Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 207 of 295
Found at i:66192737 original size:67 final size:67
Alignment explanation
Indices: 66192629--66192764 Score: 236
Period size: 67 Copynumber: 2.0 Consensus size: 67
66192619 AACCTTGACC
*
66192629 TTGTTGCTTTTATAATTCTTTAACAACACTTTTTTTTAGATGTGAAAAATATATAGATAAGTTAA
1 TTGTTGCTTTTATAATTCTTTAACAACACTTTCTTTTAGATGTGAAAAATATATAGATAAGTTAA
66192694 AT
66 AT
* * *
66192696 TTGTTGTTTTTATAATTCTTTAACAACACTTTCTTTTAGATGTGAAAAATATATAGTTATGTTAA
1 TTGTTGCTTTTATAATTCTTTAACAACACTTTCTTTTAGATGTGAAAAATATATAGATAAGTTAA
66192761 AT
66 AT
66192763 TT
1 TT
66192765 TTAATAGTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (67 bp):
TTGTTGCTTTTATAATTCTTTAACAACACTTTCTTTTAGATGTGAAAAATATATAGATAAGTTAA
AT
Found at i:66199303 original size:28 final size:28
Alignment explanation
Indices: 66199247--66199308 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
66199237 AACAAAGATA
*
66199247 AAGTCCACCAGGATAGTAAACATGAGGT
1 AAGTCCACCAGGATAGTAAACACGAGGT
* * *
66199275 ACGTCCACTAGGATAGTAAACACGGGGT
1 AAGTCCACCAGGATAGTAAACACGAGGT
66199303 AAGTCC
1 AAGTCC
66199309 GATGGGACGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (28 bp):
AAGTCCACCAGGATAGTAAACACGAGGT
Found at i:66202554 original size:38 final size:38
Alignment explanation
Indices: 66202503--66202578 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
66202493 CAAGTAGGGA
66202503 ATAAATTTATATTTAATCATTTTATATTCGTTATCCTC
1 ATAAATTTATATTTAATCATTTTATATTCGTTATCCTC
* **
66202541 ATAAATTTATATTTAGTCATTTTATATTTTTTATCCTC
1 ATAAATTTATATTTAATCATTTTATATTCGTTATCCTC
66202579 GCATGATAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (38 bp):
ATAAATTTATATTTAATCATTTTATATTCGTTATCCTC
Found at i:66204831 original size:57 final size:57
Alignment explanation
Indices: 66204743--66204857 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
66204733 AAAGACTTAG
* *
66204743 TTTATTTTTTTCAATGGCATGTATAGTATTTTTTAGTATTTTGTTATATGTGTCATT
1 TTTATTTTGTTCAATGGCATGTATAGTATTTTTTAATATTTTGTTATATGTGTCATT
*
66204800 TTTATTTTGTTCAATGGCATGTGTAGTATTTTTTAATATTTTGTTATATGTGTCATT
1 TTTATTTTGTTCAATGGCATGTATAGTATTTTTTAATATTTTGTTATATGTGTCATT
66204857 T
1 T
66204858 GATTTTCCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.21, C:0.05, G:0.15, T:0.59
Consensus pattern (57 bp):
TTTATTTTGTTCAATGGCATGTATAGTATTTTTTAATATTTTGTTATATGTGTCATT
Found at i:66223092 original size:27 final size:27
Alignment explanation
Indices: 66223062--66223183 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 27
66223052 AAATTGTACA
*
66223062 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
66223089 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
66223116 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
66223143 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
66223170 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
66223184 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:66223122 original size:54 final size:54
Alignment explanation
Indices: 66223061--66223183 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
66223051 TAAATTGTAC
* * **
66223061 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATAT-AT
** *
66223116 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATAT
*
66223169 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66223184 GGCTCAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
53 2 0.03
54 57 0.97
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATAT
Found at i:66231894 original size:11 final size:9
Alignment explanation
Indices: 66231863--66231891 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
66231853 TTATGTTGAA
66231863 ATGAATTAT
1 ATGAATTAT
66231872 ATGAATTAT
1 ATGAATTAT
66231881 ATGAATTAT
1 ATGAATTAT
66231890 AT
1 AT
66231892 ATGTTATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (9 bp):
ATGAATTAT
Found at i:66250374 original size:26 final size:26
Alignment explanation
Indices: 66250338--66250414 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
66250328 AATGCCCTTG
* *
66250338 GTTTAAAAAATTACTGAATACCCCTA
1 GTTTATAAAATTACAGAATACCCCTA
*
66250364 GTTTATAAAATTACCAAAATACCCCTA
1 GTTTATAAAATTA-CAGAATACCCCTA
* * * *
66250391 ATTTGTGAAATTACCGAAATACCC
1 GTTTATAAAATTACAG-AATACCC
66250415 TCGACCTGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.32
27 28 0.68
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
GTTTATAAAATTACAGAATACCCCTA
Found at i:66250427 original size:54 final size:54
Alignment explanation
Indices: 66250344--66250658 Score: 262
Period size: 54 Copynumber: 5.8 Consensus size: 54
66250334 CTTGGTTTAA
* * *
66250344 AAAATTACTG-AATACCC-CTAGTTTATAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACTGAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCCTGATTTGT
* * ** * *
66250397 GAAATTACCGAAATACCCTCGACCTGTAAAATTACCAAAATACCCTTGACTTGT
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * *
66250451 AAAATTACTGAAATAACCTCGATTTATAAAATTACCTAGATACCCCTGATTTGG
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * **
66250505 AAAATTAATGAAATACCCTTGATTTGGAAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCA-AAATACCCCTGATTTGT
* * ** * * * *
66250559 AAAATTACAGAAATACCCTTGACTTTCAAAAATTA-TAGAAATA-CCATTATTTTGC
1 AAAATTACTGAAATACCCTCGA-TTTGTAAAATTACCA-AAATACCCCTGA-TTTGT
* * * * *
66250614 AAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCC
66250659 TAGTAGGGTG
Statistics
Matches: 210, Mismatches: 45, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
53 9 0.04
54 155 0.74
55 46 0.22
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:66250465 original size:81 final size:82
Alignment explanation
Indices: 66250369--66250581 Score: 220
Period size: 81 Copynumber: 2.6 Consensus size: 82
66250359 CCCTAGTTTA
* * * * *
66250369 TAAAATTACCA-AAATACCCCTAATTTGTGAAATTACCGAAATACCCTC-GACCTGTAAAATTAC
1 TAAAATTA-CAGAAATACCCCTGATTTATAAAATTACCGAAATACCCTCTGACCTGGAAAATTAA
66250432 CAAAATACCCTTGACTTG
65 CAAAATACCCTTGACTTG
* * * * **
66250450 TAAAATTACTGAAATA-ACCTCGATTTATAAAATTACCTAGATACCC-CTGATTTGGAAAATTAA
1 TAAAATTACAGAAATACCCCT-GATTTATAAAATTACCGAAATACCCTCTGACCTGGAAAATTAA
** *
66250513 TGAAATACCCTTGATTTG
65 CAAAATACCCTTGACTTG
* * *
66250531 GAAAATTACAGAAATACCCCTGATTTACAAAATTACAGAAATACCCT-TGAC
1 TAAAATTACAGAAATACCCCTGATTTATAAAATTACCGAAATACCCTCTGAC
66250582 TTTCAAAAAT
Statistics
Matches: 105, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
80 5 0.05
81 97 0.92
82 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (82 bp):
TAAAATTACAGAAATACCCCTGATTTATAAAATTACCGAAATACCCTCTGACCTGGAAAATTAAC
AAAATACCCTTGACTTG
Found at i:66250588 original size:27 final size:27
Alignment explanation
Indices: 66250370--66250639 Score: 199
Period size: 27 Copynumber: 10.0 Consensus size: 27
66250360 CCTAGTTTAT
* * *
66250370 AAAATTACCA-AAATACCCCTAATTTGT
1 AAAATTA-CAGAAATACCCTTGATTTGC
* * * ** *
66250397 GAAATTACCGAAATACCCTCGACCTGT
1 AAAATTACAGAAATACCCTTGATTTGC
* *
66250424 AAAATTACCA-AAATACCCTTGACTTGT
1 AAAATTA-CAGAAATACCCTTGATTTGC
* * * **
66250451 AAAATTACTGAAATAACCTCGATTTAT
1 AAAATTACAGAAATACCCTTGATTTGC
** * * *
66250478 AAAATTACCTAGATACCCCTGATTTGG
1 AAAATTACAGAAATACCCTTGATTTGC
*
66250505 AAAATTA-ATGAAATACCCTTGATTTGG
1 AAAATTACA-GAAATACCCTTGATTTGC
* *
66250532 AAAATTACAGAAATACCCCTGATTTAC
1 AAAATTACAGAAATACCCTTGATTTGC
66250559 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACAGAAATACCCTTGA-TTTGC
* *
66250586 AAAAATTATAGAAATACCATT-ATTTTGC
1 -AAAATTACAGAAATACCCTTGA-TTTGC
* *
66250614 AAAATTACTGAAATACCCTTGGTTTG
1 AAAATTACAGAAATACCCTTGATTTG
66250640 TAGATTTACC
Statistics
Matches: 195, Mismatches: 39, Indels: 18
0.77 0.15 0.07
Matches are distributed among these distances:
26 2 0.01
27 169 0.87
28 24 0.12
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTTGATTTGC
Found at i:66250961 original size:41 final size:41
Alignment explanation
Indices: 66250899--66251019 Score: 179
Period size: 41 Copynumber: 3.0 Consensus size: 41
66250889 AGAGGAAGAA
* *
66250899 ATTGAGAATCGCATGGTTGCTTGACGACCATGGATCCACAG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACAG
* * *
66250940 ATTGAGGATCGCATGGCTGCTTGACGACCGTAGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACAG
* *
66250981 ATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCAC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
66251020 CAGTGGCTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACAG
Found at i:66255483 original size:45 final size:45
Alignment explanation
Indices: 66255219--66255480 Score: 308
Period size: 45 Copynumber: 5.9 Consensus size: 45
66255209 TTTCATCAAA
* * **
66255219 TCACCGGCATT-TAGCCTGCTAGGTTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGG-CTCAAAGGCCCGAATAGT-ATC
* * * * *
66255262 TCACTGGCATT-TCGCCTGCTAGGCTC-GAGGCCC-AATA-TCCTT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
66255304 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
*
66255349 TCACCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
66255394 TCACCGACATTATAGCCTGCTAGGGTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
66255439 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
66255481 GTCGTACGAT
Statistics
Matches: 191, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
40 3 0.02
41 7 0.04
42 11 0.06
43 35 0.18
44 7 0.04
45 127 0.66
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:66261245 original size:49 final size:49
Alignment explanation
Indices: 66261176--66261659 Score: 736
Period size: 49 Copynumber: 10.1 Consensus size: 49
66261166 GAAATGATAG
66261176 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
66261225 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
66261272 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
66261321 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
66261368 TAGGGCCTAATGGCCGATCTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
66261417 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
66261464 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
66261513 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
66261560 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
66261609 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
66261656 TAAG
1 TAAG
66261660 TCCCGAAGGG
Statistics
Matches: 398, Mismatches: 29, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
47 185 0.46
48 1 0.00
49 212 0.53
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:66261340 original size:96 final size:96
Alignment explanation
Indices: 66261176--66261659 Score: 806
Period size: 96 Copynumber: 5.0 Consensus size: 96
66261166 GAAATGATAG
*
66261176 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
66261241 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
66261272 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
66261337 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* *
66261368 TAGGGCCTAATGGCCGATCTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
66261433 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
66261464 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
*
66261529 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
66261560 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
* * *
66261625 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
66261656 TAAG
1 TAAG
66261660 TCCCGAAGGG
Statistics
Matches: 375, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 375 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:66263733 original size:43 final size:43
Alignment explanation
Indices: 66263685--66263830 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
66263675 TTGGTTTTCA
66263685 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
66263728 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
66263771 ACACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
66263814 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
66263831 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:66263847 original size:29 final size:29
Alignment explanation
Indices: 66263812--66263885 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
66263802 GTTGTGAGAT
* *
66263812 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
66263841 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
66263870 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66263886 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:66264474 original size:40 final size:40
Alignment explanation
Indices: 66264200--66264460 Score: 287
Period size: 40 Copynumber: 6.5 Consensus size: 40
66264190 TCGAATGATG
* *
66264200 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
66264240 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
*
66264280 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
66264320 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
66264360 TCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
66264400 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
66264440 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
66264461 TAATCATGAT
Statistics
Matches: 187, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 167 0.89
41 19 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:66268063 original size:49 final size:49
Alignment explanation
Indices: 66267994--66268469 Score: 700
Period size: 49 Copynumber: 10.1 Consensus size: 49
66267984 GAAATGATAG
66267994 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
66268043 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
66268090 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
66268139 TAAGGCCTAATGACTGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
66268186 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
66268235 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
66268282 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
66268330 --A---C--AGGGCCGACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
66268370 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
66268419 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
66268466 TAAG
1 TAAG
66268470 TCCCGAAGGG
Statistics
Matches: 388, Mismatches: 23, Indels: 34
0.87 0.05 0.08
Matches are distributed among these distances:
39 10 0.03
41 24 0.06
42 1 0.00
43 1 0.00
45 1 0.00
46 1 0.00
47 169 0.44
48 1 0.00
49 180 0.46
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:66268101 original size:47 final size:47
Alignment explanation
Indices: 66267994--66268469 Score: 685
Period size: 47 Copynumber: 10.1 Consensus size: 47
66267984 GAAATGATAG
66267994 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
66268043 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66268090 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
66268139 TAAGGCCTAATGACTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66268186 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
66268235 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
66268282 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
66268328 T---GAC--AGGGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
66268370 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
66268419 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66268466 TAAG
1 TAAG
66268470 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 28, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
41 33 0.09
42 1 0.00
43 2 0.01
45 2 0.01
46 1 0.00
47 182 0.47
49 166 0.43
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:66268158 original size:96 final size:96
Alignment explanation
Indices: 66267994--66268469 Score: 761
Period size: 96 Copynumber: 5.0 Consensus size: 96
66267984 GAAATGATAG
*
66267994 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
66268059 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
66268090 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
66268155 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
66268186 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
66268251 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* *
66268282 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTG--A----C--AGGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
*
66268339 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
66268370 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
* * *
66268435 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
66268466 TAAG
1 TAAG
66268470 TCCCGAAGGG
Statistics
Matches: 359, Mismatches: 13, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
88 84 0.23
90 2 0.01
94 2 0.01
96 271 0.75
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:66268350 original size:88 final size:88
Alignment explanation
Indices: 66268246--66268427 Score: 355
Period size: 88 Copynumber: 2.1 Consensus size: 88
66268236 AGGGCCTAAT
*
66268246 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
66268311 GGAAGTGTATATATATGTGACAG
66 GGAAGTGTATATATATGTGACAG
66268334 GGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
66268399 GGAAGTGTATATATATGTGACAG
66 GGAAGTGTATATATATGTGACAG
66268422 GGCCGA
1 GGCCGA
66268428 GTGGCCAACG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 93 1.00
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.28
Consensus pattern (88 bp):
GGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GGAAGTGTATATATATGTGACAG
Found at i:66270501 original size:16 final size:15
Alignment explanation
Indices: 66270480--66270513 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
66270470 AAAGTTGATA
66270480 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
66270496 ATAATTGATATAATT
1 ATAATTAATATAATT
66270511 ATA
1 ATA
66270514 TACTAATAAT
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:66276102 original size:25 final size:25
Alignment explanation
Indices: 66276072--66276213 Score: 122
Period size: 25 Copynumber: 5.7 Consensus size: 25
66276062 CCGATAATAC
*
66276072 GATTGGCACAAAGCCATCGATAACA
1 GATTGGCACAAAGCCATCAATAACA
* *
66276097 GATTGGCACATAGCCATCAATATCA
1 GATTGGCACAAAGCCATCAATAACA
* *
66276122 TATCGGCACAAAGCCATCAATAACA
1 GATTGGCACAAAGCCATCAATAACA
* * * * * *
66276147 TATCGACACGAAGCCTTCAATAGCA
1 GATTGGCACAAAGCCATCAATAACA
* * * *
66276172 TATCGGCACAAAGCCTTCAATAGCA
1 GATTGGCACAAAGCCATCAATAACA
* * *
66276197 TATCGACACAAAGCCAT
1 GATTGGCACAAAGCCAT
66276214 AATCAGAATA
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 102 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (25 bp):
GATTGGCACAAAGCCATCAATAACA
Found at i:66276167 original size:50 final size:49
Alignment explanation
Indices: 66276076--66276213 Score: 177
Period size: 50 Copynumber: 2.8 Consensus size: 49
66276066 TAATACGATT
* * * * *
66276076 GGCACAAAGCCATCGATAACAGATTGGCACATAGCCATCAATATCATATC
1 GGCACAAAGCCATCAATAACATATCGACACA-AGCCATCAATAGCATATC
*
66276126 GGCACAAAGCCATCAATAACATATCGACACGAAGCCTTCAATAGCATATC
1 GGCACAAAGCCATCAATAACATATCGACAC-AAGCCATCAATAGCATATC
* *
66276176 GGCACAAAGCCTTCAATAGCATATCGACACAAAGCCAT
1 GGCACAAAGCCATCAATAACATATCGACAC-AAGCCAT
66276214 AATCAGAATA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 76 0.99
51 1 0.01
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (49 bp):
GGCACAAAGCCATCAATAACATATCGACACAAGCCATCAATAGCATATC
Found at i:66276478 original size:26 final size:26
Alignment explanation
Indices: 66276449--66276559 Score: 80
Period size: 26 Copynumber: 4.3 Consensus size: 26
66276439 TTTACCTAAT
*
66276449 AGGGGTAAAAC-GTCATTTTACCCTAC
1 AGGGGTAAAACAGT-AATTTACCCTAC
***
66276475 AGGGGTATTTCAGTAATTTACCCTAC
1 AGGGGTAAAACAGTAATTTACCCTAC
*** *
66276501 AGGGGTATTTCGGTAATTTACCCTAC
1 AGGGGTAAAACAGTAATTTACCCTAC
* *** *
66276527 AAGGGTATTTCGGTAATTTACCCTAC
1 AGGGGTAAAACAGTAATTTACCCTAC
*
66276553 AAGGGTA
1 AGGGGTA
66276560 TTTCGATAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (26 bp):
AGGGGTAAAACAGTAATTTACCCTAC
Found at i:66276505 original size:52 final size:52
Alignment explanation
Indices: 66276449--66276559 Score: 143
Period size: 52 Copynumber: 2.1 Consensus size: 52
66276439 TTTACCTAAT
* *
66276449 AGGGGTAAAAC-GTCATTTTACCCTACAGGGGTATTTCAGTAATTTACCCTAC
1 AGGGGTAAAACGGT-AATTTACCCTACAAGGGTATTTCAGTAATTTACCCTAC
*** *
66276501 AGGGGTATTTCGGTAATTTACCCTACAAGGGTATTTCGGTAATTTACCCTAC
1 AGGGGTAAAACGGTAATTTACCCTACAAGGGTATTTCAGTAATTTACCCTAC
*
66276553 AAGGGTA
1 AGGGGTA
66276560 TTTCGATAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 49 0.96
53 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (52 bp):
AGGGGTAAAACGGTAATTTACCCTACAAGGGTATTTCAGTAATTTACCCTAC
Found at i:66276560 original size:26 final size:26
Alignment explanation
Indices: 66276465--66276571 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
66276455 AAAACGTCAT
* *
66276465 TTTACCCTACAGGGGTATTTCAGTAA
1 TTTACCCTACAAGGGTATTTCGGTAA
*
66276491 TTTACCCTACAGGGGTATTTCGGTAA
1 TTTACCCTACAAGGGTATTTCGGTAA
66276517 TTTACCCTACAAGGGTATTTCGGTAA
1 TTTACCCTACAAGGGTATTTCGGTAA
*
66276543 TTTACCCTACAAGGGTATTTCGATAA
1 TTTACCCTACAAGGGTATTTCGGTAA
66276569 TTT
1 TTT
66276572 TACAAACTAG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (26 bp):
TTTACCCTACAAGGGTATTTCGGTAA
Found at i:66276583 original size:26 final size:26
Alignment explanation
Indices: 66276503--66276601 Score: 85
Period size: 26 Copynumber: 3.8 Consensus size: 26
66276493 TACCCTACAG
* **
66276503 GGGTATTTCGGTAA-TTTACCCTACAA
1 GGGTATTTCGATAATTTTA-CAAACAA
* **
66276529 GGGTATTTCGGTAA-TTTACCCTACAA
1 GGGTATTTCGATAATTTTA-CAAACAA
*
66276555 GGGTATTTCGATAATTTTACAAACTAG
1 GGGTATTTCGATAATTTTACAAAC-AA
*
66276582 GGGTATTTCTATAATTTTAC
1 GGGTATTTCGATAATTTTAC
66276602 TAATCGAGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 42 0.64
27 24 0.36
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (26 bp):
GGGTATTTCGATAATTTTACAAACAA
Found at i:66279540 original size:40 final size:40
Alignment explanation
Indices: 66279456--66279680 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
66279446 TTGAATGATG
* * * *
66279456 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
66279496 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66279536 TCCGGGCTAAG-CCCGAAGTCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66279575 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66279615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66279656 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66279681 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66279702 original size:119 final size:119
Alignment explanation
Indices: 66279456--66279713 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
66279446 TTGAATGATG
* *
66279456 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * ** *
66279521 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGTCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
66279575 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
66279638 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
66279695 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
66279714 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:66282864 original size:25 final size:25
Alignment explanation
Indices: 66282811--66283001 Score: 141
Period size: 25 Copynumber: 7.6 Consensus size: 25
66282801 CGATAATATG
** ** *
66282811 ATCGGCACAAAGCCATTGATAAAAA
1 ATCGGCACAAAGCCATCAATATCAT
* *
66282836 ATCGGTACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATATCAT
* * *
66282861 ATCGGTACAAAGCCATCGATAAT-AG
1 ATCGGCACAAAGCCATCAAT-ATCAT
* * *
66282886 ATCGACACATATCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATATCAT
* *
66282911 ATCAGCACAAAGCCATCAATAACAT
1 ATCGGCACAAAGCCATCAATATCAT
* * * * * * *
66282936 ACCAGCGCGAAGCCTTTAATAGCAT
1 ATCGGCACAAAGCCATCAATATCAT
* * *
66282961 ATCGGAACAAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATATCAT
66282986 ATCGGCACAAAGCCAT
1 ATCGGCACAAAGCCAT
66283002 AATCAGAATA
Statistics
Matches: 129, Mismatches: 35, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
24 2 0.02
25 125 0.97
26 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.20
Consensus pattern (25 bp):
ATCGGCACAAAGCCATCAATATCAT
Found at i:66282871 original size:50 final size:50
Alignment explanation
Indices: 66282811--66282932 Score: 163
Period size: 50 Copynumber: 2.4 Consensus size: 50
66282801 CGATAATATG
* **
66282811 ATCGGCACAAAGCCATTGATAAAAAATCGGTACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAAAAAATCGACACATAGCCATCAATATCAT
* * * *
66282861 ATCGGTACAAAGCCATCGATAATAGATCGACACATATCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAAAAAATCGACACATAGCCATCAATATCAT
* *
66282911 ATCAGCACAAAGCCATCAATAA
1 ATCGGCACAAAGCCATCGATAA
66282933 CATACCAGCG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCGATAAAAAATCGACACATAGCCATCAATATCAT
Found at i:66283294 original size:51 final size:52
Alignment explanation
Indices: 66283237--66283346 Score: 134
Period size: 51 Copynumber: 2.1 Consensus size: 52
66283227 TTTACCTAAT
* *
66283237 AGGGGTAAAACG-TCAGTTTACCCTATAGGGGTA-TTCAGTAATTTACCCTAC
1 AGGGGTAAAACGAT-AATTTACCCTATAGGGGTATTTCAGTAACTTACCCTAC
****
66283288 AGGGGTATTTTGATAATTTACCCTATAGGGGTATTTCAGTAACTTACCCTAC
1 AGGGGTAAAACGATAATTTACCCTATAGGGGTATTTCAGTAACTTACCCTAC
*
66283340 AAGGGTA
1 AGGGGTA
66283347 TTTTTGTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 26 0.52
52 24 0.48
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (52 bp):
AGGGGTAAAACGATAATTTACCCTATAGGGGTATTTCAGTAACTTACCCTAC
Found at i:66283311 original size:26 final size:25
Alignment explanation
Indices: 66283253--66283360 Score: 126
Period size: 26 Copynumber: 4.2 Consensus size: 25
66283243 AAAACGTCAG
* **
66283253 TTTACCCTATAGGGGTATTCAGTAA
1 TTTACCCTACAGGGGTATTTTGTAA
66283278 TTTACCCTACAGGGGTATTTTGATAA
1 TTTACCCTACAGGGGTATTTTG-TAA
* *
66283304 TTTACCCTATAGGGGTATTTCAGTAA
1 TTTACCCTACAGGGGTATTT-TGTAA
* *
66283330 CTTACCCTACAAGGGTATTTTTGTAA
1 TTTACCCTACAGGGGTA-TTTTGTAA
66283356 TTTAC
1 TTTAC
66283361 AAATCGAAGG
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
25 19 0.27
26 47 0.67
27 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (25 bp):
TTTACCCTACAGGGGTATTTTGTAA
Found at i:66283346 original size:52 final size:51
Alignment explanation
Indices: 66283253--66283360 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 51
66283243 AAAACGTCAG
* *
66283253 TTTACCCTATAGGGGTATTCAGTAATTTACCCTACAGGGGTA-TTTTGATAA
1 TTTACCCTATAGGGGTATTCAGTAACTTACCCTACAAGGGTATTTTTG-TAA
66283304 TTTACCCTATAGGGGTATTTCAGTAACTTACCCTACAAGGGTATTTTTGTAA
1 TTTACCCTATAGGGGTA-TTCAGTAACTTACCCTACAAGGGTATTTTTGTAA
66283356 TTTAC
1 TTTAC
66283361 AAATCGAAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
51 17 0.32
52 31 0.58
53 5 0.09
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (51 bp):
TTTACCCTATAGGGGTATTCAGTAACTTACCCTACAAGGGTATTTTTGTAA
Found at i:66283373 original size:52 final size:52
Alignment explanation
Indices: 66283261--66283376 Score: 130
Period size: 52 Copynumber: 2.2 Consensus size: 52
66283251 AGTTTACCCT
* * * **
66283261 ATAGGGGTA-TTCAGTAATTTACCCTACAGGGGTATTTTGATAATTTACCCT
1 ATAGAGGTATTTCAGTAACTTACCCTACAAGGGTATTTTGATAATTTACCAA
*
66283312 ATAGGGGTATTTCAGTAACTTACCCTACAAGGGTATTTTTG-TAATTTA-CAA
1 ATAGAGGTATTTCAGTAACTTACCCTACAAGGGTA-TTTTGATAATTTACCAA
*
66283363 ATCGAAGGTATTTC
1 ATAG-AGGTATTTC
66283377 GATAATTCTA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 13 0.23
52 38 0.68
53 5 0.09
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (52 bp):
ATAGAGGTATTTCAGTAACTTACCCTACAAGGGTATTTTGATAATTTACCAA
Found at i:66284089 original size:23 final size:23
Alignment explanation
Indices: 66284063--66284110 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
66284053 AGTTCTCATG
* *
66284063 TTAGCTTCTCGATGTGGGATTAC
1 TTAGCTTCCCGATATGGGATTAC
66284086 TTAGCTTCCCGATATGGGATTAC
1 TTAGCTTCCCGATATGGGATTAC
66284109 TT
1 TT
66284111 TCAACCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (23 bp):
TTAGCTTCCCGATATGGGATTAC
Found at i:66297105 original size:27 final size:28
Alignment explanation
Indices: 66297074--66297131 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
66297064 TTTTTACACA
66297074 TTTCATGTTGTTA-GAAAGCTTCATTCT
1 TTTCATGTTGTTAGGAAAGCTTCATTCT
66297101 TTTCATGTTGTTAGGAAAGCTTCATTCT
1 TTTCATGTTGTTAGGAAAGCTTCATTCT
66297129 TTT
1 TTT
66297132 ACACATGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.50
Consensus pattern (28 bp):
TTTCATGTTGTTAGGAAAGCTTCATTCT
Found at i:66300554 original size:13 final size:13
Alignment explanation
Indices: 66300533--66300572 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
66300523 AAAGTAATCA
66300533 CACACGGGCGTGT
1 CACACGGGCGTGT
*
66300546 CACATGGGCGTGT
1 CACACGGGCGTGT
66300559 CACACGGGCGTGT
1 CACACGGGCGTGT
66300572 C
1 C
66300573 CCTGCCGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:66307106 original size:15 final size:17
Alignment explanation
Indices: 66307076--66307107 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
66307066 TTGATACCTG
66307076 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
66307093 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
66307108 AATTATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:66312265 original size:11 final size:11
Alignment explanation
Indices: 66312249--66312275 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
66312239 ATGGTAAACT
66312249 AATTATAATTA
1 AATTATAATTA
66312260 AATTATAATTA
1 AATTATAATTA
66312271 AATTA
1 AATTA
66312276 AAGGCATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTATAATTA
Found at i:66313073 original size:30 final size:29
Alignment explanation
Indices: 66313039--66313099 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
66313029 ATGATTCGGA
66313039 AGCTTTGGCACTAAGTGTG-TGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCT-ATTT-AACT
66313069 AGCTTTGGCACTAAGTGTGCTATTTAACT
1 AGCTTTGGCACTAAGTGTGCTATTTAACT
66313098 AG
1 AG
66313100 ATTCGGCTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 6 0.20
30 23 0.77
31 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCTATTTAACT
Found at i:66323755 original size:16 final size:16
Alignment explanation
Indices: 66323736--66323766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66323726 CTTCTTCACT
66323736 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
66323752 TACTTACTTACTTAA
1 TACTCACTTACTTAA
66323767 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:66323772 original size:20 final size:20
Alignment explanation
Indices: 66323733--66323772 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
66323723 AAACTTCTTC
* *
66323733 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
66323753 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
66323773 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:66343080 original size:27 final size:27
Alignment explanation
Indices: 66343046--66343176 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
66343036 GCGTGTGCAA
* *
66343046 TTGTAAAATTATTGAAATACCCCCAAT
1 TTGTAAAATTATCGAAATACCCCCAGT
* * *
66343073 TTATAAAATTATCAAAATACCCTCAGT
1 TTGTAAAATTATCGAAATACCCCCAGT
* *
66343100 TTGTAAAATTATCGAAATACCTCTAGT
1 TTGTAAAATTATCGAAATACCCCCAGT
*
66343127 TTGTAAAATTATTGAAATACCCCCAGT
1 TTGTAAAATTATCGAAATACCCCCAGT
66343154 TTGTAAAATTATCGAAATACCCC
1 TTGTAAAATTATCGAAATACCCC
66343177 TATAGGGTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTATCGAAATACCCCCAGT
Found at i:66343592 original size:22 final size:22
Alignment explanation
Indices: 66343544--66343603 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
66343534 TTAATCTGAT
66343544 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * * *
66343566 AATGGCTCTGTGCCATCTTTAC
1 TATGGCTCTGTGCCAACCTAAA
*
66343588 TATGGCTTTGTGCCAA
1 TATGGCTCTGTGCCAA
66343604 ACATATTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Found at i:66344767 original size:48 final size:48
Alignment explanation
Indices: 66344694--66344790 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
66344684 CTGACTGAGG
* *
66344694 TTGAAATTCTGCCTGATATGGCTTATGATGAAGAACTGATATAGATTT
1 TTGAAATTCAGCCTGATATGGCTTATGATGAAGAACCGATATAGATTT
*
66344742 TTGAAATTCAGCCTGATATGTCTTATGATGAAGAACCGATATAGATTT
1 TTGAAATTCAGCCTGATATGGCTTATGATGAAGAACCGATATAGATTT
66344790 T
1 T
66344791 AGCTCATGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (48 bp):
TTGAAATTCAGCCTGATATGGCTTATGATGAAGAACCGATATAGATTT
Found at i:66346222 original size:41 final size:41
Alignment explanation
Indices: 66346119--66346253 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
66346109 ACGTTTTGAG
* ** *
66346119 ATAGCTTCGGCAATATTTGACACTTAGTGTGCGA-CTTGGA
1 ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGCTTGGA
* *
66346159 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGGTT-GA
1 ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGCTTGGA
* ** * **
66346199 GATAGCTTTGGCTATGA-AAGGCACTTACAGTGCGAGATTATA
1 -ATAGCTTCGGCTAT-ATAAGGCACTTAGTGTGCGAGCTTGGA
66346241 ATAGCTTCGGCTA
1 ATAGCTTCGGCTA
66346254 AGCTTTAGCA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 33 0.41
41 45 0.56
42 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (41 bp):
ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGCTTGGA
Found at i:66347645 original size:54 final size:54
Alignment explanation
Indices: 66347558--66347731 Score: 190
Period size: 54 Copynumber: 3.2 Consensus size: 54
66347548 ATAGGCAAAT
* * * **
66347558 CAGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTACAAGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTA
* * * *
66347612 CAGTTATTTTACCCTACAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTA
** * * *
66347666 TGGTCATTTTACCCTA-TGGCGGTATTTCGCTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTACAGG-GGTATTTCGGTCATTTTACCCTATGAGGGTATTA
66347720 C-GATCATTTTAC
1 CAG-TCATTTTAC
66347732 ATTATGGGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.03
54 98 0.97
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (54 bp):
CAGTCATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTA
Found at i:66347737 original size:27 final size:26
Alignment explanation
Indices: 66347560--66347731 Score: 164
Period size: 27 Copynumber: 6.4 Consensus size: 26
66347550 AGGCAAATCA
* * * *
66347560 GTCATTTTACCTTACAGGGGTATTACA
1 GTCATTTTACCCTA-TGGGGTATTTCG
** * *
66347587 GTCATTTTACCCTACAAGGGTATTACA
1 GTCATTTTACCCTA-TGGGGTATTTCG
* * *
66347614 GTTATTTTACCCTACAGGGGTATTTTG
1 GTCATTTTACCCTA-TGGGGTATTTCG
*
66347641 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
66347668 GTCATTTTACCCTATGGCGGTATTTCG
1 GTCATTTTACCCTATGG-GGTATTTCG
*
66347695 CTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
66347722 ATCATTTTAC
1 GTCATTTTAC
66347732 ATTATGGGAT
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 2 0.02
27 127 0.98
28 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:66350682 original size:15 final size:14
Alignment explanation
Indices: 66350644--66350684 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
66350634 AATTATCATT
*
66350644 TAATTGTGATTTTA
1 TAATTGTGATATTA
66350658 TAATTGTGATATTA
1 TAATTGTGATATTA
*
66350672 TGATCTGTGATAT
1 TAAT-TGTGATAT
66350685 ATGCATGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.51
Consensus pattern (14 bp):
TAATTGTGATATTA
Found at i:66352843 original size:47 final size:47
Alignment explanation
Indices: 66352758--66352876 Score: 148
Period size: 47 Copynumber: 2.5 Consensus size: 47
66352748 CTTCGGGACT
* * * * * *
66352758 TATCACATTTATACACATTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * * *
66352805 TGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
66352852 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
66352877 ACCAACCCTT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:66353138 original size:40 final size:39
Alignment explanation
Indices: 66353101--66353192 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
66353091 GCTACTCGTT
*
66353101 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
66353141 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
66353180 CAAATGCCTTCGG
1 CAAATGCCTTCGG
66353193 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:66353172 original size:39 final size:40
Alignment explanation
Indices: 66353082--66353242 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 40
66353072 CGGAATTTAA
** *
66353082 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
66353122 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66353161 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
66353201 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66353241 CC
1 CC
66353243 AGACATCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66357737 original size:3 final size:3
Alignment explanation
Indices: 66357731--66357809 Score: 54
Period size: 3 Copynumber: 26.3 Consensus size: 3
66357721 ACACAAAAAA
* * * * *
66357731 AAT AAT ACT AA- ATT AAT CAT AAT AAT AAT AAT AAT AGT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
66357778 AAT AAC AGT AAT AGA- ATT AATT AAT AAT AAT A
1 AAT AAT AAT AAT A-AT AAT AA-T AAT AAT AAT A
66357810 TTAAAATTAA
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
2 1 0.02
3 51 0.91
4 4 0.07
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:66357775 original size:18 final size:18
Alignment explanation
Indices: 66357754--66357788 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
66357744 TAATCATAAT
*
66357754 AATAATAATAATAGTAAC
1 AATAATAATAACAGTAAC
66357772 AATAATAATAACAGTAA
1 AATAATAATAACAGTAA
66357789 TAGAATTAAT
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:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AATAATAATAACAGTAAC
Found at i:66360854 original size:40 final size:40
Alignment explanation
Indices: 66360809--66361435 Score: 1040
Period size: 40 Copynumber: 15.6 Consensus size: 40
66360799 CAAGCTCAAT
* * * * *
66360809 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
66360849 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
66360889 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
66360929 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
66360969 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
66361009 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
66361049 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
66361089 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
66361129 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
66361169 TGCCTTCGGGTCTTATCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
66361209 TGCCTTCGGGTCTTAGCCCGGATATATGATATATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCA-AT-TCGCACAAA
* *
66361251 TGCCTTCTGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
66361291 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
66361331 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
66361371 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
66361411 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
66361436 CATTCAAATG
Statistics
Matches: 552, Mismatches: 31, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 510 0.92
41 5 0.01
42 35 0.06
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:66365339 original size:88 final size:88
Alignment explanation
Indices: 66365212--66365515 Score: 423
Period size: 88 Copynumber: 3.5 Consensus size: 88
66365202 GCTATATTGC
* *
66365212 AACTTC-AGAGAGATAAGGATT-GTGGCTTCAATCTACTCCAATGTAATTTCAGGGAGAAGAGAT
1 AACTTCAAG-GAGATAAGG-TTGGTGGCTTCAATCTGCTCCAATGTAATTTTAGGGAGAAGAGAT
*
66365275 TTGTAGCTTCGATCTACTCCGCTGG
64 TTATAGCTTCGATCTACTCCGCTGG
* * *
66365300 AACTTCAAGGAGATAAGGTTGGTGGCTTTAATCCGCTCCAATATAATTTTAGGGAGAAGAGATTT
1 AACTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTT
* *
66365365 ATAGCTTTGATCTACTCCACTGG
66 ATAGCTTCGATCTACTCCGCTGG
* * * *
66365388 AACTTCAAGGAGATAAGATTGGTGGCTTCAATCTGCCCCAATGTAATTTTAGGGATAATAGATTT
1 AACTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTT
* * *
66365453 TTAGCTTCGATCTACTTCGCTAG
66 ATAGCTTCGATCTACTCCGCTGG
* *
66365476 AACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCA
1 AACTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCA
66365516 CTGCAACTTC
Statistics
Matches: 190, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
87 2 0.01
88 186 0.98
89 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (88 bp):
AACTTCAAGGAGATAAGGTTGGTGGCTTCAATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTT
ATAGCTTCGATCTACTCCGCTGG
Found at i:66365524 original size:44 final size:44
Alignment explanation
Indices: 66365092--66365681 Score: 205
Period size: 44 Copynumber: 13.1 Consensus size: 44
66365082 CAGGGAAAAG
* ** **
66365092 AGATTTGTAGCTTCAATCTACTCTGCTAAAACTTCAAGGAGATA
1 AGATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGGAGATA
* * *
66365136 AGA-AT-TGGCAATTTCAACCTACTCCACTGTAACTTCAGGGAGATA
1 AGATTTGTGGC---TTCAATCTACTCCACTGTAACTTCAAGGAGATA
* * ** ** * ** * *
66365181 TGGTTTGTGTATTTTTATCCTGCTATATTGCAACTTC-AGAGAGATA
1 AGATTTGTG-GCTTCAAT-CTACTCCACTGTAACTTCAAG-GAGATA
* * *
66365227 AGGA-TTGTGGCTTCAATCTACTCCAATGTAATTTCAGGGAGA-A
1 A-GATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGGAGATA
* * * *
66365270 GAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATA
1 -AGATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGGAGATA
* * * ** * * * * *
66365315 AGGTTGGTGGCTTTAATCCGCTCCAATATAATTTTAGGGAGA-A
1 AGATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGGAGATA
* * ** *
66365358 GAGATTTATAGCTTTGATCTACTCCACTGGAACTTCAAGGAGATA
1 -AGATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGGAGATA
* * * * **
66365403 AGATTGGTGGCTTCAATCTGCCCCAATGTAA-TTTTAGG-GATAA
1 AGATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGGAGAT-A
* * * * *
66365446 TAGATTTTTAGCTTCGATCTACTTCGCTAG-AACTTCAAGGAGATA
1 -AGATTTGTGGCTTCAATCTACTCCACT-GTAACTTCAAGGAGATA
** * *
66365491 AGGCTGGTGGCTTCAATCTACTCCACTGCAACTTC-AGGAAGATA
1 AGATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGG-AGATA
* * * ** ** *
66365535 AGATTCGCCATAGTTTATAGCTTTAATATGTTCCACTACAACGTCAAGGA-AGTA
1 AGATT-----T-G----TGGCTTCAATCTACTCCACTGTAACTTCAAGGAGA-TA
* * * * *
66365589 AGATTCGCTGTCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATA
1 AGATTTG-TGGCTTCAATCTACTCCACTGTAACTTCAAGGAGATA
* * * *
66365634 AGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTC-AGGAAGATA
1 AGATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGG-AGATA
66365678 AGAT
1 AGAT
66365682 CCGCCATAAT
Statistics
Matches: 382, Mismatches: 128, Indels: 72
0.66 0.22 0.12
Matches are distributed among these distances:
42 6 0.02
43 17 0.04
44 216 0.57
45 76 0.20
46 29 0.08
47 3 0.01
48 1 0.00
50 1 0.00
53 1 0.00
54 29 0.08
55 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
AGATTTGTGGCTTCAATCTACTCCACTGTAACTTCAAGGAGATA
Found at i:66365734 original size:143 final size:143
Alignment explanation
Indices: 66365457--66365778 Score: 432
Period size: 143 Copynumber: 2.3 Consensus size: 143
66365447 AGATTTTTAG
* * * *
66365457 CTTCGATCTACTTCGCTAGAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAA
1 CTTCGATCTGCTCCACTACAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAA
* * * * *
66365522 CTTCAGGAAGATAAGATTCGCCATAGTTTATAGCTTTAATATGTTCCACTACAACGTCAAGGAAG
66 CTTCAGGAAGATAAGATCCGCCATAATTCATAGCTTCAATATGTTCCACTACAACGTCAAGGAAA
*
66365587 TAAGATTCGCTGT
131 TAAGATTCACTGT
** * * *
66365600 CTTC-AGTCTGCTCCACTGTAACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCA
1 CTTCGA-TCTGCTCCACTACAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCA
* * *
66365664 ACTTCAGGAAGATAAGATCCGCCATAATTCGTAGCTTCAATCTGTTCCACTGCAAC-TCCAAGGA
65 ACTTCAGGAAGATAAGATCCGCCATAATTCATAGCTTCAATATGTTCCACTACAACGT-CAAGGA
*
66365728 AATAAGATTCACTTT
129 AATAAGATTCACTGT
*
66365743 CTTCGATCTGCTCCACTACAACTTCAAGAAGATAAG
1 CTTCGATCTGCTCCACTACAACTTCAAGGAGATAAG
66365779 ATCTATAACT
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
142 2 0.01
143 151 0.98
144 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (143 bp):
CTTCGATCTGCTCCACTACAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAA
CTTCAGGAAGATAAGATCCGCCATAATTCATAGCTTCAATATGTTCCACTACAACGTCAAGGAAA
TAAGATTCACTGT
Found at i:66365791 original size:143 final size:143
Alignment explanation
Indices: 66365501--66365824 Score: 384
Period size: 143 Copynumber: 2.3 Consensus size: 143
66365491 AGGCTGGTGG
* * * * *
66365501 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAGTTTATAGCTTTAATATGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTCATAGCTTCAATATGT
* * ** * *
66365566 TCCACTACAACGTCAAGGAAGTAAGATTCGCTGTCTTCAGTCTGCTCCACTGTAACTTCAGGGAG
66 TCCACTACAACGTCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCCACTACAACTTCAAGAAG
* * **
66365631 ATAAGGTTGGTGG
131 ATAAGATTGATAA
* *
66365644 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTCGTAGCTTCAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTCATAGCTTCAATATGT
* *
66365709 TCCACTGCAAC-TCCAAGGAAATAAGATTCACTTTCTTC-GATCTGCTCCACTACAACTTCAAGA
66 TCCACTACAACGT-CAAGGAAATAAGATTCACTGTCTTCAG-TCTGCTCCACTACAACTTCAAGA
66365772 AGATAAGATCT-ATAA
129 AGATAAGAT-TGATAA
* * * * *
66365787 CTTCAATATGCTCCACTACTACTTCAGGGAGATGAGAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
66365825 TTATGACTTC
Statistics
Matches: 154, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
142 2 0.01
143 151 0.98
144 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (143 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTCATAGCTTCAATATGT
TCCACTACAACGTCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCCACTACAACTTCAAGAAG
ATAAGATTGATAA
Found at i:66365857 original size:44 final size:44
Alignment explanation
Indices: 66365698--66365870 Score: 159
Period size: 44 Copynumber: 3.9 Consensus size: 44
66365688 TAATTCGTAG
* * * * * **
66365698 CTTCAATCTGTTCCACTGCAACTCCAAGGAAATAAGATTCACTTT
1 CTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTA-TAA
* * *
66365743 CTTCGATCTGCTCCACTACAACTTCAAGAAGATAAGATCTATAA
1 CTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTATAA
* * * * *
66365787 CTTCAATATGCTCCACTACTACTTCAGGGAGATGAGATTTATGA
1 CTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTATAA
* * *
66365831 CTTCAATCTGCTCCACTGCTACTTC-AGAGAGATGAGATTT
1 CTTCAATCTGCTCCACTACAACTTCAAG-GAGATAAGATTT
66365871 GTGGATTCAC
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
43 1 0.01
44 72 0.68
45 33 0.31
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTATAA
Found at i:66367607 original size:93 final size:93
Alignment explanation
Indices: 66367448--66367620 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
66367438 CGCCCATAAG
* *
66367448 CGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66367513 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
66367541 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
66367605 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
66367621 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:66367609 original size:46 final size:46
Alignment explanation
Indices: 66367441--66367616 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
66367431 TGTAACCCGC
* * *
66367441 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
66367487 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
66367537 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
66367580 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
66367617 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 59 0.56
47 29 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:66369049 original size:46 final size:44
Alignment explanation
Indices: 66368999--66369180 Score: 148
Period size: 46 Copynumber: 4.2 Consensus size: 44
66368989 TTTTGTGGTT
*
66368999 TCTTCCATCTATCCCACTGCAACTCAGGGGTATAGGATTTGTACC
1 TCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTGTA-C
* * * *
66369044 ATCTTCAATCAATCCCATTGCAGCTCAGGGGTATAAGATTTG---
1 -TCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTGTAC
* * **
66369086 ---T--ATCT-TCCCACTGCAATTCAGGGGTATAGAATCCGTATC
1 TCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTGTA-C
* *
66369125 TTCTTCAATCCATCCCACTGCAACTCAGGGGTATAGGGTTTGTAGC
1 -TCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTGTA-C
66369171 TTCTTCAATC
1 -TCTTCAATC
66369181 AATTTGATAT
Statistics
Matches: 105, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
35 23 0.22
36 3 0.03
38 1 0.01
43 1 0.01
45 3 0.03
46 74 0.70
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (44 bp):
TCTTCAATCTATCCCACTGCAACTCAGGGGTATAGGATTTGTAC
Found at i:66369152 original size:81 final size:81
Alignment explanation
Indices: 66369005--66369173 Score: 221
Period size: 81 Copynumber: 2.1 Consensus size: 81
66368995 GGTTTCTTCC
* ** * *
66369005 ATCTATCCCACTGCAACTCAGGGGTATAGGATTTGTACCATCTTCAATCAATCCCATTGCAGCTC
1 ATCT-TCCCACTGCAACTCAGGGGTATAGAATCCGTACCATCTTCAATCAATCCCACTGCAACTC
66369070 AGGGGTATAAGATTTGT
65 AGGGGTATAAGATTTGT
* * * *
66369087 ATCTTCCCACTGCAATTCAGGGGTATAGAATCCGTATCTTCTTCAATCCATCCCACTGCAACTCA
1 ATCTTCCCACTGCAACTCAGGGGTATAGAATCCGTACCATCTTCAATCAATCCCACTGCAACTCA
* *
66369152 GGGGTATAGGGTTTGT
66 GGGGTATAAGATTTGT
*
66369168 AGCTTC
1 ATCTTC
66369174 TTCAATCAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 71 0.95
82 4 0.05
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (81 bp):
ATCTTCCCACTGCAACTCAGGGGTATAGAATCCGTACCATCTTCAATCAATCCCACTGCAACTCA
GGGGTATAAGATTTGT
Found at i:66370016 original size:17 final size:18
Alignment explanation
Indices: 66369994--66370027 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66369984 GGCCTCTCCT
*
66369994 TTTTCT-TTTCTTTTTTC
1 TTTTCTCTTCCTTTTTTC
66370011 TTTTCTCTTCCTTTTTT
1 TTTTCTCTTCCTTTTTT
66370028 TTGGGGGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTCTTCCTTTTTTC
Found at i:66370579 original size:22 final size:22
Alignment explanation
Indices: 66370554--66370596 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
66370544 TCCCACAATC
*
66370554 TTTTTGTGTTTTTTTATTTTTA
1 TTTTTGTGTTTTTATATTTTTA
*
66370576 TTTTTTTGTTTTTATATTTTT
1 TTTTTGTGTTTTTATATTTTT
66370597 TTGTTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (22 bp):
TTTTTGTGTTTTTATATTTTTA
Found at i:66370581 original size:16 final size:15
Alignment explanation
Indices: 66370562--66370612 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
66370552 TCTTTTTGTG
*
66370562 TTTTTTTATTTTTAT
1 TTTTTTTTTTTTTAT
*
66370577 TTTTTTGTTTTTATAT
1 TTTTTT-TTTTTTTAT
* *
66370593 TTTTTTGTTTTTTCT
1 TTTTTTTTTTTTTAT
66370608 TTTTT
1 TTTTT
66370613 GGCTGCCTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.08, C:0.02, G:0.04, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTTAT
Found at i:66370603 original size:22 final size:22
Alignment explanation
Indices: 66370568--66370611 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
66370558 TGTGTTTTTT
66370568 TATTTTTATTTTTTTGTTTTTA
1 TATTTTTATTTTTTTGTTTTTA
* *
66370590 TATTTTTTTGTTTTTTCTTTTT
1 TATTTTTAT-TTTTTTGTTTTT
66370612 TGGCTGCCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (22 bp):
TATTTTTATTTTTTTGTTTTTA
Found at i:66370610 original size:14 final size:14
Alignment explanation
Indices: 66370562--66370613 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
66370552 TCTTTTTGTG
*
66370562 TTTTTTTATTTTTA
1 TTTTTTTGTTTTTA
66370576 TTTTTTTGTTTTTATA
1 TTTTTTTG-TTTT-TA
66370592 TTTTTTTGTTTTT-
1 TTTTTTTGTTTTTA
66370605 TCTTTTTTG
1 T-TTTTTTG
66370614 GCTGCCTCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
13 1 0.03
14 15 0.44
15 8 0.24
16 10 0.29
ACGTcount: A:0.08, C:0.02, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTTTTGTTTTTA
Found at i:66375455 original size:3 final size:3
Alignment explanation
Indices: 66375447--66375503 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
66375437 TTAATGATAC
* * *
66375447 AAT AAT AAT AAT AAT AGT AGT AAC AAT AAT AAT AAT AAT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
66375493 AAT AAT AAT AA
1 AAT AAT AAT AA
66375504 AATTAATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:66375514 original size:16 final size:18
Alignment explanation
Indices: 66375475--66375514 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
66375465 AGTAACAATA
66375475 ATAATAATAATAATTAAT
1 ATAATAATAATAATTAAT
66375493 AATAATAATAA-AATTAAT
1 -ATAATAATAATAATTAAT
66375511 -TAAT
1 ATAAT
66375515 TTAATGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
18 7 0.33
19 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATAATAATAATTAAT
Found at i:66378926 original size:14 final size:14
Alignment explanation
Indices: 66378907--66378934 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66378897 AATAAAAGGC
66378907 AAAGATTATAAATA
1 AAAGATTATAAATA
66378921 AAAGATTATAAATA
1 AAAGATTATAAATA
66378935 TTATACATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAGATTATAAATA
Found at i:66391607 original size:20 final size:20
Alignment explanation
Indices: 66391582--66391622 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
66391572 TGGGCTGAGG
66391582 ACACGGGCGTGTCCCATGCC
1 ACACGGGCGTGTCCCATGCC
*
66391602 ACACGGGTGTGTCCCATGCC
1 ACACGGGCGTGTCCCATGCC
66391622 A
1 A
66391623 TACGAGCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.37, G:0.29, T:0.17
Consensus pattern (20 bp):
ACACGGGCGTGTCCCATGCC
Found at i:66396147 original size:40 final size:40
Alignment explanation
Indices: 66396092--66396309 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
66396082 CGGATGATAA
* *
66396092 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66396132 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66396172 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66396212 CCGGGCTAAGTCCCAAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
66396252 CCGGGCTAAGTCCCGAAGGCATTTGAGCG-GGTAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
66396292 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66396310 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 18 0.11
40 147 0.89
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66398117 original size:24 final size:25
Alignment explanation
Indices: 66398058--66398127 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
66398048 GCGGACTCAC
*
66398058 CTCAGCTCGTATGAGCTTACCTATAT
1 CTCAGCTCGTAAGAGCTTA-CTATAT
* *
66398084 ATCAGCTCGTAAGAGCTTACTGT-T
1 CTCAGCTCGTAAGAGCTTACTATAT
*
66398108 CTCAGCTCGTCAGAGCTTAC
1 CTCAGCTCGTAAGAGCTTAC
66398128 AATTTCAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.49
25 3 0.08
26 17 0.44
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
CTCAGCTCGTAAGAGCTTACTATAT
Found at i:66400076 original size:29 final size:28
Alignment explanation
Indices: 66400031--66400104 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
66400021 GCCCCTTAAA
*
66400031 CCCAATCATATTCATATGGCCCATTAGG
1 CCCAATCACATTCATATGGCCCATTAGG
* * *
66400059 CCCAAATCACATTTATATGGCTCGTTAGG
1 CCC-AATCACATTCATATGGCCCATTAGG
*
66400088 CCCAGTCACATTCATAT
1 CCCAATCACATTCATAT
66400105 TCATGCTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATTAGG
Found at i:66411533 original size:26 final size:26
Alignment explanation
Indices: 66411497--66411606 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
66411487 TGATACAAAT
66411497 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
66411523 TGATAATAGGTTAGGTAAATGTTCTA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
66411549 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
66411575 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
66411601 TGATAA
1 TGATAA
66411607 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:66415627 original size:714 final size:710
Alignment explanation
Indices: 66414258--66415769 Score: 2224
Period size: 714 Copynumber: 2.1 Consensus size: 710
66414248 GGGTGCTACA
* * * *
66414258 GTAGGAATAAGACAATGTGGTAGAATTGTCT-GTTGGTTATTAGCATGATTTTTTAAATGATTAT
1 GTAGGAATAAGACAATGTGGTAAAATTGT-TGGTTGATTATTATCATGATATTTTAAATGATTAT
* * * *
66414322 TTTGATTTTAATACTCTTAGGTTCGTGGAGGTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAAT
65 TTTGATTTTAATACTCTTAGGTTCCTAGACGTTGTTATTAGTTTATTGGTTTGCTTGGTTAAAAT
***
66414387 TATTGATATTGCTATGGAATTCTAATATGGACATTTTGATGTTTAATATTGAAATTATTGATATT
130 TATTGATATTGCTATGGAATGAGAATATGGACATTTTGATGTTTAATATTGAAATTATTGATATT
* * * * * *
66414452 GACGTGGTATGTGATTGAGTATGTGGAGTGCCCTATTTTTCTGGAATTTTTGCAGAATTATACGG
195 GAAGTGGTATGTGATTAAGTATGTAGAATGCCCTATTTTGCTGGAATTTTTGCAGAATTATACAG
** *
66414517 AGGTATCAGTAATCAGGGCATATGTATCAATACTTCTGAATTGAAACGTATGTGCAAGAAATAGT
260 AGGTATCAGTAATCAGGGCATATGTATCAATACTTCTGAATTGAAACAAATGTGCAAGAAACAGT
* * * * * *
66414582 TGCTCATTTTTCTATCGATATCAGTTCTCGAGTATCGATACTTAGGGTAAAAGTATAAATACTTT
325 TGCTCATTTTGCTATCGATACCAGTTCTCGAGTATCAACACTGAGGGTAAAAATATAAATACTTT
66414647 TGAATTGCATCGATAAATTGTTGGGTTTTGGATTTTGAAGAAGATCAGAATGGTAAAAAGGTTCC
390 TGAATTGCATCGATAAATTGTTGGGTTTTGGATTTTGAAGAAGATCAGAATGGTAAAAAGGTTCC
* ** *
66414712 AGTTTTCCAAACGGTATCGATACCCATTTTGAGAAATGTCGATTTCCATTTAGATGTTCTCATAT
455 AGTTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCGATACCCAATTAGATGTTCTCATAT
66414777 AATGTATGATATCATGTTTATTGGTAGTTTTTTCCTGATCATTCACTAAGCTTGTTTAAGCTCAC
520 AATGTATGATATCATGTTTATTGGTAGTTTTTTCCTGATCATTCACTAAGCTTGTTTAAGCTCAC
* ** *
66414842 ACACTCTTTTTTGAACCTTTGCAGATAGTTAGTGTTTTTAGTGTGGGCGGTGCAAAATTCCAAGG
585 ACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCAGTGTGGGCGGTGCAAAATTCCAAGA
* * *
66414907 AAGTGATCCAAGTTAGGCTTAGTGTTTAAGTATGTGATTTTATTGTTATTATTTTTGAACT
650 AAGTGATCCAAGTTAGGCTTAGTGTTTAAGAAGGTGATATTATTGTTATTATTTTTGAACT
* * *
66414968 GTAGGAATAAGACAATGTGGTAAAATTCTTGGTTGATTATTATCATGATAATTTAAATGATAATT
1 GTAGGAATAAGACAATGTGGTAAAATTGTTGGTTGATTATTATCATGATATTTTAAATGATTATT
*
66415033 TTGATTTTAATACTCTTAGGTTCCTAGACGTTGTTATTAGTTTATTGGTTTGGTTGGTTAAAATT
66 TTGATTTTAATACTCTTAGGTTCCTAGACGTTGTTATTAGTTTATTGGTTTGCTTGGTTAAAATT
* * *
66415098 ATTTATATTGCTATGGACTGAGAATATGGACATTTTGATGTTTAATATTGAAGTTATGGATGCAT
131 ATTGATATTGCTATGGAATGAGAATATGGACATTTTGATGTTTAATATTGAAATTAT---TG-AT
* * *
66415163 GTTGAAGTGGTATGTGATTAAGTATGTAGAATGCCCTATTTTGCTTGAATTTTTGCAGAATTATG
192 ATTGAAGTGGTATGTGATTAAGTATGTAGAATGCCCTATTTTGCTGGAATTTTTGCAGAATTATA
* * * *
66415228 CAGAGGTATC-GATAATCAGGGCATATGTATCGATACTTCTGAGTTGAAACAAATGTGTAGGAAA
257 CAGAGGTATCAG-TAATCAGGGCATATGTATCAATACTTCTGAATTGAAACAAATGTGCAAGAAA
* * *
66415292 CAGTTGCTCATTTTGGTATTGATACCAGTTCTCGAGTATCAACACTCGA-GGTAAAAATATAGAT
321 CAGTTGCTCATTTTGCTATCGATACCAGTTCTCGAGTATCAACACT-GAGGGTAAAAATATAAAT
* * * *
66415356 ACTTTTGAATTGTATTGATAAATTGTTGGGTTTTGGATTTTGAAGAAGATTAGAATGTTAAAAAG
385 ACTTTTGAATTGCATCGATAAATTGTTGGGTTTTGGATTTTGAAGAAGATCAGAATGGTAAAAAG
* * *
66415421 GTT-CTGATTTTCCAAACGGTATCGATCCCCATTTTGAGAAATATTGATACCCAATTAGATGTTC
450 GTTCCAG-TTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCGATACCCAATTAGATGTTC
* * * * *
66415485 TCATTTAATGTATGATATCATGTTTATTGTTAGTTTTTTCTTTATCATTCACTGAGCTTGTTTAA
514 TCATATAATGTATGATATCATGTTTATTGGTAGTTTTTTCCTGATCATTCACTAAGCTTGTTTAA
* **
66415550 GCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCGGTGTGGGCGGTGCGGAATT
579 GCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCAGTGTGGGCGGTGCAAAATT
* * * *
66415615 CCAAGAAAGTGATCCTAGTTGGGCTTAGTGTTTGAGAAGGTTATATTATTGTTATTATTTTTGAA
644 CCAAGAAAGTGATCCAAGTTAGGCTTAGTGTTTAAGAAGGTGATATTATTGTTATTATTTTTGAA
*
66415680 TT
709 CT
* *
66415682 GT-GCGAATATGACAATGTGGTAAAATTGTTGGTTGATTATTATCATGATGTTTTAAATGATTAT
1 GTAG-GAATAAGACAATGTGGTAAAATTGTTGGTTGATTATTATCATGATATTTTAAATGATTAT
66415746 TTTGATTTTAATACTCTTAGGTTC
65 TTTGATTTTAATACTCTTAGGTTC
66415770 ATGGATGTTG
Statistics
Matches: 714, Mismatches: 79, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
709 1 0.00
710 167 0.23
713 6 0.01
714 539 0.75
715 1 0.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (710 bp):
GTAGGAATAAGACAATGTGGTAAAATTGTTGGTTGATTATTATCATGATATTTTAAATGATTATT
TTGATTTTAATACTCTTAGGTTCCTAGACGTTGTTATTAGTTTATTGGTTTGCTTGGTTAAAATT
ATTGATATTGCTATGGAATGAGAATATGGACATTTTGATGTTTAATATTGAAATTATTGATATTG
AAGTGGTATGTGATTAAGTATGTAGAATGCCCTATTTTGCTGGAATTTTTGCAGAATTATACAGA
GGTATCAGTAATCAGGGCATATGTATCAATACTTCTGAATTGAAACAAATGTGCAAGAAACAGTT
GCTCATTTTGCTATCGATACCAGTTCTCGAGTATCAACACTGAGGGTAAAAATATAAATACTTTT
GAATTGCATCGATAAATTGTTGGGTTTTGGATTTTGAAGAAGATCAGAATGGTAAAAAGGTTCCA
GTTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCGATACCCAATTAGATGTTCTCATATA
ATGTATGATATCATGTTTATTGGTAGTTTTTTCCTGATCATTCACTAAGCTTGTTTAAGCTCACA
CACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCAGTGTGGGCGGTGCAAAATTCCAAGAA
AGTGATCCAAGTTAGGCTTAGTGTTTAAGAAGGTGATATTATTGTTATTATTTTTGAACT
Found at i:66417205 original size:15 final size:13
Alignment explanation
Indices: 66417171--66417200 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
66417161 ACCTGGAAGA
66417171 ATATGTGGCATCG
1 ATATGTGGCATCG
66417184 ATATGTGGCATCG
1 ATATGTGGCATCG
66417197 ATAT
1 ATAT
66417201 ATGTGTGCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (13 bp):
ATATGTGGCATCG
Found at i:66417383 original size:56 final size:56
Alignment explanation
Indices: 66417195--66417361 Score: 271
Period size: 56 Copynumber: 3.0 Consensus size: 56
66417185 TATGTGGCAT
*
66417195 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTC
1 CGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCAATATGTGATTC
*
66417251 CGATATACGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCAATATGTGATTC
1 CGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCAATATGTGATTC
* * * * *
66417307 TGATATATGCGTGTGAGTAAGTCCACGTTTCATACGTTGGCATCGATATGTGATT
1 CGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCAATATGTGATT
66417362 TTGATATGTG
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 103 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCAATATGTGATTC
Found at i:66417782 original size:24 final size:24
Alignment explanation
Indices: 66417754--66417802 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
66417744 TATGATGAAT
66417754 TATATTGATACAGGGGTTTAAGTA
1 TATATTGATACAGGGGTTTAAGTA
66417778 TATATTGATACAGGGGTTTAAGTA
1 TATATTGATACAGGGGTTTAAGTA
66417802 T
1 T
66417803 TCAAGTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (24 bp):
TATATTGATACAGGGGTTTAAGTA
Found at i:66420457 original size:26 final size:26
Alignment explanation
Indices: 66420403--66420506 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 26
66420393 GCGAGGCTGC
* * *
66420403 CAGAT-TTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
66420429 CAGATATTGTGGCAGAGCCACTAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
66420455 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
66420482 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
66420507 GACGCTTCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.19
27 53 0.78
28 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:66422157 original size:26 final size:26
Alignment explanation
Indices: 66422126--66422233 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
66422116 TGAAATGCCC
*
66422126 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
66422152 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
66422178 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
66422204 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66422230 ATCA
1 ATCA
66422234 GTTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:66424512 original size:686 final size:690
Alignment explanation
Indices: 66422644--66425390 Score: 2865
Period size: 713 Copynumber: 3.9 Consensus size: 690
66422634 GGTGTTACAT
* ** * *
66422644 GTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAATTTTTGGTATTGCCATGGACTT-CAAATATA
1 GTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTAATATTGCTATGGA-TTGCAAATATG
* * * ** *
66422708 GCCATTTTGATATTGAATATTGAAGTTATGGATGCATGTTGAAGTTTTACGTGATTGAGTATGTG
65 GACATTTTGATGTTGAATATTGAAGTTATGGATGCATATTGAAGTGGTATGTGATTGAGTATGTG
* * * * * * **
66422773 GAATGCCATGTTTTGCTGGAATTTTTGTAGAATTATATAGAGGTATTTATAATCAGGGCATACAT
130 GAATGCCCTGTTTTGCTTGAATTTTTGTAGAATTATACAAAGGTATTGATAATCAAGGCATATGT
* * * *
66422838 ATTGATACTTTTGAGTTGAAA-CAATTGTGCAAGAAACAATAGCTCT-TTGTT-GTATCGATACC
195 ATTGATACTTCTGAGTTGAAATGAA-TGTG-AGGAAACAATAGCT-TATT-TTGGTATTGATACC
* *
66422900 AATTCTCGAGTATCGATACTTC-GGGTAAAAATATAGATAATTTTGAATTGTATAGATAAATTG-
256 AATTCTCAAGTATCGATAC-TCAGGGTAAAAATATAGATAATTTTGAATTGTATCGATAAATTGC
* * * * *** * *
66422963 TCGGGTTTGGATTTTGAATAAAAGAAAATTTTTAAAAAGGTATCGATTTTCCAAACT-GTATCAA
320 TAGGTTTTAGATTTTGAAAAAAACTGAA-TGTTAAAAAGGTATTGATTTTCCAAA-TGGTATCAA
* ** * **
66423027 TACCTATTTTGAGAAATATTGATA-CCATTTAGATATTCTCAAGTAATGTATGATATCATGTTTA
383 TACCTATTTTAAGAAATATCAATACCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTA
* * *
66423091 TTGGTAGTTTTTTCTCGATCATTCACTGAGCTTGTTTAAAGCTTACACGCTCTTTTCTAAACCTT
448 TTGGTAATTTTTT-TCGATCATTCACTGAGCTTGTTT-AAGCTCACACACTC--TT-T-----TT
* * * *
66423156 TGCATATAGTTAGTGTTTCCAGTATGGGCAGTGTG-A-AATTCCAAGGAAGTGGTCCAAGTTAGG
503 T--AGATAG-CA----TT-C--TGTGGGC-G-GTGCAGAATTCCAAGGAAGTGATCCAAGTTAGG
* * * *
66423219 CTTTGTGTTTGAGTAGGTTATATTATTGCTATTATTTTTTAACTGTGGGAATGAGACAATGTGGT
556 CTTAGTGTTTGAGTAGGTGATATTATTGCTATTATTTTTGAACTG-GGGAATAAGACAATGTGGT
* *
66423284 AGAATTT-TTGGTTGGTTATTATCTTGATGTTTTAAATAATTATTTTGATTTTAATACTCTTAGG
620 AG-ATTTGTTGGTTGATTATTATCTTGATGTTTTAAATGATTATTTTGA--TTAATACTCTTAGG
*
66423348 TTCATGGAC
682 TTCCTGGAC
* * * * *
66423357 GTTGTTATTAGTTCATTGGTTTGCTTGGTTGAAATTTTTGATATTGCTATGGACTGCAAATATAG
1 GTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTAATATTGCTATGGATTGCAAATATGG
*
66423422 ACATTTTGATGTTGAATATTGAAGTTATGGATGCATATTGAAGTGGTATGTGATTGAGTTTGTGG
66 ACATTTTGATGTTGAATATTGAAGTTATGGATGCATATTGAAGTGGTATGTGATTGAGTATGTGG
* ** * * * *
66423487 AATTCTATGTTTTGCTGGAATTTTTGCATAATTATACAAAGGTATTGATAATCACGGCATATGTA
131 AATGCCCTGTTTTGCTTGAATTTTTGTAGAATTATACAAAGGTATTGATAATCAAGGCATATGTA
* * * * * *
66423552 TTGATACTTTTGAGTTAAAATGAATGTGCAGGAAATAGTAGCTCATTTTGGTATTGATACCAGTT
196 TTGATACTTCTGAGTTGAAATGAATGTG-AGGAAACAATAGCTTATTTTGGTATTGATACCAATT
* * * * * *
66423617 CTCAAGTATCGCTACTCGGGGTAAAAATATACATACTTTTGAATTGTATCGATAAATTGTTGGGT
260 CTCAAGTATCGATACTCAGGGTAAAAATATAGATAATTTTGAATTGTATCGATAAATTGCTAGGT
* * * * ** * *
66423682 TTTGGATTTTGAAGAAGATTAGAATGTTAAAAAGGT-TTCGATTTTTGAAACT-GCAT-TATACC
325 TTTAGATTTTGAAAAAAACT-GAATGTTAAAAAGGTATT-GATTTTCCAAA-TGGTATCAATACC
* ** * * * *
66423744 CATTTTGGGAAATATCGATTCCCATTTAGATGTTCTCATTTAATGTATGATATTATGTTTATCGG
387 TATTTTAAGAAATATCAATACCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGG
* * *
66423809 TAGTTTTTTCCCGATCATTCACTGAGCTTGTTTAAGCTCACAAACTCTTTTTT-GA-A-CA-T-T
452 TAATTTTTT-TCGATCATTCACTGAGCTTGTTTAAGCTCACACACTCTTTTTTAGATAGCATTCT
*
66423869 -TGGGCGGTG-AGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATTTT
516 GTGGGCGGTGCA-GAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATT
* *
66423932 ATTGCTATTATTTTTGAACTGGAGGAATAAGACAATATGGTAGATTTGTTGGTTGATTATTGT-T
580 ATTGCTATTATTTTTGAACTGG-GGAATAAGACAATGTGGTAGATTTGTTGGTTGATTATTATCT
* * * *
66423996 ATGATGTTTTAAATGATTATTTTGA-TATTACTCTTAAGTTCCTAGAG
644 -TGATGTTTTAAATGATTATTTTGATTAATACTCTTAGGTTCCTGGAC
*
66424043 GTTGTTATTAGTTTATTGTTTTGCTTGGTTGAAATTATTAATATTGCTATGGATTGCAAATATGG
1 GTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTAATATTGCTATGGATTGCAAATATGG
* * * * * **
66424108 AAATTTTGATGTTGATTATTGAAGTTATGGATGCATTTTGAAGTGGTGTATGATTGAGTCGGTGG
66 ACATTTTGATGTTGAATATTGAAGTTATGGATGCATATTGAAGTGGTATGTGATTGAGTATGTGG
* * * * *
66424173 AATGCCCTGTTTTGCTTGAATTTTTGTAGAATTATATAGAGCTATCGATAAACAAGGCATATGTA
131 AATGCCCTGTTTTGCTTGAATTTTTGTAGAATTATACAAAGGTATTGATAATCAAGGCATATGTA
* * *
66424238 TCGATACTTCTGAGTTGGAATGAATGTGTAGGAAACAATTGCTTATTTTGGTATTGATACCAATT
196 TTGATACTTCTGAGTTGAAATGAATGTG-AGGAAACAATAGCTTATTTTGGTATTGATACCAATT
* * * *
66424303 CTCGAGTATCGATACTCAGGTTAAAAATTTAGATAATTTTGAATTGTATCAATAAATTGCTAGGT
260 CTCAAGTATCGATACTCAGGGTAAAAATATAGATAATTTTGAATTGTATCGATAAATTGCTAGGT
*
66424368 TTTAGATTTTGAAATAAAACTGAATGTTAAAAAGGTATTTATTTTCCAAATGGTATCAATACCTA
325 TTTAGATTTTGAAA-AAAACTGAATGTTAAAAAGGTATTGATTTTCCAAATGGTATCAATACCTA
* * * * *
66424433 TTTTCAGAAATATTAATACCCATTTAGTTGTTCTCATGTAATGTATGATATCATGTTTATTAGTA
389 TTTTAAGAAATATCAATACCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTA
66424498 ATTTTTTTCGATCATTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACCTTTGCAGATA
454 ATTTTTTTCGATCATTCACTGAGCTTGTTTAAGCTCACACACTC--TT-T-----TTT--AGATA
* * *
66424563 GTTAGTGTTTCCGGTGTGGGCGGTGCAGAATTCC-AGTGAACTGATCCAAGTTAGGCTTAGTATT
509 G-CA----TT-C--TGTGGGCGGTGCAGAATTCCAAG-GAAGTGATCCAAGTTAGGCTTAGTGTT
* * * * *
66424627 TGAGTAGGTGATATCATTACTATTATTTTTGAACTTTGGGAATAAGACAATGTGGTTGAATTGTT
565 TGAGTAGGTGATATTATTGCTATTATTTTTGAAC-TGGGGAATAAGACAATGTGGTAGATTTGTT
* * *
66424692 GGTTGATTATTATCTTAATGTTTTAAGTGATTATTTTGATTTTAATACTCATAGGTTCGC-GGAC
629 GGTTGATTATTATCTTGATGTTTTAAATGATTATTTTGA--TTAATACTCTTAGGTTC-CTGGAC
* *
66424756 GTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTCATATTGCTATAGACTT-CAAATATG
1 GTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTAATATTGCTATGGA-TTGCAAATATG
* * *
66424820 GACATTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTCAGTATGCG
65 GACATTTTGATGTTGAATATTGAAGTTATGGATGCATATTGAAGTGGTATGTGATTGAGTATGTG
* * * * *
66424885 GATTGCCCTGTTTTCCTTGAATTTTTGTAGAATTATACAAAGGTTTTGGTAATCGAGGCATATGT
130 GAATGCCCTGTTTTGCTTGAATTTTTGTAGAATTATACAAAGGTATTGATAATCAAGGCATATGT
* ** * * *
66424950 ATTGATACTTCTAAGTTGAAACCAATTTGCGTGAAACAATAG-TTCATTTTGGTATTGATACCAT
195 ATTGATACTTCTGAGTTGAAATGAATGTGAG-GAAACAATAGCTT-ATTTTGGTATTGATACCAA
* * * *
66425014 TTCTCAAGTATGGATACTCAGGGTAAAAATATGGATAGTTTTGAATTGTATCGATAAATTGCTAA
258 TTCTCAAGTATCGATACTCAGGGTAAAAATATAGATAATTTTGAATTGTATCGATAAATTGCTAG
* * ** * *
66425079 GTTTTAGATTTTGAAGAAAAACAGAATGTT-AAAATGTACCGATTTTCCAAACGGTATCGATACC
323 GTTTTAGATTTTGAA-AAAAACTGAATGTTAAAAAGGTATTGATTTTCCAAATGGTATCAATACC
* * *
66425143 TATTTTAAGAAATATCAATACCTATTTAGATGTTCTCATTTAATGTACT-ATATCTTATTTATTG
387 TATTTTAAGAAATATCAATACCCATTTAGATGTTCTCATTTAATGTA-TGATATCATGTTTATTG
* *
66425207 GT-ATTTTTTTCCTGATCATTCACTGAGCTTTTTTAAACTCACACACTCTTTTCTAAACCTTTGC
451 GTAATTTTTTT-C-GATCATTCACTGAGCTTGTTTAAGCTCACACACTC--TT-T-----TTT--
* * *
66425271 AGATAGTAAGTGCTCCGGTGTAGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGT
504 AGATAG-CA-T--T-C--TGTGGGCGGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGT
66425336 GTTTGAGTAGGTGATATTATTGCTATTATTTTTGAAGTCT-GGGAATAAGACAATG
562 GTTTGAGTAGGTGATATTATTGCTATTATTTTTGAA--CTGGGGAATAAGACAATG
66425391 CTATTATTTT
Statistics
Matches: 1745, Mismatches: 227, Indels: 125
0.83 0.11 0.06
Matches are distributed among these distances:
685 1 0.00
686 370 0.21
687 77 0.04
688 9 0.01
689 127 0.07
690 1 0.00
694 4 0.00
697 2 0.00
698 1 0.00
699 1 0.00
700 1 0.00
701 1 0.00
702 1 0.00
705 4 0.00
709 3 0.00
710 132 0.08
711 14 0.01
712 187 0.11
713 685 0.39
714 122 0.07
715 2 0.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (690 bp):
GTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTAATATTGCTATGGATTGCAAATATGG
ACATTTTGATGTTGAATATTGAAGTTATGGATGCATATTGAAGTGGTATGTGATTGAGTATGTGG
AATGCCCTGTTTTGCTTGAATTTTTGTAGAATTATACAAAGGTATTGATAATCAAGGCATATGTA
TTGATACTTCTGAGTTGAAATGAATGTGAGGAAACAATAGCTTATTTTGGTATTGATACCAATTC
TCAAGTATCGATACTCAGGGTAAAAATATAGATAATTTTGAATTGTATCGATAAATTGCTAGGTT
TTAGATTTTGAAAAAAACTGAATGTTAAAAAGGTATTGATTTTCCAAATGGTATCAATACCTATT
TTAAGAAATATCAATACCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAAT
TTTTTTCGATCATTCACTGAGCTTGTTTAAGCTCACACACTCTTTTTTAGATAGCATTCTGTGGG
CGGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTATTGCT
ATTATTTTTGAACTGGGGAATAAGACAATGTGGTAGATTTGTTGGTTGATTATTATCTTGATGTT
TTAAATGATTATTTTGATTAATACTCTTAGGTTCCTGGAC
Found at i:66425393 original size:33 final size:33
Alignment explanation
Indices: 66425356--66425423 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
66425346 GTGATATTAT
66425356 TGCTATTATTTTTGAAGTCTGGGAATAAGACAA
1 TGCTATTATTTTTGAAGTCTGGGAATAAGACAA
66425389 TGCTATTATTTTTGAAGTCTGGGAATAAGACAA
1 TGCTATTATTTTTGAAGTCTGGGAATAAGACAA
66425422 TG
1 TG
66425424 TGATTGAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (33 bp):
TGCTATTATTTTTGAAGTCTGGGAATAAGACAA
Found at i:66425905 original size:23 final size:26
Alignment explanation
Indices: 66425851--66425906 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 26
66425841 AAGAAATCAT
66425851 TTAT-ATAATAAGGTTAAATATATAA
1 TTATAATAATAAGGTTAAATATATAA
*
66425876 TTA-AATAATAA-GTT-AATATAT-G
1 TTATAATAATAAGGTTAAATATATAA
66425898 TTATAATAA
1 TTATAATAA
66425907 AACATAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.11
23 12 0.43
24 3 0.11
25 10 0.36
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (26 bp):
TTATAATAATAAGGTTAAATATATAA
Found at i:66431043 original size:16 final size:16
Alignment explanation
Indices: 66431022--66431074 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
66431012 CTTTGGTAAA
66431022 GCAATATGTATATTCG
1 GCAATATGTATATTCG
*
66431038 GCAATATGGTA-A---A
1 GCAATAT-GTATATTCG
*
66431051 ACAATATGTATATTCG
1 GCAATATGTATATTCG
66431067 GCAATATG
1 GCAATATG
66431075 ATAAGTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
16 15 0.54
17 3 0.11
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (16 bp):
GCAATATGTATATTCG
Found at i:66431057 original size:29 final size:29
Alignment explanation
Indices: 66431015--66431074 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
66431005 TGTGATACTT
*
66431015 TGGTAAAGCAATATGTATATTCGGCAATA
1 TGGTAAAACAATATGTATATTCGGCAATA
66431044 TGGTAAAACAATATGTATATTCGGCAATA
1 TGGTAAAACAATATGTATATTCGGCAATA
66431073 TG
1 TG
66431075 ATAAGTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (29 bp):
TGGTAAAACAATATGTATATTCGGCAATA
Found at i:66431480 original size:42 final size:42
Alignment explanation
Indices: 66431433--66431517 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
66431423 AAAGTCCACC
66431433 ACACTATCGACTGTCCTCGGTATCTTTATAAGTGAACTTTCG
1 ACACTATCGACTGTCCTCGGTATCTTTATAAGTGAACTTTCG
66431475 ACACTATCGACTGTCCTCGGTATCTTTATAAGTGAACTTTCG
1 ACACTATCGACTGTCCTCGGTATCTTTATAAGTGAACTTTCG
66431517 A
1 A
66431518 ATCTATGGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (42 bp):
ACACTATCGACTGTCCTCGGTATCTTTATAAGTGAACTTTCG
Found at i:66433334 original size:20 final size:20
Alignment explanation
Indices: 66433311--66433433 Score: 61
Period size: 20 Copynumber: 6.2 Consensus size: 20
66433301 CCTTGTATTG
* *
66433311 TTTTGTATTTCCTTATAATT
1 TTTTGTAATTCCTCATAATT
* * *
66433331 TTTTATAATTACTCATATTT
1 TTTTGTAATTCCTCATAATT
* *
66433351 TTTTGTACTTCCTCAT-GTT
1 TTTTGTAATTCCTCATAATT
* * * **
66433370 TTTAGTACTTGCT-ACGATT
1 TTTTGTAATTCCTCATAATT
* * * *
66433389 TTTGGCACTTCATCATAATT
1 TTTTGTAATTCCTCATAATT
* *
66433409 TTTTCTATTTCCTCATAATAT
1 TTTTGTAATTCCTCATAAT-T
66433430 TTTT
1 TTTT
66433434 ATATTTCCTA
Statistics
Matches: 76, Mismatches: 24, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
18 1 0.01
19 24 0.32
20 46 0.61
21 5 0.07
ACGTcount: A:0.21, C:0.15, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTGTAATTCCTCATAATT
Found at i:66433432 original size:21 final size:20
Alignment explanation
Indices: 66433401--66433442 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
66433391 TGGCACTTCA
*
66433401 TCATAATTTTTTCTATTTCC
1 TCATAATTTTTTATATTTCC
66433421 TCATAATATTTTTATATTTCC
1 TCATAAT-TTTTTATATTTCC
66433442 T
1 T
66433443 ATTTTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.60
Consensus pattern (20 bp):
TCATAATTTTTTATATTTCC
Found at i:66433562 original size:40 final size:39
Alignment explanation
Indices: 66433517--66433615 Score: 94
Period size: 40 Copynumber: 2.5 Consensus size: 39
66433507 TGCTCGGGTT
66433517 TTTTTGGTATTTTCTCATTTCTTTTT-GTA-TTCCCTCATAA
1 TTTTTGGTATTTTCTCATTT-TTTTTGGTACTT-CCTCAT-A
** ** * *
66433557 TTTTTGGTGGTTAGTCATTTTTTTTGGTACTTTCTTATA
1 TTTTTGGTATTTTCTCATTTTTTTTGGTACTTCCTCATA
*
66433596 TTTTTTGTATTTTCTCATTT
1 TTTTTGGTATTTTCTCATTT
66433616 AGTACTTCCA
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
39 21 0.46
40 23 0.50
41 2 0.04
ACGTcount: A:0.13, C:0.12, G:0.11, T:0.64
Consensus pattern (39 bp):
TTTTTGGTATTTTCTCATTTTTTTTGGTACTTCCTCATA
Found at i:66434042 original size:21 final size:22
Alignment explanation
Indices: 66434013--66434053 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
66434003 ACATATGAGA
*
66434013 AATACCAAAAA-CTATGAGGTG
1 AATACCAAAAATCCATGAGGTG
*
66434034 AATATCAAAAATCCATGAGG
1 AATACCAAAAATCCATGAGG
66434054 GAGTTGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (22 bp):
AATACCAAAAATCCATGAGGTG
Found at i:66434184 original size:20 final size:18
Alignment explanation
Indices: 66434138--66434185 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
66434128 TTATTTGTAG
*
66434138 ATATAAAAAATTTTATTA
1 ATATCAAAAATTTTATTA
*
66434156 ATATGCAAAAATATTTATTTT
1 ATAT-CAAAAAT-TTTA-TTA
66434177 ATATCAAAA
1 ATATCAAAA
66434186 TTTGATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.16
19 6 0.24
20 9 0.36
21 6 0.24
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATCAAAAATTTTATTA
Found at i:66434185 original size:19 final size:20
Alignment explanation
Indices: 66434163--66434214 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
66434153 TTAATATGCA
66434163 AAAATATTTATTTTATA-TC
1 AAAATATTTATTTTATAGTC
* *
66434182 AAAAT-TTGATTTTTCTAGTC
1 AAAATATTTA-TTTTATAGTC
66434202 AAAA-ATTTATTTT
1 AAAATATTTATTTT
66434215 CAAATCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.11
19 15 0.56
20 9 0.33
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (20 bp):
AAAATATTTATTTTATAGTC
Found at i:66434277 original size:10 final size:10
Alignment explanation
Indices: 66434246--66434294 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
66434236 ATCGCATAAA
*
66434246 AAAAATTATG
1 AAAAATTATT
66434256 AGAAAA-TATT
1 A-AAAATTATT
66434266 AAAAATTATT
1 AAAAATTATT
*
66434276 AAAAATTACT
1 AAAAATTATT
*
66434286 AATAATTAT
1 AAAAATTAT
66434295 GGGGTGTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 4 0.12
10 25 0.76
11 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
AAAAATTATT
Found at i:66434374 original size:16 final size:16
Alignment explanation
Indices: 66434353--66434392 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
66434343 ATTGTTTTAC
*
66434353 CTATTTATCAGATAAA
1 CTATTTACCAGATAAA
66434369 CTATTTACCAGATAAA
1 CTATTTACCAGATAAA
66434385 CTATTTAC
1 CTATTTAC
66434393 AATTACAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (16 bp):
CTATTTACCAGATAAA
Found at i:66443998 original size:25 final size:25
Alignment explanation
Indices: 66443969--66444019 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
66443959 CAAAGGAAAA
** *
66443969 TCCTAATCTAATTCTTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
66443994 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
66444019 T
1 T
66444020 TTATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:66448042 original size:28 final size:28
Alignment explanation
Indices: 66448002--66448055 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
66447992 TCTATATCAG
* *
66448002 TCAATATCTTTCAATATCAATCAATTTA
1 TCAATATCGTTCAATAACAATCAATTTA
66448030 TCAATATCGTTCAATAACAATCAATT
1 TCAATATCGTTCAATAACAATCAATT
66448056 ATTCTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.39
Consensus pattern (28 bp):
TCAATATCGTTCAATAACAATCAATTTA
Found at i:66448239 original size:18 final size:18
Alignment explanation
Indices: 66448216--66448311 Score: 84
Period size: 18 Copynumber: 5.3 Consensus size: 18
66448206 CGGTCAGTCA
*
66448216 TCAGTATTAATCAGTTAT
1 TCAGTAATAATCAGTTAT
* *
66448234 TCAGTAATAGTCATTTAT
1 TCAGTAATAATCAGTTAT
* * *
66448252 TCAGTAACAGTCATTTAT
1 TCAGTAATAATCAGTTAT
* * * * *
66448270 TTAGTAACAGTTAATTAT
1 TCAGTAATAATCAGTTAT
*
66448288 TCAGTAATAGTCAGTTAT
1 TCAGTAATAATCAGTTAT
66448306 TCAGTA
1 TCAGTA
66448312 CCTTTATTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (18 bp):
TCAGTAATAATCAGTTAT
Found at i:66448256 original size:36 final size:36
Alignment explanation
Indices: 66448216--66448311 Score: 120
Period size: 36 Copynumber: 2.7 Consensus size: 36
66448206 CGGTCAGTCA
* * * *
66448216 TCAGTATTAATCAGTTATTCAGTAATAGTCATTTAT
1 TCAGTAATAGTCAGTTATTCAGTAACAGTCAATTAT
* * * *
66448252 TCAGTAACAGTCATTTATTTAGTAACAGTTAATTAT
1 TCAGTAATAGTCAGTTATTCAGTAACAGTCAATTAT
66448288 TCAGTAATAGTCAGTTATTCAGTA
1 TCAGTAATAGTCAGTTATTCAGTA
66448312 CCTTTATTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (36 bp):
TCAGTAATAGTCAGTTATTCAGTAACAGTCAATTAT
Found at i:66448522 original size:51 final size:52
Alignment explanation
Indices: 66448428--66448545 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 52
66448418 CCGTAACGGT
* * *
66448428 AACAGTAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATTCGG
1 AACAGTAACAGTAACAATA-CGGTA-ACAGAGTACCTCATCGGAACAAATCCGA
* *
66448482 AACAGTAACAGTAACAAT-CAGGT-ACAGAGTACCTCTTCGGAACGAATCCGA
1 AACAGTAACAGTAACAATAC-GGTAACAGAGTACCTCATCGGAACAAATCCGA
66448533 AACAGTAACAGTA
1 AACAGTAACAGTA
66448546 GTCGACACTT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
51 37 0.64
52 1 0.02
53 3 0.05
54 17 0.29
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (52 bp):
AACAGTAACAGTAACAATACGGTAACAGAGTACCTCATCGGAACAAATCCGA
Found at i:66448691 original size:17 final size:18
Alignment explanation
Indices: 66448655--66448691 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
66448645 TAATAGGGTT
66448655 TTCAGTTCACTTTCTTAA
1 TTCAGTTCACTTTCTTAA
66448673 TTCAGTATCA-TTT-TTAA
1 TTCAGT-TCACTTTCTTAA
66448690 TT
1 TT
66448692 TATTTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 9 0.50
19 3 0.17
ACGTcount: A:0.24, C:0.16, G:0.05, T:0.54
Consensus pattern (18 bp):
TTCAGTTCACTTTCTTAA
Found at i:66448848 original size:19 final size:19
Alignment explanation
Indices: 66448826--66448863 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
66448816 TATCCAATTC
*
66448826 CCACATCAA-TCACATAAAT
1 CCACATAAATTCA-ATAAAT
66448845 CCACATAAATTCAATAAAT
1 CCACATAAATTCAATAAAT
66448864 TATTCATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (19 bp):
CCACATAAATTCAATAAAT
Found at i:66449174 original size:19 final size:20
Alignment explanation
Indices: 66449145--66449184 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
66449135 TCGTTTCATG
66449145 TTCTGTTCTTTCTA-TTCTTT
1 TTCTGTTCTTT-TATTTCTTT
66449165 TTCT-TTCTTTTATTTCTTT
1 TTCTGTTCTTTTATTTCTTT
66449184 T
1 T
66449185 GTTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 13 0.68
20 4 0.21
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (20 bp):
TTCTGTTCTTTTATTTCTTT
Found at i:66449184 original size:18 final size:18
Alignment explanation
Indices: 66449145--66449193 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
66449135 TCGTTTCATG
66449145 TTCTGTTCTTTCTATTCTTT
1 TTCT-TTCTTT-TATTCTTT
66449165 TTCTTTCTTTTATT-TCTT
1 TTCTTTCTTTTATTCT-TT
*
66449183 TTGTTTCTTTT
1 TTCTTTCTTTT
66449194 TTTAACTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 16 0.59
19 6 0.22
20 4 0.15
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (18 bp):
TTCTTTCTTTTATTCTTT
Found at i:66449324 original size:15 final size:14
Alignment explanation
Indices: 66449301--66449339 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
66449291 ACACTTGTCT
66449301 TTTATTTATTATAC
1 TTTATTTATTATAC
*
66449315 TTTATATTATTATATT
1 TTTAT-TTATTATA-C
66449331 TTTATTTAT
1 TTTATTTAT
66449340 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTATTATAC
Found at i:66453242 original size:22 final size:22
Alignment explanation
Indices: 66453214--66453259 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
66453204 GTTTGTGTGT
*
66453214 CTAGTTTAACATGCCCGTGCGG
1 CTAGTTTAACATGCCCGTACGG
*
66453236 CTAGTTTAACATGTCCGTACGG
1 CTAGTTTAACATGCCCGTACGG
66453258 CT
1 CT
66453260 TGGGACACGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (22 bp):
CTAGTTTAACATGCCCGTACGG
Found at i:66454153 original size:18 final size:18
Alignment explanation
Indices: 66454118--66454231 Score: 129
Period size: 18 Copynumber: 6.3 Consensus size: 18
66454108 CAGTCAGTCA
* * *
66454118 TCAGTATTAATCAGTTAT
1 TCAGTAATAGTCATTTAT
*
66454136 TTAGTAATAGTCATTTAT
1 TCAGTAATAGTCATTTAT
66454154 TCAGTAATAGTCATTTAT
1 TCAGTAATAGTCATTTAT
*
66454172 TCAGTAACAGTCATTTAT
1 TCAGTAATAGTCATTTAT
* * *
66454190 TCAGTAACAGTTAATTAT
1 TCAGTAATAGTCATTTAT
** *
66454208 TCAGTAGCAGTCAGTTAT
1 TCAGTAATAGTCATTTAT
66454226 TCAGTA
1 TCAGTA
66454232 CCTTTATTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 85 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:66454349 original size:6 final size:6
Alignment explanation
Indices: 66454340--66454384 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
66454330 GGAATACACC
* *
66454340 GTAACG GTAACA GTAACA GTAACA GTAACA GTAACA GTAATA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
66454385 GCGGTACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (6 bp):
GTAACA
Found at i:66454430 original size:54 final size:51
Alignment explanation
Indices: 66454366--66454483 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 51
66454356 CAGTAACAGT
* *
66454366 AACAGTAACAGTAATAGTAGC-GGTACACAGAGTACCTCATCGGAACA-AATTCGG
1 AACAGTAACAGTAACA--AGCAGGT--ACAGAATACCTCATCGGAA-AGAATTCGG
* *
66454420 AACAGTAACAGTAACAATCAGGTACAGAATACCTCTTCGGAAAGAATTCGG
1 AACAGTAACAGTAACAAGCAGGTACAGAATACCTCATCGGAAAGAATTCGG
*
66454471 AATAGTAACAGTA
1 AACAGTAACAGTA
66454484 GTCGACACTT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
50 1 0.02
51 36 0.63
52 2 0.04
53 3 0.05
54 15 0.26
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (51 bp):
AACAGTAACAGTAACAAGCAGGTACAGAATACCTCATCGGAAAGAATTCGG
Found at i:66454787 original size:19 final size:19
Alignment explanation
Indices: 66454765--66454802 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
66454755 TATTCAATTC
*
66454765 CCACATCAA-TCACATAAAT
1 CCACATAAATTCA-ATAAAT
66454784 CCACATAAATTCAATAAAT
1 CCACATAAATTCAATAAAT
66454803 TATTTATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (19 bp):
CCACATAAATTCAATAAAT
Found at i:66455112 original size:18 final size:18
Alignment explanation
Indices: 66455084--66455134 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
66455074 TCGTTTCATG
*
66455084 TTCTGTTCTTTCTA-TTCTT
1 TTCT-TTCTTT-TATTTCCT
66455103 TTCTTTCTTTTATTTCCT
1 TTCTTTCTTTTATTTCCT
*
66455121 TTGTTTC-TTTATTT
1 TTCTTTCTTTTATTT
66455135 AACTATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 9 0.31
18 16 0.55
19 4 0.14
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.73
Consensus pattern (18 bp):
TTCTTTCTTTTATTTCCT
Found at i:66455199 original size:19 final size:19
Alignment explanation
Indices: 66455175--66455213 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66455165 AATACTTATT
*
66455175 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
66455194 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
66455213 T
1 T
66455214 CTATATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:66455261 original size:15 final size:14
Alignment explanation
Indices: 66455238--66455276 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
66455228 ACACTTGTCT
66455238 TTTATTTATTATAC
1 TTTATTTATTATAC
*
66455252 TTTATATTATTATATT
1 TTTAT-TTATTATA-C
66455268 TTTATTTAT
1 TTTATTTAT
66455277 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTATTATAC
Found at i:66457373 original size:44 final size:44
Alignment explanation
Indices: 66457323--66457410 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
66457313 CATCTTTGCA
*
66457323 CATTGCTGAAATTCTCTGTTCT-CCTCTTCATTTTTGTTTTTTTC
1 CATTGCTGAAATTCTCTGTTCTCCCTCTTCATTTTT-TTTCTTTC
66457367 CATTGCTGAAATTCTCTGTTCTCCCTCTTCATTTTTTTTCTTTC
1 CATTGCTGAAATTCTCTGTTCTCCCTCTTCATTTTTTTTCTTTC
66457411 ACTCTTGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 29 0.69
45 13 0.31
ACGTcount: A:0.11, C:0.25, G:0.08, T:0.56
Consensus pattern (44 bp):
CATTGCTGAAATTCTCTGTTCTCCCTCTTCATTTTTTTTCTTTC
Found at i:66464584 original size:18 final size:18
Alignment explanation
Indices: 66464519--66464613 Score: 75
Period size: 18 Copynumber: 5.3 Consensus size: 18
66464509 TAACAATATC
*
66464519 ATTCAGTAAC-GATCATTT
1 ATTCAGTAACAG-TCAGTT
* * * *
66464537 ATTCAGTAATAATTAGTC
1 ATTCAGTAACAGTCAGTT
* *
66464555 ATTTAGTAACAGTCATTT
1 ATTCAGTAACAGTCAGTT
* *
66464573 ATTCAGTAACAGTTAATT
1 ATTCAGTAACAGTCAGTT
* *
66464591 ATTCAATAGCAGTCAGTT
1 ATTCAGTAACAGTCAGTT
66464609 ATTCA
1 ATTCA
66464614 ATACCTTTAT
Statistics
Matches: 58, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (18 bp):
ATTCAGTAACAGTCAGTT
Done.