGAAAAG
17054534 AGAAAA
1 AGAAAA
17054540 AGAGCACCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:17057139 original size:20 final size:20
Alignment explanation
Indices: 17057104--17057152 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17057094 TATCATGTCT
*
17057104 TTGCTT-CTTCTTTACTTAC
1 TTGCTTGCTTGTTTACTTAC
17057123 TCT-CTTGCTTGTTTACTTAC
1 T-TGCTTGCTTGTTTACTTAC
17057143 TTGCTTGCTT
1 TTGCTTGCTT
17057153 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.08, C:0.24, G:0.10, T:0.57
Consensus pattern (20 bp):
TTGCTTGCTTGTTTACTTAC
Found at i:17057480 original size:50 final size:50
Alignment explanation
Indices: 17057417--17057540 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 50
17057407 CGATGTCATA
* ** * * *
17057417 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
** * *
17057467 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCGTG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* *
17057517 TCCCAAACATGGTCTTACTTGGGA
1 TCCCAGACATGGTCTTACATGGGA
17057541 TCTCATTCTC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:17060699 original size:30 final size:30
Alignment explanation
Indices: 17060663--17060861 Score: 116
Period size: 30 Copynumber: 6.7 Consensus size: 30
17060653 TGGTTGACCC
* *
17060663 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* *
17060693 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * **** * *
17060723 ATCTCTTTTCATAATTTGATGGTTGTCA-CC
1 ATCCCTTTTCATAATTCGATAACCG-AAGCT
** ***
17060753 ATCCCTTTTCATTGTT-GATGGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * * *
17060782 ATCGCTTTTCATAGTTCGATAGCTGAAG-T
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * * * * *
17060811 AATCCTTTTTCATATTTTGATAGCTGAAGCC
1 -ATCCCTTTTCATAATTCGATAACCGAAGCT
17060842 ATCCCTTTTCATAATTCGAT
1 ATCCCTTTTCATAATTCGAT
17060862 GGTAGTCACC
Statistics
Matches: 133, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
28 1 0.01
29 23 0.17
30 108 0.81
31 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAACCGAAGCT
Found at i:17060774 original size:29 final size:29
Alignment explanation
Indices: 17060693--17060912 Score: 106
Period size: 30 Copynumber: 7.4 Consensus size: 29
17060683 AACCGAAGTT
* * ** *
17060693 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATTGTT-GATGGTTGAAGCC
* *
17060723 ATCTCTTTTCATAAT-TTGATGGTTGTCA-CC
1 ATCCCTTTTCAT--TGTTGATGGTTG-AAGCC
* *
17060753 ATCCCTTTTCATTGTTGATGGTCGAAGCT
1 ATCCCTTTTCATTGTTGATGGTTGAAGCC
* * * * **
17060782 ATCGCTTTTCATAGTTCGATAGCTGAAGTA
1 ATCCCTTTTCATTGTT-GATGGTTGAAGCC
* * * *
17060812 ATCCTTTTTCATATTTTGATAGCTGAAGCC
1 ATCCCTTTTCAT-TGTTGATGGTTGAAGCC
** * *
17060842 ATCCCTTTTCATAATTCGATGGTAGTCA-CC
1 ATCCCTTTTCATTGTT-GATGGTTG-AAGCC
* *
17060872 ATCCCTTTTCATTGTTGATGGTCGTCA-CC
1 ATCCCTTTTCATTGTTGATGGTTG-AAGCC
17060901 ATCCCTTTTCAT
1 ATCCCTTTTCAT
17060913 AATCGACAGC
Statistics
Matches: 147, Mismatches: 34, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
28 2 0.01
29 50 0.34
30 89 0.61
31 6 0.04
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATTGTTGATGGTTGAAGCC
Found at i:17060795 original size:89 final size:89
Alignment explanation
Indices: 17060686--17060853 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 89
17060676 ATTCGATAAC
* * *
17060686 CGAAGTTATCCCTTTTCATAGTTCGATAGCCGAAGCT-AT-CTCTTTTCATAATTTGATGGTTGT
1 CGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAG-TAATCCT-TTTTCATAATTTGATAGCTG-
*
17060749 CA-CCATCCCTTTTCATTGTTGATGGT
63 AAGCCATCCCTTTTCATTGTTGATGGT
* * *
17060775 CGAAGCTATCGCTTTTCATAGTTCGATAGCTGAAGTAATCCTTTTTCATATTTTGATAGCTGAAG
1 CGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGTAATCCTTTTTCATAATTTGATAGCTGAAG
17060840 CCATCCCTTTTCAT
66 CCATCCCTTTTCAT
17060854 AATTCGATGG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
88 2 0.03
89 65 0.94
90 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (89 bp):
CGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGTAATCCTTTTTCATAATTTGATAGCTGAAG
CCATCCCTTTTCATTGTTGATGGT
Found at i:17060874 original size:30 final size:29
Alignment explanation
Indices: 17060840--17060915 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
17060830 ATAGCTGAAG
17060840 CCATCCCTTTTCATAATTCGATGGTAGTCA
1 CCATCCCTTTTCATAATT-GATGGTAGTCA
** *
17060870 CCATCCCTTTTCATTGTTGATGGTCGTCA
1 CCATCCCTTTTCATAATTGATGGTAGTCA
17060899 CCATCCCTTTTCATAAT
1 CCATCCCTTTTCATAAT
17060916 CGACAGCCGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (29 bp):
CCATCCCTTTTCATAATTGATGGTAGTCA
Found at i:17060878 original size:119 final size:119
Alignment explanation
Indices: 17060667--17060949 Score: 365
Period size: 119 Copynumber: 2.4 Consensus size: 119
17060657 TGACCCATCC
* * * *
17060667 CTTTTCGTAATTCGATAACCGAAGTTATCCCTTTTCATAGTTCGATAGCCGAAGCTATCTCTTTT
1 CTTTTCATAATTCGATAACCGAAGTAATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTT
* *
17060732 CATAATTTGATGGTTGTCACCATCCCTTTTCATTGTTGATGGTCGAAGCTATCG
66 CATAATTCGATGGTAGTCACCATCCCTTTTCATTGTTGATGGTCGAAGCTATCG
* * * * * * *
17060786 CTTTTCATAGTTCGATAGCTGAAGTAATCCTTTTTCATATTTTGATAGCTGAAGCCATCCCTTTT
1 CTTTTCATAATTCGATAACCGAAGTAATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTT
* * *
17060851 CATAATTCGATGGTAGTCACCATCCCTTTTCATTGTTGATGGTCGTCA-CCATCC
66 CATAATTCGATGGTAGTCACCATCCCTTTTCATTGTTGATGGTCG-AAGCTATCG
* *
17060905 CTTTTCATAA-TCGACAGCCGAAGCT-ATCCCTTTTCATAGTTCGAT
1 CTTTTCATAATTCGATAACCGAAG-TAATCCCTTTTCATAGTTCGAT
17060950 GATTGACATT
Statistics
Matches: 140, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
118 28 0.20
119 111 0.79
120 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (119 bp):
CTTTTCATAATTCGATAACCGAAGTAATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTT
CATAATTCGATGGTAGTCACCATCCCTTTTCATTGTTGATGGTCGAAGCTATCG
Found at i:17072965 original size:50 final size:50
Alignment explanation
Indices: 17072898--17073192 Score: 392
Period size: 50 Copynumber: 5.9 Consensus size: 50
17072888 TTTCATGTAC
* * * * ** *
17072898 TGCCAATGCCATATCCCAAATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
17072948 TGCCTATGCCATGTCCCAGACATGGTCTTAAAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
17072998 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* *
17073048 TGCCAACGCCTTGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* *
17073098 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGGCCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
17073148 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
17073193 AATTTCAATA
Statistics
Matches: 216, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 216 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:17073030 original size:100 final size:100
Alignment explanation
Indices: 17072849--17073192 Score: 397
Period size: 100 Copynumber: 3.5 Consensus size: 100
17072839 GAATATAACA
* * * * ** * * * * *
17072849 TGCCAAAGCTATGTCCCAGACATAGTCTTACACGGGATGTTTCATGTAC--TGCCAATGCCATAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGACATGT
* * * *
17072912 CCCAAATATGATCTTACATGGGAGTTCTCATATCGG
65 CCCAAACATGGTCTTACATGGGAGCTCTCATCTCGG
* * *
17072948 TGCCTATGCCATGTCCCAGACATGGTCTTAAAGGGGACCTCTCATCTCGGTGCCAACGACATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGACATGTC
* * *
17073013 CCAGACATGGTCTTACATGGGACCTCTCATCTCGA
66 CCAAACATGGTCTTACATGGGAGCTCTCATCTCGG
* * * * *
17073048 TGCCAACGCCTTGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGACATGTC
*
17073113 CCAAACATGGTCTTACATGGG-GCCTCTCATCTCAG
66 CCAAACATGGTCTTACATGGGAG-CTCTCATCTCGG
*
17073148 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
17073193 AATTTCAATA
Statistics
Matches: 206, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
98 1 0.00
99 37 0.18
100 168 0.82
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGACATGTC
CCAAACATGGTCTTACATGGGAGCTCTCATCTCGG
Found at i:17073092 original size:150 final size:148
Alignment explanation
Indices: 17072859--17073280 Score: 447
Period size: 150 Copynumber: 2.8 Consensus size: 148
17072849 TGCCAAAGCT
* * ** * * * * *
17072859 ATGTCCCAGACATAGTCTTACACGGGATGTTTCATGT-ACTGCCAATGCCATATCCCAAATATGA
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-TGCCAATGCCATGTCCCAAACATGG
* * *
17072923 TCTTACATGGGAGTTCTCATATCGGTGCCTATGCCATGTCCCAGACATGGTCTTA-AAGGGGACC
65 TCTTACATGGGA-CTCTCATATCGGTGCCAATGCCATGTCCCAAACATGGTCTTACAAGGGG-CC
*
17072987 TCTCATCTCGGTGCCAACGAC
128 TCTCATCTCAGTGCCAACGAC
* *
17073008 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCTTGTCCCAAACATGG
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-ATGCCAATGCCATGTCCCAAACATGG
* * * *
17073073 TCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAAACATGGTCTTACATGGGGCCT
65 TCTTACATGGGA-CTCTCATATCGGTGCCAATGCCATGTCCCAAACATGGTCTTACAAGGGGCCT
* *
17073138 CTCATCTCAGTGCCAATGCC
129 CTCATCTCAGTGCCAACGAC
* * *
17073158 ATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATTTCAATAAGGCCAATGCCATGTCCCAG
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-AT---GCCAATGCCATGTCCCAA
* * * *
17073223 ACATGGTCTTACACT-GG-CTCACATATCGATGTCGATGCCATGTCCCAAACATGGTCTT
59 ACATGGTCTTACA-TGGGACTCTCATATCGGTGCCAATGCCATGTCCCAAACATGGTCTT
17073281 CTATGAGATC
Statistics
Matches: 228, Mismatches: 35, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
149 31 0.14
150 120 0.53
151 6 0.03
153 6 0.03
154 34 0.15
156 30 0.13
157 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (148 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCATGCCAATGCCATGTCCCAAACATGGT
CTTACATGGGACTCTCATATCGGTGCCAATGCCATGTCCCAAACATGGTCTTACAAGGGGCCTCT
CATCTCAGTGCCAACGAC
Found at i:17077350 original size:14 final size:14
Alignment explanation
Indices: 17077331--17077361 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17077321 TGATTGTTTT
*
17077331 TAATCTAAATTTAC
1 TAATCTAAATTAAC
17077345 TAATCTAAATTAAC
1 TAATCTAAATTAAC
17077359 TAA
1 TAA
17077362 GAACGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:17079219 original size:14 final size:14
Alignment explanation
Indices: 17079200--17079230 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17079190 TGATTGTTTT
*
17079200 TAATCTAAATTTAC
1 TAATCTAAATTAAC
17079214 TAATCTAAATTAAC
1 TAATCTAAATTAAC
17079228 TAA
1 TAA
17079231 GAATGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:17081980 original size:5 final size:5
Alignment explanation
Indices: 17081972--17082001 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
17081962 TCATAATATA
*
17081972 ATTGT ATTGT TTTGT ATTGT ATTGT ATTGT
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT
17082002 TTTCTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (5 bp):
ATTGT
Found at i:17089848 original size:3 final size:3
Alignment explanation
Indices: 17089840--17089869 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17089830 TGAGTACCTA
17089840 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17089870 ATGGTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17092734 original size:18 final size:19
Alignment explanation
Indices: 17092713--17092755 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
17092703 TTTTACAATG
17092713 ATATTAATACAAAG-ATAT
1 ATATTAATACAAAGCATAT
* *
17092731 ATATT-CTAGAAAGCATAT
1 ATATTAATACAAAGCATAT
17092749 ATATTAA
1 ATATTAA
17092756 AGTAATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (19 bp):
ATATTAATACAAAGCATAT
Found at i:17094259 original size:11 final size:11
Alignment explanation
Indices: 17094239--17094367 Score: 82
Period size: 11 Copynumber: 12.4 Consensus size: 11
17094229 TAAAAATTAA
17094239 AAAAAGTATTTT
1 AAAAA-TATTTT
17094251 AAAAATATTTT
1 AAAAATATTTT
17094262 --AAA-A--TT
1 AAAAATATTTT
* *
17094268 AAAAAAATTTA
1 AAAAATATTTT
17094279 AAAAAGTATTTT
1 AAAAA-TATTTT
*
17094291 AAAAA-AATTT
1 AAAAATATTTT
*
17094301 AAAAAAATTTT
1 AAAAATATTTT
*
17094312 -TAAA-A--TT
1 AAAAATATTTT
17094319 AAAAA-ATTTT
1 AAAAATATTTT
17094329 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
17094342 AAAAGTATTTT
1 AAAAATATTTT
*
17094353 AAAAGTATTTT
1 AAAAATATTTT
17094364 AAAA
1 AAAA
17094368 TTAAAAAAAT
Statistics
Matches: 96, Mismatches: 8, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 8 0.08
9 5 0.05
10 14 0.15
11 42 0.44
12 18 0.19
13 5 0.05
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17094279 original size:10 final size:10
Alignment explanation
Indices: 17094262--17094334 Score: 71
Period size: 10 Copynumber: 7.3 Consensus size: 10
17094252 AAAATATTTT
17094262 AAAA-TTAAA
1 AAAATTTAAA
17094271 AAAATTTAAA
1 AAAATTTAAA
17094281 AAAGTATTTTAAA
1 AAA--A-TTTAAA
17094294 AAAATTTAAA
1 AAAATTTAAA
**
17094304 AAAATTT-TT
1 AAAATTTAAA
17094313 AAAA-TTAAA
1 AAAATTTAAA
*
17094322 AAATTTTAAA
1 AAAATTTAAA
17094332 AAA
1 AAA
17094335 GTATTTTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
8 2 0.04
9 11 0.21
10 29 0.55
11 1 0.02
12 1 0.02
13 9 0.17
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:17094313 original size:51 final size:51
Alignment explanation
Indices: 17094246--17094385 Score: 201
Period size: 51 Copynumber: 2.7 Consensus size: 51
17094236 TAAAAAAAGT
*
17094246 ATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAAA
1 ATTTAAAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAAA
* **
17094297 ATTTAAAAAA-ATTTTTAAAATTAAAAAATTTTAAAAAAGTATTTTAAAAGT
1 ATTTAAAAAATA-TTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAAA
* * *
17094348 ATTTTAAAAGTATTTTAAAATTAAAAAAATTAAAAAAA
1 ATTTAAAAAATATTTTAAAATTAAAAAAATTTAAAAAA
17094386 TAAAAATATT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 77 0.97
52 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (51 bp):
ATTTAAAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAAA
Found at i:17098185 original size:3 final size:3
Alignment explanation
Indices: 17098177--17098216 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
17098167 GGAAGAGAGA
*
17098177 AAG AAG AAG AA- AAG AAG -AG AAG -AG AAG AAG GAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
17098217 GGGCGGGGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17098436 original size:23 final size:22
Alignment explanation
Indices: 17098403--17098473 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 22
17098393 GTGTGTTGTC
*
17098403 TCATCAATTTTTTTTTTATTTTT
1 TCATCAGTTTTTTTTTT-TTTTT
* *
17098426 TCATCAGTTTTATTTATTGTTTT
1 TCATCAGTTTT-TTTTTTTTTTT
17098449 TCATCAGATTTTTTTTTCTTTTTT
1 TCATCAG-TTTTTTTTT-TTTTTT
17098473 T
1 T
17098474 TGTGTCAGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 25 0.62
24 15 0.38
ACGTcount: A:0.15, C:0.10, G:0.04, T:0.70
Consensus pattern (22 bp):
TCATCAGTTTTTTTTTTTTTTT
Found at i:17098578 original size:16 final size:18
Alignment explanation
Indices: 17098559--17098591 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17098549 AAACATAGTC
17098559 ATTTTAT-TT-TTTTAAA
1 ATTTTATATTATTTTAAA
17098575 ATTTTATATTATTTTAA
1 ATTTTATATTATTTTAA
17098592 TAAAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTATATTATTTTAAA
Found at i:17103466 original size:25 final size:25
Alignment explanation
Indices: 17103416--17103485 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
17103406 TGGACCCATT
* **
17103416 TTCATAGCTCGTGTGAG-ACTTTTGA
1 TTCACAGCTCGTGTGAGCA-TCCTGA
*
17103441 TTTACAGCTCGTGTGAGCATCCTGA
1 TTCACAGCTCGTGTGAGCATCCTGA
*
17103466 TTCACAACTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
17103486 ACATGTACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATCCTGA
Found at i:17105279 original size:8 final size:8
Alignment explanation
Indices: 17105266--17105290 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17105256 ATTGTGATTG
17105266 AAAGTGAA
1 AAAGTGAA
17105274 AAAGTGAA
1 AAAGTGAA
17105282 AAAGTGAA
1 AAAGTGAA
17105290 A
1 A
17105291 TTATGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (8 bp):
AAAGTGAA
Found at i:17107702 original size:15 final size:16
Alignment explanation
Indices: 17107682--17107711 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17107672 TGGTGCCTTG
17107682 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
17107697 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
17107712 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:17112307 original size:8 final size:8
Alignment explanation
Indices: 17112294--17112323 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
17112284 AAGATGATAC
17112294 TTTTATTT
1 TTTTATTT
*
17112302 TTTTATGT
1 TTTTATTT
17112310 TTTTATTT
1 TTTTATTT
17112318 TTTTAT
1 TTTTAT
17112324 ATTTGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:17114695 original size:36 final size:36
Alignment explanation
Indices: 17114648--17114794 Score: 186
Period size: 36 Copynumber: 4.1 Consensus size: 36
17114638 AAAAAAAGAA
* *
17114648 TTTGTATACATAATAGGGTTCACATATATATAAGGG
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
** *
17114684 TTTGTATACATAATAGGGTTTGCATACATGTAAGGA
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
* *
17114720 TTTGTATACATAATAGGGTTTACATACATGTAAGTG
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
* * * *
17114756 TTCGCATACATAATAAGGTTCACATACATGACAAGGG
1 TTTGTATACATAATAGGGTTCACATACATG-TAAGGG
17114793 TT
1 TT
17114795 CGTAGAAACA
Statistics
Matches: 96, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
36 90 0.94
37 6 0.06
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (36 bp):
TTTGTATACATAATAGGGTTCACATACATGTAAGGG
Found at i:17114784 original size:18 final size:18
Alignment explanation
Indices: 17114648--17114775 Score: 91
Period size: 18 Copynumber: 7.1 Consensus size: 18
17114638 AAAAAAAGAA
* *
17114648 TTTGTATACATAATAGGG
1 TTTGCATACATAATAAGG
** *
17114666 TTCACATATAT-ATAAGGG
1 TTTGCATACATAATAA-GG
* *
17114684 TTTGTATACATAATAGGG
1 TTTGCATACATAATAAGG
*
17114702 TTTGCATACAT-GTAAGG
1 TTTGCATACATAATAAGG
* *
17114719 ATTTGTATACATAATAGGG
1 -TTTGCATACATAATAAGG
* *
17114738 TTTACATACAT-GTAAGTG
1 TTTGCATACATAATAAG-G
*
17114756 TTCGCATACATAATAAGG
1 TTTGCATACATAATAAGG
17114774 TT
1 TT
17114776 CACATACATG
Statistics
Matches: 81, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
17 10 0.12
18 60 0.74
19 11 0.14
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (18 bp):
TTTGCATACATAATAAGG
Found at i:17114791 original size:18 final size:18
Alignment explanation
Indices: 17114725--17114791 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
17114715 AAGGATTTGT
* * *
17114725 ATACATAATAGGGTTTAC
1 ATACATGATAAGGTTCAC
*
17114743 ATACATG-TAAGTGTTCGC
1 ATACATGATAAG-GTTCAC
*
17114761 ATACATAATAAGGTTCAC
1 ATACATGATAAGGTTCAC
*
17114779 ATACATGACAAGG
1 ATACATGATAAGG
17114792 GTTCGTAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 3 0.08
18 32 0.82
19 4 0.10
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (18 bp):
ATACATGATAAGGTTCAC
Found at i:17115271 original size:27 final size:27
Alignment explanation
Indices: 17115241--17115292 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
17115231 CTCAACTCTT
* * *
17115241 CAAAACATATTTGTGAGCTTGGCTCGC
1 CAAAACATATATGTAAGCTTAGCTCGC
17115268 CAAAACATATATGTAAGCTTAGCTC
1 CAAAACATATATGTAAGCTTAGCTC
17115293 ACCAGAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (27 bp):
CAAAACATATATGTAAGCTTAGCTCGC
Found at i:17126103 original size:18 final size:18
Alignment explanation
Indices: 17126082--17126118 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17126072 AAGAGTGAAA
*
17126082 AATAAGGGATAACATAGT
1 AATAAGGGACAACATAGT
17126100 AATAAGGGACAACATAGT
1 AATAAGGGACAACATAGT
17126118 A
1 A
17126119 TCATGAGTAT
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:0.51, C:0.08, G:0.22, T:0.19
Consensus pattern (18 bp):
AATAAGGGACAACATAGT
Found at i:17130673 original size:11 final size:11
Alignment explanation
Indices: 17130623--17130675 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
17130613 ATAAAAGTTC
17130623 TAAAATA-AAT
1 TAAAATAGAAT
17130633 TAAATATATGAAT
1 TAAA-ATA-GAAT
*
17130646 TCAAAATAGACT
1 T-AAAATAGAAT
*
17130658 CAAAATAGAAT
1 TAAAATAGAAT
17130669 TAAAATA
1 TAAAATA
17130676 ACCATTGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (11 bp):
TAAAATAGAAT
Found at i:17130763 original size:3 final size:3
Alignment explanation
Indices: 17130755--17130784 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17130745 AAAGATAAAC
17130755 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17130785 CATATACTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17132419 original size:100 final size:99
Alignment explanation
Indices: 17132294--17132659 Score: 473
Period size: 100 Copynumber: 3.7 Consensus size: 99
17132284 TAACTCGCAA
** * * * * * **
17132294 CTTTAAT-CTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCC
1 CTTTAATCCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGT-GCTTTAATCTGCTCC
* * * *
17132358 ACTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAG
64 ACTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
17132394 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGACTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG-CTTTAATCTGCTCCA
* * * * *
17132459 CTGCATCGTCAGGGAGGTAATATTCACTGCTGTGG
65 CTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
*
17132494 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGT-GCTTTAATCTGCTCCA
*
17132559 CTGCATCGCCAGGGCGGTAAGATTCGCTGTTGTAG
65 CTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
* * *
17132594 CTTTAATCTTTTTAACTGCAGTGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGT-GCTTTAATCTGCTCCA
17132659 C
65 C
17132660 GATGTGGCTT
Statistics
Matches: 236, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
99 1 0.00
100 232 0.98
101 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (99 bp):
CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGCTTTAATCTGCTCCAC
TGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
Found at i:17132424 original size:50 final size:50
Alignment explanation
Indices: 17132294--17132653 Score: 251
Period size: 50 Copynumber: 7.2 Consensus size: 50
17132284 TAACTCGCAA
** * * *
17132294 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTAG
* * ** * ** * * * * *
17132344 CTTCAATCTATTCCACTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTAG
*
17132394 CTTTAATCCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGT-G
1 CTTTAAT-CTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTAG
* ** * * * * * *
17132443 ACTTTAATCTGCTCCACTGC-ATCGTCAGGGAGGTAATATTCACTGCTGTGG
1 -CTTTAATCTGTTTAACTGCAAT-GTCGGGGAAGCAAGATTCACTGATGTAG
* * *
17132494 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTAG
* ** * * ** * * *
17132544 CTTTAATCTGCTCCACTGC-ATCGCCAGGGCGGTAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAAT-GTCGGGGAAGCAAGATTCACTGATGTAG
* * * * *
17132594 CTTTAATCTTTTTAACTGCAGTGTTGGGGAAGCAAGATTCACCGATGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTAG
17132644 CTTTAATCTG
1 CTTTAATCTG
17132654 CTCCACGATG
Statistics
Matches: 229, Mismatches: 73, Indels: 16
0.72 0.23 0.05
Matches are distributed among these distances:
49 7 0.03
50 216 0.94
51 6 0.03
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (50 bp):
CTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTAG
Found at i:17132637 original size:200 final size:200
Alignment explanation
Indices: 17132294--17132659 Score: 552
Period size: 200 Copynumber: 1.8 Consensus size: 200
17132284 TAACTCGCAA
** * * * *
17132294 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCA
1 CTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTAGCTTCAATCTACTCCA
*
17132359 CTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
66 CTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
17132424 AGCAAGATTCACCGATGTGACTTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
131 AGCAAGATTCACCGATGTGACTTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
17132489 TGTGG
196 TGTGG
* * * * *
17132494 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTAGCTTCAATCTACTCCA
* * ** * * *
17132559 CTGCATCGCCAGGGCGGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAGTGTTGGGGA
66 CTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
*
17132624 AGCAAGATTCACCGATGTGGCTTTAATCTGCTCCAC
131 AGCAAGATTCACCGATGTGACTTTAATCTGCTCCAC
17132660 GATGTGGCTT
Statistics
Matches: 146, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
200 146 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (200 bp):
CTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTAGCTTCAATCTACTCCA
CTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
AGCAAGATTCACCGATGTGACTTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
TGTGG
Found at i:17132666 original size:23 final size:23
Alignment explanation
Indices: 17132636--17132682 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
17132626 CAAGATTCAC
17132636 CGATGTGGCTTTAATCTGCTCCA
1 CGATGTGGCTTTAATCTGCTCCA
* *
17132659 CGATGTGGCTTTAATTTTCTCCA
1 CGATGTGGCTTTAATCTGCTCCA
17132682 C
1 C
17132683 TGCATCGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (23 bp):
CGATGTGGCTTTAATCTGCTCCA
Found at i:17135189 original size:16 final size:15
Alignment explanation
Indices: 17135153--17135186 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17135143 TTTTCTCTCA
17135153 TTTTT-ATTTTGATT
1 TTTTTGATTTTGATT
*
17135167 TTTTTGATTTTTATT
1 TTTTTGATTTTGATT
17135182 TTTTT
1 TTTTT
17135187 TGAAAGGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTTTGATTTTGATT
Found at i:17139957 original size:11 final size:11
Alignment explanation
Indices: 17139907--17139959 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
17139897 ATAAAAGTTC
17139907 TAAAATA-AAT
1 TAAAATAGAAT
17139917 TAAATATATGAAT
1 TAAA-ATA-GAAT
*
17139930 TCAAAATAGACT
1 T-AAAATAGAAT
*
17139942 CAAAATAGAAT
1 TAAAATAGAAT
17139953 TAAAATA
1 TAAAATA
17139960 ACCATTGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (11 bp):
TAAAATAGAAT
Found at i:17140050 original size:3 final size:3
Alignment explanation
Indices: 17140042--17140083 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17140032 GATAAACATC
17140042 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17140084 CATATACTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17144993 original size:23 final size:22
Alignment explanation
Indices: 17144950--17144993 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17144940 TTCTAAGTCG
17144950 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
17144973 ATATTCACTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
17144994 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:17145186 original size:51 final size:49
Alignment explanation
Indices: 17145130--17145277 Score: 188
Period size: 50 Copynumber: 3.0 Consensus size: 49
17145120 TGACCATTAC
* *
17145130 CATCCGGTACACGTAGTAGCCTGCACGTAGTACTACACACGTGATCGAAA
1 CATCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCAAA
* * * * * * *
17145180 CTATCCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCCAT
1 C-ATCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA
17145230 CATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CA-TCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
17145278 TAACTTTCAC
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 43 0.53
51 37 0.46
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (49 bp):
CATCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA
Found at i:17145298 original size:101 final size:99
Alignment explanation
Indices: 17145089--17145282 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
17145079 TGTTCAGTTC
* ** *
17145089 ACATAGTAGCCTATACATAATACTATGCATGTGACCATTACCATCCGGTACACGTAGTAGCCTGC
1 ACATAGTAGCCTACACATAATACTACACATGCGACCATTA-CATCCGGTACACGTAGTAGCCTGC
* *
17145154 ACGTAGTACTACACACGTGATCGAAACTATCCGGT
65 ACATAGTACTACACACGTGATCCAAACTATCCGGT
*
17145189 ACGCATAGTAGCCTACACATAGTACTACACATGCGACCCA-T-CATTCCGGTACACGTAGTAGCC
1 A--CATAGTAGCCTACACATAATACTACACATGCGA-CCATTACA-TCCGGTACACGTAGTAGCC
17145252 TGCACATAGTACTACACACGTGA-CCATAACT
62 TGCACATAGTACTACACACGTGATCCA-AACT
17145283 TTCACTTTTA
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
100 5 0.06
101 45 0.55
102 29 0.35
103 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (99 bp):
ACATAGTAGCCTACACATAATACTACACATGCGACCATTACATCCGGTACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATCCGGT
Found at i:17151636 original size:20 final size:21
Alignment explanation
Indices: 17151611--17151654 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
17151601 ACTTATTCGA
*
17151611 TTATTTGA-TTTCTTGTT-TTT
1 TTATTT-ATTTTCTTATTATTT
17151631 TTATTTATTTTCTTATTATTT
1 TTATTTATTTTCTTATTATTT
17151652 TTA
1 TTA
17151655 GTATACCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 14 0.67
21 6 0.29
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (21 bp):
TTATTTATTTTCTTATTATTT
Found at i:17159338 original size:16 final size:15
Alignment explanation
Indices: 17159313--17159346 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
17159303 GAAGATGATA
*
17159313 ATAATTAATATACATT
1 ATAATAAATATA-ATT
17159329 ATAATAAATATAATT
1 ATAATAAATATAATT
17159344 ATA
1 ATA
17159347 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:17164655 original size:16 final size:16
Alignment explanation
Indices: 17164636--17164692 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
17164626 TTGGTGGCAA
17164636 TGAGTTCAACCAGGCT
1 TGAGTTCAACCAGGCT
* * *
17164652 TGAGCTCTATC---CT
1 TGAGTTCAACCAGGCT
17164665 TGAGTTCAACCAGGCT
1 TGAGTTCAACCAGGCT
*
17164681 TGTGTTCAACCA
1 TGAGTTCAACCA
17164693 TAGTGCATCT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
13 10 0.32
16 21 0.68
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (16 bp):
TGAGTTCAACCAGGCT
Found at i:17167571 original size:17 final size:17
Alignment explanation
Indices: 17167545--17167577 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17167535 TTTAGGAACA
17167545 AAATAAAAATAAAATAC
1 AAATAAAAATAAAATAC
*
17167562 AAATACAAATAAAATA
1 AAATAAAAATAAAATA
17167578 AAGATAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATAAAAATAAAATAC
Found at i:17181083 original size:17 final size:17
Alignment explanation
Indices: 17181061--17181097 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17181051 ATTGAGATAA
*
17181061 AAATAAATAACCAAAAT
1 AAATAAATAACAAAAAT
*
17181078 AAATAAATAAGAAAAAT
1 AAATAAATAACAAAAAT
17181095 AAA
1 AAA
17181098 CTAATGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (17 bp):
AAATAAATAACAAAAAT
Found at i:17181132 original size:21 final size:21
Alignment explanation
Indices: 17181092--17181132 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17181082 AAATAAGAAA
* **
17181092 AATAAACTAATGAATTAGATC
1 AATAAACTAATCAAGAAGATC
17181113 AATAAACTAATCAAGAAGAT
1 AATAAACTAATCAAGAAGAT
17181133 TAACTCACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (21 bp):
AATAAACTAATCAAGAAGATC
Found at i:17191042 original size:104 final size:104
Alignment explanation
Indices: 17190862--17191930 Score: 1971
Period size: 104 Copynumber: 10.2 Consensus size: 104
17190852 TAGCCGTTAT
** * *
17190862 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
17190927 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
17190966 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191031 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
17191070 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191135 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
*
17191174 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCAGGGAATCAGCACTTAGCAACCCCTCGGGG
17191239 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
17191279 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191344 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
17191383 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191448 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
*
17191487 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCAGGGAATCAGCACTTAGCAACCCCTCGGGG
17191552 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
17191592 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191657 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
17191696 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191761 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
* *
17191800 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGAGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCAGGGAATCAGCACTTAGCAACCCCTCGGGG
* *
17191865 GAATCAGCACATAGCAA-CCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCCTTT-TCAGTTCAAAGATA
*
17191905 TGGTGGATCA-CGCACATAGCACCACC
1 TGGTGGAT-ATCGCACTTAGCACCACC
17191931 CATATTTTTG
Statistics
Matches: 946, Mismatches: 14, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
104 655 0.69
105 290 0.31
106 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
Found at i:17191309 original size:209 final size:208
Alignment explanation
Indices: 17190862--17191930 Score: 1971
Period size: 209 Copynumber: 5.1 Consensus size: 208
17190852 TAGCCGTTAT
** * *
17190862 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
17190927 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
17190992 AATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTT
131 AATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTT
17191057 CAGTTCAAAGATA
196 CAGTTCAAAGATA
17191070 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191135 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
*
17191200 AATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
131 AATG-AATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
17191265 TCAGTTCAAAGATA
195 TCAGTTCAAAGATA
17191279 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191344 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
17191409 AATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTT
131 AATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTT
17191474 CAGTTCAAAGATA
196 CAGTTCAAAGATA
*
17191487 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCAGGGAATCAGCACTTAGCAACCCCTCGGGG
17191552 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
65 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
17191617 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
130 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
17191682 TCAGTTCAAAGATA
195 TCAGTTCAAAGATA
17191696 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
17191761 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
66 AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
* *
17191826 AATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGAGGGAATCAGCACATAGCAA-CCCCCTTT
131 AATG-AATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
* *
17191890 CACATTTCAAAGATA
195 -TCAGTTCAAAGATA
*
17191905 TGGTGGATCA-CGCACATAGCACCACC
1 TGGTGGAT-ATCGCACTTAGCACCACC
17191931 CATATTTTTG
Statistics
Matches: 842, Mismatches: 14, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
208 343 0.41
209 498 0.59
210 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (208 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
AATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTT
CAGTTCAAAGATA
Found at i:17191460 original size:313 final size:313
Alignment explanation
Indices: 17190862--17191930 Score: 2027
Period size: 313 Copynumber: 3.4 Consensus size: 313
17190852 TAGCCGTTAT
** *
17190862 TGGTGGATCCCGCACTTAGCACCACCACTG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
17190926 GAATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
66 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
17190991 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
131 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
17191056 TCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAG
196 TCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAG
17191121 CAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
261 CAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
17191174 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
17191239 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
66 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
17191304 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
131 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
17191369 TCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAG
196 TCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAG
17191434 CAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
261 CAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
17191487 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
17191552 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
66 GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
17191617 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
131 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
17191682 TCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAG
196 TCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAG
17191747 CAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
261 CAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
*
17191800 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGAGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
* * *
17191865 GAATCAGCACATAGCAA-CCCCCTTTCACATTTCAAAGATATGGTGGATCA-CGCACATAGCACC
66 GAATCAGCACATAGCAACCCCCCTTT-TCAGTTCAAAGATATGGTGGAT-ATCGCACTTAGCACC
17191928 ACC
129 ACC
17191931 CATATTTTTG
Statistics
Matches: 746, Mismatches: 8, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
312 35 0.05
313 710 0.95
314 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (313 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
GAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCAC
CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTT
TCAGTTCAAAGATATGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAG
CAACCCCTCGGGGGAATCAGCACATAGCAACCCCCCTTTTCAGTTCAAAGATA
Found at i:17194302 original size:23 final size:23
Alignment explanation
Indices: 17194246--17194303 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
17194236 ACATGCAATT
17194246 AAAAATTAAAA-ACTAAAAACGA
1 AAAAATTAAAATACTAAAAACGA
* *
17194268 AAGAAAATAAAATACT-ATAACGA
1 AA-AAATTAAAATACTAAAAACGA
17194291 AAAAATTGAAAAT
1 AAAAATT-AAAAT
17194304 TTTCCTGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 6 0.20
23 21 0.70
24 3 0.10
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAAATTAAAATACTAAAAACGA
Found at i:17211794 original size:6 final size:6
Alignment explanation
Indices: 17211783--17211810 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17211773 GACTTGAATG
17211783 AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATA
17211811 AACAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:17212207 original size:12 final size:12
Alignment explanation
Indices: 17212178--17212214 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
17212168 AATTGAGATA
17212178 AAAATAAATAATG
1 AAAATAAATAA-G
17212191 AAAATAAATAAG
1 AAAATAAATAAG
17212203 AAAATAAA-AAG
1 AAAATAAATAAG
17212214 A
1 A
17212215 CGATTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATAAATAAG
Found at i:17217449 original size:21 final size:21
Alignment explanation
Indices: 17217425--17217464 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17217415 GTGATGTCGC
17217425 GACACAGGAGCTCCATGTCTT
1 GACACAGGAGCTCCATGTCTT
* * *
17217446 GACACTGGAGTTCGATGTC
1 GACACAGGAGCTCCATGTC
17217465 GTGATGCACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (21 bp):
GACACAGGAGCTCCATGTCTT
Found at i:17223930 original size:20 final size:20
Alignment explanation
Indices: 17223876--17223922 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
17223866 GCTTGTACGG
17223876 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* * * *
17223896 ATCTGCAGTTTGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
17223916 GTTTGCA
1 GTTTGCA
17223923 TTACGGTGAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.26, G:0.26, T:0.40
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:17228092 original size:13 final size:12
Alignment explanation
Indices: 17228069--17228116 Score: 69
Period size: 12 Copynumber: 3.9 Consensus size: 12
17228059 TGAATTAATA
*
17228069 TTTTCTTTTTTA
1 TTTTCTTTTTTT
17228081 TTTTCTTTTTTT
1 TTTTCTTTTTTT
*
17228093 CTTTCTTTTTTT
1 TTTTCTTTTTTT
17228105 TTTTCCTTTTTT
1 TTTT-CTTTTTT
17228117 GCTACTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 25 0.78
13 7 0.22
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:17228102 original size:24 final size:24
Alignment explanation
Indices: 17228070--17228116 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17228060 GAATTAATAT
*
17228070 TTTCTTTTTTATTTTCTTTTTTTC
1 TTTCTTTTTTATTTTCCTTTTTTC
*
17228094 TTTCTTTTTTTTTTTCCTTTTTT
1 TTTCTTTTTTATTTTCCTTTTTT
17228117 GCTACTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTCTTTTTTATTTTCCTTTTTTC
Found at i:17228124 original size:24 final size:24
Alignment explanation
Indices: 17228073--17228124 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
17228063 TTAATATTTT
* *
17228073 CTTTTTTATTTTCTTTTTTTCTTT
1 CTTTTTTATTTTCTTTTTTGCTTA
*
17228097 CTTTTTTTTTTTCCTTTTTTGC-TA
1 CTTTTTTATTTT-CTTTTTTGCTTA
17228121 CTTT
1 CTTT
17228125 CTGTCATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (24 bp):
CTTTTTTATTTTCTTTTTTGCTTA
Found at i:17228657 original size:28 final size:27
Alignment explanation
Indices: 17228608--17228665 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
17228598 TAAGTACTAG
* *
17228608 ATATAATTGTTTTATTTTTTTAGA-AAA
1 ATATAATTATTTTAATTTTTTA-ATAAA
17228635 ATATAATTTATTTTAATTTTTTAATAAA
1 ATATAA-TTATTTTAATTTTTTAATAAA
17228663 ATA
1 ATA
17228666 AAAAAAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
ATATAATTATTTTAATTTTTTAATAAA
Found at i:17228663 original size:29 final size:27
Alignment explanation
Indices: 17228608--17228663 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
17228598 TAAGTACTAG
* *
17228608 ATATAATTGTTTTATTTTTTTAGAAAA
1 ATATAATTATTTTATTTTTTAAGAAAA
*
17228635 ATATAATTTATTTTAATTTTTTAATAAAA
1 ATATAA-TTATTTT-ATTTTTTAAGAAAA
17228664 TAAAAAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.25
28 6 0.25
29 12 0.50
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (27 bp):
ATATAATTATTTTATTTTTTAAGAAAA
Found at i:17235205 original size:13 final size:13
Alignment explanation
Indices: 17235189--17235219 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
17235179 TTTTTCTTCC
17235189 TTTTTTTCT-AAT
1 TTTTTTTCTCAAT
17235201 TTTTTTTCTCAAT
1 TTTTTTTCTCAAT
17235214 TTTTTT
1 TTTTTT
17235220 CCACAATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTCTCAAT
Found at i:17247791 original size:12 final size:12
Alignment explanation
Indices: 17247766--17247804 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17247756 ACTCGCTTCT
* *
17247766 TTACTTACTCAC
1 TTACTTGCTTAC
*
17247778 TTACTTGTTTAC
1 TTACTTGCTTAC
17247790 TTACTTGCTTAC
1 TTACTTGCTTAC
17247802 TTA
1 TTA
17247805 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:17248131 original size:50 final size:50
Alignment explanation
Indices: 17248004--17248239 Score: 174
Period size: 50 Copynumber: 4.6 Consensus size: 50
17247994 TGATAATACA
* * ** * * *
17248004 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGT-AC
1 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGA-CCTCTCATATCAG
* * **
17248053 TGCCAATGCCA-GATCCCAGATATAGTCTTGCATGGGAGTTCTCATATCAG
1 TGCCAATGCCATG-TCCCAGACATAGTCTTACATGGGACCTCTCATATCAG
* * ** * * *
17248103 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATATCAG
* *
17248153 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCAT-A--TC-A-G
*
17248208 ATGTCAATGCCATGTCCCAGACA-ACGTCTTAC
1 -TGCCAATGCCATGTCCCAGACATA-GTCTTAC
17248240 GTGTGATCTC
Statistics
Matches: 148, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
48 6 0.04
49 33 0.22
50 78 0.53
51 1 0.01
53 2 0.01
55 1 0.01
56 27 0.18
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATATCAG
Found at i:17261585 original size:17 final size:17
Alignment explanation
Indices: 17261563--17261595 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17261553 TGTTAGTGCA
*
17261563 TATTGTCGTTGCATTTC
1 TATTGTCATTGCATTTC
17261580 TATTGTCATTGCATTT
1 TATTGTCATTGCATTT
17261596 TGATTTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (17 bp):
TATTGTCATTGCATTTC
Found at i:17264277 original size:18 final size:19
Alignment explanation
Indices: 17264239--17264283 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
17264229 ATCTTAAAGG
*
17264239 AGGAGAAATGAGAAGAGAAA
1 AGGA-AAATGAGAAGAAAAA
*
17264259 A-GAAAATGAGAATAAAAA
1 AGGAAAATGAGAAGAAAAA
17264277 AGGAAAA
1 AGGAAAA
17264284 GTTGCAGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 14 0.64
19 7 0.32
20 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (19 bp):
AGGAAAATGAGAAGAAAAA
Found at i:17272318 original size:87 final size:86
Alignment explanation
Indices: 17272161--17272324 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 86
17272151 TGCATGCATA
* * *
17272161 AGGTTGAGTTCTTACTCTTAATTCATTCATAGCCCAGGGTTTGGGTGGTCCTATTGAGACAAACT
1 AGGTTGAGTTATTACTCTTAATTCATTCATAGCCCAGAGTTTGGGTGGTCCTAGTGAGACAAACT
17272226 TGATGAATTCACTGACATATG
66 TGATGAATTCACTGACATATG
* * * **
17272247 AGGTTGAGTTTATTACTCTTAA-TGAGTTCATATCCCATAGTTTGGGTGGTCCTAGTGAGACGGA
1 AGGTTGAG-TTATTACTCTTAATTCA-TTCATAGCCCAGAGTTTGGGTGGTCCTAGTGAGACAAA
17272311 CTTGATGAATTCAC
64 CTTGATGAATTCAC
17272325 CAAATTTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 10 0.15
87 58 0.85
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (86 bp):
AGGTTGAGTTATTACTCTTAATTCATTCATAGCCCAGAGTTTGGGTGGTCCTAGTGAGACAAACT
TGATGAATTCACTGACATATG
Found at i:17272729 original size:19 final size:19
Alignment explanation
Indices: 17272705--17272748 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
17272695 AGGGATCAAA
* *
17272705 TTGAGACAAATCAT-AAATT
1 TTGAGA-AAAACATGAAAAT
17272724 TTGAGAAAAACATGAAAAT
1 TTGAGAAAAACATGAAAAT
17272743 TTGAGA
1 TTGAGA
17272749 TGTAGGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (19 bp):
TTGAGAAAAACATGAAAAT
Found at i:17274061 original size:40 final size:40
Alignment explanation
Indices: 17273936--17274064 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 40
17273926 GACATTAAAA
* * *
17273936 TGCATTTAGAGGGTATCAAAGTACAAACAAGGGCACATATG
1 TGCATTCAG-GGGTACCGAAGTACAAACAAGGGCACATATG
* * *
17273977 TGCAGTCAGGGGTACCGAAGTATAAACAAGGGCACGTATG
1 TGCATTCAGGGGTACCGAAGTACAAACAAGGGCACATATG
*
17274017 TGCATTCAGGGGTACCGAAGTACAAAC-GGGGACACATATG
1 TGCATTCAGGGGTACCGAAGTACAAACAAGGG-CACATATG
17274057 TGCATTCA
1 TGCATTCA
17274065 TATATAACCT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 3 0.04
40 67 0.87
41 7 0.09
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (40 bp):
TGCATTCAGGGGTACCGAAGTACAAACAAGGGCACATATG
Found at i:17288286 original size:44 final size:44
Alignment explanation
Indices: 17288222--17288320 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
17288212 CTAGGCATAC
* *
17288222 GGATACCCTTTCGGGGTCTCTACTGGCATAAGTTATACACGACA
1 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
17288266 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
1 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
17288310 GGATACCCTTC
1 GGATACCCTTC
17288321 TAGTCTCACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (44 bp):
GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
Found at i:17294922 original size:56 final size:57
Alignment explanation
Indices: 17294850--17294994 Score: 181
Period size: 56 Copynumber: 2.6 Consensus size: 57
17294840 AAAATCTGCC
* *
17294850 TAAAAAAAGGAGAAGATAATCTTGGGATGTT-AGTTTTTATCTTAG-AAAAAATAATT
1 TAAAAAAAGGAGAAGATAATCTTGGGATGTTGA-TTTTTATCCTAGAAAAAAAGAATT
* ** *
17294906 TAAAAAAAGGAGAAGATATTCTCAGGTTGTTGATTTTTATCCTAGAAAAAAAGAATT
1 TAAAAAAAGGAGAAGATAATCTTGGGATGTTGATTTTTATCCTAGAAAAAAAGAATT
*
17294963 T-AGAAAAGGAGAAGATAATCTT-GGATTGTTGA
1 TAAAAAAAGGAGAAGATAATCTTGGGA-TGTTGA
17294995 AAAAAGAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
55 2 0.03
56 62 0.82
57 12 0.16
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (57 bp):
TAAAAAAAGGAGAAGATAATCTTGGGATGTTGATTTTTATCCTAGAAAAAAAGAATT
Found at i:17295033 original size:41 final size:42
Alignment explanation
Indices: 17294952--17295034 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
17294942 TTATCCTAGA
* *
17294952 AAAAAAGAATTTAGAAAAGGAGAAGATAATCTTGGATTGTTG
1 AAAAAAGAATTTAGAAAAGGAGAAGATAAACATGGATTGTTG
* *
17294994 AAAAAAGAATTTA-AAAAGGAGAATATAAACATGGGTTGTTG
1 AAAAAAGAATTTAGAAAAGGAGAAGATAAACATGGATTGTTG
17295035 GATTTACCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 24 0.65
42 13 0.35
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAAAGAATTTAGAAAAGGAGAAGATAAACATGGATTGTTG
Found at i:17300706 original size:54 final size:57
Alignment explanation
Indices: 17300567--17300707 Score: 216
Period size: 57 Copynumber: 2.5 Consensus size: 57
17300557 TCTGCTTAAA
* * * * *
17300567 AAAAAGAGGAGAATATAATCCTGGGATGTTGGTTTTTATCCTAGAAAAGAAAATTTT
1 AAAAAGAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAAGAAAATATT
17300624 AAAAAGAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAA-AAAA-ATT
1 AAAAAGAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAAGAAAATATT
17300679 AAAAA-AGGAGAAGATAATCTTGGGTTGTT
1 AAAAAGAGGAGAAGATAATCTTGGGTTGTT
17300708 GAAAAAATAA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 24 0.30
55 7 0.09
56 4 0.05
57 44 0.56
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (57 bp):
AAAAAGAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAAGAAAATATT
Found at i:17300746 original size:43 final size:41
Alignment explanation
Indices: 17300667--17300747 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 41
17300657 TTTTATCCTA
* *
17300667 GAAAAAAAAATTAAAAAAGGAGAAGATAATCTTGGGTTGTT
1 GAAAAAAAAATTAAAAAAGGAGAAGATAAACATGGGTTGTT
*
17300708 GAAAAAATAATTTAAAAAGAGGAGAAGATAAACATGGGTT
1 GAAAAAA-AAATTAAAAA-AGGAGAAGATAAACATGGGTT
17300748 CATGGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 7 0.20
42 9 0.26
43 19 0.54
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (41 bp):
GAAAAAAAAATTAAAAAAGGAGAAGATAAACATGGGTTGTT
Found at i:17306721 original size:7 final size:7
Alignment explanation
Indices: 17306703--17306736 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
17306693 CTGTTAATTC
17306703 TTTTTAT
1 TTTTTAT
*
17306710 TTTTTTT
1 TTTTTAT
17306717 ATTTTTAT
1 -TTTTTAT
17306725 TTTTTAT
1 TTTTTAT
17306732 TTTTT
1 TTTTT
17306737 TAAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:17306723 original size:15 final size:15
Alignment explanation
Indices: 17306703--17306738 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
17306693 CTGTTAATTC
17306703 TTTTTATTTTTT-TT
1 TTTTTATTTTTTATT
17306717 ATTTTTATTTTTTATT
1 -TTTTTATTTTTTATT
17306733 TTTTTA
1 TTTTTA
17306739 AAAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTATTTTTTATT
Found at i:17306729 original size:13 final size:13
Alignment explanation
Indices: 17306711--17306735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17306701 TCTTTTTATT
17306711 TTTTTTATTTTTA
1 TTTTTTATTTTTA
17306724 TTTTTTATTTTT
1 TTTTTTATTTTT
17306736 TTAAAAAAAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:17306977 original size:18 final size:18
Alignment explanation
Indices: 17306954--17306988 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17306944 TTTAAATTCA
*
17306954 TTATTATGGTTATTGTGT
1 TTATTATGATTATTGTGT
17306972 TTATTATGATTATTGTG
1 TTATTATGATTATTGTG
17306989 ATGTTGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (18 bp):
TTATTATGATTATTGTGT
Found at i:17307388 original size:106 final size:106
Alignment explanation
Indices: 17307228--17307436 Score: 364
Period size: 106 Copynumber: 2.0 Consensus size: 106
17307218 ATGCAAAATC
*
17307228 TCAAAATAAGGCAATATTTCGCGTTTGGAAGATTCGGGAAATTGTGCCCTAACGTGCTGGGTTTC
1 TCAAAATAAGGCAATATTTCGCATTTGGAAGATTCGGGAAATTGTGCCCTAACGTGCTGGGTTTC
* *
17307293 AATTTCTCGTTCGACCGAATAGCCAAATATCCTTTTAACTT
66 AATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAACTT
*
17307334 TCAAAATAAGGCAATATTTTGCATTTGGAAGATTCGGGAAATTGTGCCCTAACGTGCTGGGTTTC
1 TCAAAATAAGGCAATATTTCGCATTTGGAAGATTCGGGAAATTGTGCCCTAACGTGCTGGGTTTC
* *
17307399 GATTTCTCGTTCGACTAAATAGCCAAATATCCTCTTAA
66 AATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAA
17307437 AACTTCAAAG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (106 bp):
TCAAAATAAGGCAATATTTCGCATTTGGAAGATTCGGGAAATTGTGCCCTAACGTGCTGGGTTTC
AATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAACTT
Found at i:17312015 original size:12 final size:12
Alignment explanation
Indices: 17311998--17312022 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17311988 TAAGGCAGGA
17311998 GCCCAACACAAG
1 GCCCAACACAAG
17312010 GCCCAACACAAG
1 GCCCAACACAAG
17312022 G
1 G
17312023 ACTAACACAG
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:0.40, C:0.40, G:0.20, T:0.00
Consensus pattern (12 bp):
GCCCAACACAAG
Found at i:17318948 original size:84 final size:84
Alignment explanation
Indices: 17318807--17319511 Score: 1193
Period size: 84 Copynumber: 8.4 Consensus size: 84
17318797 CGAAAGAAAC
* *
17318807 CAAGTCTTATCCCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
17318872 GTAGTGGAGCAGATCACAT
66 GTAGTGGAGCAGATCACAT
*
17318891 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAAAAAAGAAACCAGATCTTATCTCCCTAAGCA
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
17318956 GTAGTGGAGCAGATCACAT
66 GTAGTGGAGCAGATCACAT
*
17318975 CAAGTCTTATCTCCCTAAGCAGTAGCGAAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
17319040 GTAGTGGAGCAGATCACAT
66 GTAGTGGAGCAGATCACAT
* *
17319059 CAAGTCTTATCTCCCTAAGCAGTAGCAGAGCAGAAAAAAGAAACCAGATCTTATCTCCCTAAGCA
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
17319124 GTAGTGGAGCAGATCACAT
66 GTAGTGGAGCAGATCACAT
* *
17319143 CAAGTCTTATCTCCCTAAACAGTAGCGGAGTAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
*
17319208 GTAGTGGGGCAGATCACAT
66 GTAGTGGAGCAGATCACAT
* *
17319227 CAAGTCTTATCCCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
17319292 GTAGTGGAGCAGATCACAT
66 GTAGTGGAGCAGATCACAT
*
17319311 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGACCTTATCTCCCTAAGCA
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
17319376 GTAGTGGAGCAGATCACAT
66 GTAGTGGAGCAGATCACAT
* * *
17319395 AAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAG---ATAG-AACCATAGATCTTATCTCCCTAAG
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACC--AGATCTTATCTCCCTAAG
* *
17319456 CAGTAGTGGAGCAAATCGCAT
64 CAGTAGTGGAGCAGATCACAT
* *
17319477 CAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGAC
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAC
17319512 GAAACCAACC
Statistics
Matches: 588, Mismatches: 29, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
80 4 0.01
81 3 0.01
82 67 0.11
84 514 0.87
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (84 bp):
CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCACAT
Found at i:17321077 original size:7 final size:7
Alignment explanation
Indices: 17321059--17321092 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
17321049 CTGTTAATTC
17321059 TTTTTAT
1 TTTTTAT
*
17321066 TTTTTTT
1 TTTTTAT
17321073 ATTTTTAT
1 -TTTTTAT
17321081 TTTTTAT
1 TTTTTAT
17321088 TTTTT
1 TTTTT
17321093 TAAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:17321079 original size:15 final size:15
Alignment explanation
Indices: 17321059--17321094 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
17321049 CTGTTAATTC
17321059 TTTTTATTTTTT-TT
1 TTTTTATTTTTTATT
17321073 ATTTTTATTTTTTATT
1 -TTTTTATTTTTTATT
17321089 TTTTTA
1 TTTTTA
17321095 AAAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTATTTTTTATT
Found at i:17321085 original size:13 final size:13
Alignment explanation
Indices: 17321067--17321091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17321057 TCTTTTTATT
17321067 TTTTTTATTTTTA
1 TTTTTTATTTTTA
17321080 TTTTTTATTTTT
1 TTTTTTATTTTT
17321092 TTAAAAAAAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:17321333 original size:18 final size:18
Alignment explanation
Indices: 17321310--17321344 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17321300 TTTAAATTCA
*
17321310 TTATTATGGTTATTGTGT
1 TTATTATGATTATTGTGT
17321328 TTATTATGATTATTGTG
1 TTATTATGATTATTGTG
17321345 ATGTTGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (18 bp):
TTATTATGATTATTGTGT
Found at i:17325804 original size:2 final size:2
Alignment explanation
Indices: 17325797--17325830 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17325787 TTGGGCACCA
17325797 AT AT 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 AT AT
17325831 TNNNTTCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17329657 original size:132 final size:132
Alignment explanation
Indices: 17329453--17329970 Score: 815
Period size: 132 Copynumber: 3.9 Consensus size: 132
17329443 ATTGGATACG
* * * * *
17329453 ACCTGCTCCACTACTGCTTAGGGAAACAAGGCTTGGTGGC-TAAATCTGCTTCCCACTATCTTGG
1 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
* * *
17329517 AAAGATAAGATTTGATGTCTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTT
66 AAAGATAAGATTTGACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
17329582 CA
131 CA
*
17329584 ACCTTCTCCACTGCTGCTCAGAGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
1 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
* * *
17329649 AAAGATAAGATTTGATGTCTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTT
66 AAAGATAAGATTTGACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
17329714 CA
131 CA
* *
17329716 ACCATCTCCACCGCTGCTCAGGGAGACAAGGTTTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
1 ACCTTCTCCACTGCTGCTCAGGGAGACAAGG-TTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
* * *
17329781 GAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTT
65 GAAAGATAAGATTTGACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
17329846 TCA
130 TCA
*
17329849 ACCTTCTCGACTGCTGCTCAGGGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
1 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
* * *
17329914 AAAGATAAGA-TTCACCGTCTTCGATCCGCTCCACTACTGCTCAGGGAGATAAGATCT
66 AAAGATAAGATTTGA-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
17329971 GGTGTTTCAC
Statistics
Matches: 361, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
131 35 0.10
132 203 0.56
133 123 0.34
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
ACCTTCTCCACTGCTGCTCAGGGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
AAAGATAAGATTTGACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
CA
Found at i:17329832 original size:44 final size:44
Alignment explanation
Indices: 17329784--17329968 Score: 108
Period size: 44 Copynumber: 4.2 Consensus size: 44
17329774 TATCTTGGAA
* * *
17329784 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTCAGGG
** * * * * *
17329828 AGATAAGA-TCTACAATTTTCAACCTTCTCGACTGCTGCTCAGGG
1 AGATAAGATTC-ACCGTCTTCAATCTGCTCCACTACTGCTCAGGG
* * **** * * * *
17329872 AGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTA-T-CT-TGGAA
1 AGATAAGATTCACCGTCTTCAATCTGC-T-CCACTACTGCTCAGG-G
* *
17329916 AGATAAGATTCACCGTCTTCGATCCGCTCCACTACTGCTCAGGG
1 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTCAGGG
17329960 AGATAAGAT
1 AGATAAGAT
17329969 CTGGTGTTTC
Statistics
Matches: 95, Mismatches: 38, Indels: 16
0.64 0.26 0.11
Matches are distributed among these distances:
42 6 0.06
43 6 0.06
44 74 0.78
45 5 0.05
46 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTCAGGG
Found at i:17329966 original size:265 final size:263
Alignment explanation
Indices: 17329466--17329970 Score: 823
Period size: 265 Copynumber: 1.9 Consensus size: 263
17329456 TGCTCCACTA
* *
17329466 CTGCTTAGGGAAACAAGGCTTGGTGGCTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTG
1 CTGCTCAGGGAAACAAGGCTTGGTGGCTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG
* * *
17329531 ATGTCTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACT
66 ACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACT
17329596 GCTGCTCAGAGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
131 GCTGCTCAGAGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
* * ** * *
17329661 TGATGTCTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCATCTCCA
196 TCACGTCTTCGATCCGCTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCATCTCCA
17329726 CCG
261 CCG
* *
17329729 CTGCTCAGGGAGACAAGGTTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
1 CTGCTCAGGGAAACAAGG-CTTGGTGGC-TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
* * *
17329794 CGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCGA
64 CGACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCA
*
17329859 CTGCTGCTCAGGGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGA
129 CTGCTGCTCAGAGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGA
17329924 -TTCACCGTCTTCGATCCGCTCCACTACTGCTCAGGGAGATAAGATCT
194 TTTCA-CGTCTTCGATCCGCTCCACTACTGCTCAGGGAGATAAGATCT
17329971 GGTGTTTCAC
Statistics
Matches: 222, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
263 16 0.07
264 11 0.05
265 195 0.88
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (263 bp):
CTGCTCAGGGAAACAAGGCTTGGTGGCTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG
ACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACT
GCTGCTCAGAGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
TCACGTCTTCGATCCGCTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCATCTCCA
CCG
Found at i:17335572 original size:620 final size:621
Alignment explanation
Indices: 17334386--17335630 Score: 2285
Period size: 620 Copynumber: 2.0 Consensus size: 621
17334376 TTTCCTCAAC
*
17334386 CGATTTCGTTCTTTCCTGATGAATGATCCATCCGGATATGAAAGTTTTGGATATGTGGGGAATTA
1 CGATTTCGTTCTTTCCTGATGAATGATCCATCCGAATATGAAAGTTTTGGATATGTGGGGAATTA
* *
17334451 TCGTTGGCTCCCACTTAGTTTCCACCCCCTTCAAACGCGCCCTTCTTTTTTCCTGCCTTTTTTCT
66 TCATTGGCTCCCACTTAGTTTCCACCCCCTTCAAACGCGCCCTTCTTCTTTCCTGCCTTTTTTCT
*
17334516 ATCTCCTTCCTTATTTGTCCTCTATCTGGCTTGTATCCTAAACCAAAATGATCTTGCTTTTCTTT
131 ATCTCCTTCCTTATTTGTCCTCTATCCGGCTTGTATCCTAAACCAAAATGATCTTGCTTTTCTTT
*
17334581 TAGCATTGGAACCTCAATCTTCCCTTGAAGATATCTCCCCAGCTCCAGCCCTCTTTCGGGTAAAG
196 CAGCATTGGAACCTCAATCTTCCCTTGAAGATATCT---C--CTCCAGCCCTCTTTCGGGTAAAG
17334646 CTCCTTTTCCTACCAACAATTGTAAACCCATCTCTGTGGATTTGGATAATTTTGAAGCCACAATT
256 CTCCTTTTCCTACCAACAATTGTAAACCCATCTCTGTGGATTTGGATAATTTTGAAGCCACAATT
*
17334711 TTGCTCCCTTCAGGAACAAATGCCGCATTTACAAACTCCAAAGATCGAAATGAGCATTCAACTGA
321 TTGCTCCCTTCAGGAACAAATGCCGCATTTACAAACTCCAAAGATCGAAACGAGCATTCAACTGA
17334776 CTCATCATTGGTTTCCACATACGGCATCTCATTGGATACAGTTGCTATTATATCCTCTTCGGCTT
386 CTCATCATTGGTTTCCACATACGGCATCTCATTGGATACAGTTGCTATTATATCCTCTTCGGCTT
*
17334841 TTATTGTCACTAGCCGACCATCTGACACTAACTTCCACATCTGATGTAATGATGACGGAACTGCC
451 TTATTGTCACTAGCCGACCATCTGACACTAACTTCAACATCTGATGTAATGATGACGGAACTGCC
*
17334906 CCTGCCGAATGTATCCATGGTATTCCTAATAAGCAGTTATAGGAAGGTTTGATGTCCATCATGAT
516 CCTACCGAATGTATCCATGGTATTCCTAATAAGCAGTTATAGGAAGGTTTGATGTCCATCATGAT
17334971 AAAATCTACCTCATAAACTGTTGGACCAATCAGTAAGGGTT
581 AAAATCTACCTCATAAACTGTTGGACCAATCAGTAAGGGTT
* *
17335012 CGATTTCGTTCTTTCCTGATGAATGATCCCTCTGAATATGAAAGTTTTGGATATGTGGGGAATTA
1 CGATTTCGTTCTTTCCTGATGAATGATCCATCCGAATATGAAAGTTTTGGATATGTGGGGAATTA
*
17335077 TCATTGGCTCCCACTTAGTTTCCTCCCCCTTCAAACGCGCCCTTCTTCTTTCCTGCCTTTTTTCT
66 TCATTGGCTCCCACTTAGTTTCCACCCCCTTCAAACGCGCCCTTCTTCTTTCCTGCCTTTTTTCT
17335142 ATCTCCTTCCTTATTTGTCCTCTATCCGGCTTGTATCCTAAACCAAAATGATCTTGCTTTTCTTT
131 ATCTCCTTCCTTATTTGTCCTCTATCCGGCTTGTATCCTAAACCAAAATGATCTTGCTTTTCTTT
*
17335207 CAGCATTGGAACCTCAGTCTTCCCTTGAAGATATCT-CTCCAGCCCTCTTTCGGGTAAAGCTCCT
196 CAGCATTGGAACCTCAATCTTCCCTTGAAGATATCTCCTCCAGCCCTCTTTCGGGTAAAGCTCCT
17335271 TTTCCTACCAACAATTGTAAACCCATCTCTGTGGATTTGGATAATTTTGAAGCCACAATTTTGCT
261 TTTCCTACCAACAATTGTAAACCCATCTCTGTGGATTTGGATAATTTTGAAGCCACAATTTTGCT
* *
17335336 TCCTTCAGGGACAAATGCCGCATTTACAAACTCCAAAGATCGAAACGAGCATTCAACTGACTCAT
326 CCCTTCAGGAACAAATGCCGCATTTACAAACTCCAAAGATCGAAACGAGCATTCAACTGACTCAT
* *
17335401 CATTGGTTTCCACGTACGGCATCTCATTGGATACAGTTGCTATTATATCCTTTTCGGCTTTTATT
391 CATTGGTTTCCACATACGGCATCTCATTGGATACAGTTGCTATTATATCCTCTTCGGCTTTTATT
17335466 GTCACTAGCCGACCATCTGACACTAACTTCAACATCTGATGTAATGATGACGGAACTGCCCCTAC
456 GTCACTAGCCGACCATCTGACACTAACTTCAACATCTGATGTAATGATGACGGAACTGCCCCTAC
*
17335531 CGAATGTATCCATGGTCTTCCTAATAAGCAGTTATAGGAAGGTTTGATGTCCATCATGATAAAAT
521 CGAATGTATCCATGGTATTCCTAATAAGCAGTTATAGGAAGGTTTGATGTCCATCATGATAAAAT
17335596 CTACCTCATAAACTGTTGGACCAATCAGTAAGGGT
586 CTACCTCATAAACTGTTGGACCAATCAGTAAGGGT
17335631 ACCTCAATTC
Statistics
Matches: 602, Mismatches: 17, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
620 380 0.63
626 222 0.37
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (621 bp):
CGATTTCGTTCTTTCCTGATGAATGATCCATCCGAATATGAAAGTTTTGGATATGTGGGGAATTA
TCATTGGCTCCCACTTAGTTTCCACCCCCTTCAAACGCGCCCTTCTTCTTTCCTGCCTTTTTTCT
ATCTCCTTCCTTATTTGTCCTCTATCCGGCTTGTATCCTAAACCAAAATGATCTTGCTTTTCTTT
CAGCATTGGAACCTCAATCTTCCCTTGAAGATATCTCCTCCAGCCCTCTTTCGGGTAAAGCTCCT
TTTCCTACCAACAATTGTAAACCCATCTCTGTGGATTTGGATAATTTTGAAGCCACAATTTTGCT
CCCTTCAGGAACAAATGCCGCATTTACAAACTCCAAAGATCGAAACGAGCATTCAACTGACTCAT
CATTGGTTTCCACATACGGCATCTCATTGGATACAGTTGCTATTATATCCTCTTCGGCTTTTATT
GTCACTAGCCGACCATCTGACACTAACTTCAACATCTGATGTAATGATGACGGAACTGCCCCTAC
CGAATGTATCCATGGTATTCCTAATAAGCAGTTATAGGAAGGTTTGATGTCCATCATGATAAAAT
CTACCTCATAAACTGTTGGACCAATCAGTAAGGGTT
Found at i:17345133 original size:98 final size:98
Alignment explanation
Indices: 17345011--17345213 Score: 318
Period size: 98 Copynumber: 2.1 Consensus size: 98
17345001 ATATAAAAAT
* * *
17345011 TTTAAAATAGCATCCATTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACGATCCC
1 TTTAAAAGAACATCCATTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCC
17345076 TTTAGAATCCCAAACTCGGAATATTTCCTTTAA
66 TTTAGAATCCCAAACTCGGAATATTTCCTTTAA
* *
17345109 TTTAAAAGAACATCCACTT-ATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 TTTAAAAGAACATCCA-TTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCC
* * *
17345173 CTTTAGAATCTCAAACTTGGAATATTTCCTTTAC
65 CTTTAGAATCCCAAACTCGGAATATTTCCTTTAA
17345207 TTTAAAA
1 TTTAAAA
17345214 AATCTTCATT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
98 94 0.98
99 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (98 bp):
TTTAAAAGAACATCCATTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCC
TTTAGAATCCCAAACTCGGAATATTTCCTTTAA
Found at i:17345620 original size:13 final size:13
Alignment explanation
Indices: 17345602--17345629 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17345592 TTATGTTTTT
17345602 TAGTAGAAATATA
1 TAGTAGAAATATA
17345615 TAGTAGAAATATA
1 TAGTAGAAATATA
17345628 TA
1 TA
17345630 CATAAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (13 bp):
TAGTAGAAATATA
Found at i:17357975 original size:24 final size:24
Alignment explanation
Indices: 17357943--17357997 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
17357933 TATATGATGC
17357943 TATTGTGAATTGTAAAAGAAAACA
1 TATTGTGAATTGTAAAAGAAAACA
*
17357967 TATTGTGAATTGTAGAAGAAAACA
1 TATTGTGAATTGTAAAAGAAAACA
17357991 TATTGTG
1 TATTGTG
17357998 TTAAAATGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.33
Consensus pattern (24 bp):
TATTGTGAATTGTAAAAGAAAACA
Found at i:17375099 original size:23 final size:23
Alignment explanation
Indices: 17375034--17375101 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
17375024 CCACACTTAT
* * *
17375034 ATGTAGCCGAAGCTACTACAGAT
1 ATGTAGCCGAAGCTACCACTGAA
*
17375057 ATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
17375080 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
17375102 TCAATAACAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:17375309 original size:11 final size:11
Alignment explanation
Indices: 17375293--17375323 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
17375283 CTTTATCACT
17375293 TGAACAATTCA
1 TGAACAATTCA
17375304 TGAACAATTCA
1 TGAACAATTCA
17375315 TGAACAATT
1 TGAACAATT
17375324 TTCCTTCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (11 bp):
TGAACAATTCA
Found at i:17375366 original size:18 final size:17
Alignment explanation
Indices: 17375331--17375369 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
17375321 ATTTTCCTTC
17375331 CACATTCAATATTAATT
1 CACATTCAATATTAATT
17375348 CACATATCAGATA-TAATT
1 CACAT-TCA-ATATTAATT
17375366 CACA
1 CACA
17375370 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 12 0.60
19 3 0.15
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (17 bp):
CACATTCAATATTAATT
Done.