Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 204 of 279
Found at i:66635258 original size:47 final size:49
Alignment explanation
Indices: 66635199--66635298 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 49
66635189 AATTCATTTG
*
66635199 ATTTCATCAC-TTTCATAA-ACATAAGTATACTTCCTTT-AA-AGCTTACC
1 ATTTCATCACTTTTCATAATACATAA-TATACTTCATTTGAACA-CTTACC
*
66635246 ATTTCAAT-ACTTTTCATAATTACATAATATATTTCATTTGAACACTTACC
1 ATTTC-ATCACTTTTCATAA-TACATAATATACTTCATTTGAACACTTACC
66635296 ATT
1 ATT
66635299 CCTTTCCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
47 7 0.16
48 10 0.22
49 10 0.22
50 17 0.38
51 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (49 bp):
ATTTCATCACTTTTCATAATACATAATATACTTCATTTGAACACTTACC
Found at i:66638823 original size:23 final size:22
Alignment explanation
Indices: 66638741--66638822 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 22
66638731 TAACACTCTA
66638741 CAGAATGTAA-TGCACTGAAATGC
1 CAGAATG-AATTGCACT-AAATGC
* * *
66638764 CAGAATGAATTGTACTATAGTGT
1 CAGAATGAATTGCACTA-AATGC
66638787 C--AATGAATTGCACCTAAATGC
1 CAGAATGAATTGCA-CTAAATGC
66638808 CAGAATGAATTGCAC
1 CAGAATGAATTGCAC
66638823 CAAAGTATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
21 14 0.29
22 7 0.15
23 27 0.56
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (22 bp):
CAGAATGAATTGCACTAAATGC
Found at i:66641707 original size:43 final size:42
Alignment explanation
Indices: 66641633--66641755 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
66641623 TAAAAAACAT
* * *
66641633 ATACAATGCCAACGTCCCAGAC-GCGGTCTTACATGTAATCAA
1 ATACGATGCCAAAGTCCCAGACAG-GGTCTTACATGAAATCAA
* ** * *
66641675 ATATCGATTCCACTGTCCCAGACAGGGTCTTACACGAAATCAG
1 ATA-CGATGCCAAAGTCCCAGACAGGGTCTTACATGAAATCAA
*
66641718 ATACGATGCCAAAGTCCCAGACATGGTCTTACATGAAA
1 ATACGATGCCAAAGTCCCAGACAGGGTCTTACATGAAA
66641756 AATAGAAATC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 33 0.49
43 33 0.49
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
ATACGATGCCAAAGTCCCAGACAGGGTCTTACATGAAATCAA
Found at i:66641746 original size:42 final size:43
Alignment explanation
Indices: 66641638--66641809 Score: 154
Period size: 44 Copynumber: 4.0 Consensus size: 43
66641628 AACATATACA
** * * *
66641638 ATGCCAACGTCCCAGACGCGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
* *
66641681 ATTCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAGATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAGATATCG
* * *
66641723 ATGCCAAAGTCCCAGACATGGTCTTACATGAAAAAT-AGAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG--AAATCAGATATCG
* * *
66641767 ATGCCAACTTCTCAGATATGGTCTTACACGCAGAA-CAGATATC
1 ATGCCAACGTCCCAGACATGGTCTTACACG-A-AATCAGATATC
66641810 AGAATTCCTA
Statistics
Matches: 104, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
42 28 0.27
43 37 0.36
44 39 0.38
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
Found at i:66647746 original size:31 final size:31
Alignment explanation
Indices: 66647708--66647771 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
66647698 AGAGGCCATG
66647708 TTGGATAAAAAGTCGCTAATGATAGAACTAC
1 TTGGATAAAAAGTCGCTAATGATAGAACTAC
* *
66647739 TTGGATAAAATGTTGCTAATGATAGAACTAC
1 TTGGATAAAAAGTCGCTAATGATAGAACTAC
66647770 TT
1 TT
66647772 CGACAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (31 bp):
TTGGATAAAAAGTCGCTAATGATAGAACTAC
Found at i:66648449 original size:18 final size:20
Alignment explanation
Indices: 66648423--66648463 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
66648413 TTTAAATTCG
*
66648423 TTTTGATTT-TAAATT-TTA
1 TTTTCATTTGTAAATTATTA
*
66648441 TTTTCATTTGTAATTTATTA
1 TTTTCATTTGTAAATTATTA
66648461 TTT
1 TTT
66648464 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTCATTTGTAAATTATTA
Found at i:66650099 original size:21 final size:21
Alignment explanation
Indices: 66650073--66650135 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
66650063 ACATAGAAAG
*
66650073 CCAGTGTCGCAACACT-AGGTT
1 CCAGTGTTGCAACACTGA-GTT
66650094 CCAGTGTTGCAACACTGAGTT
1 CCAGTGTTGCAACACTGAGTT
* *
66650115 CTAGTGTTGCAACACCGAGTT
1 CCAGTGTTGCAACACTGAGTT
66650136 GGTGTCGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (21 bp):
CCAGTGTTGCAACACTGAGTT
Found at i:66651466 original size:163 final size:163
Alignment explanation
Indices: 66651178--66651472 Score: 400
Period size: 163 Copynumber: 1.8 Consensus size: 163
66651168 TCTATAAAAC
* * * * *
66651178 ACCTTGGTATAAACCAGATTTTTATGAAAACTTATATAAAGAATAGGTGAATTATGACGAGATCA
1 ACCTTGGTATAAACCAGATTTTTATGAAAAATTACATAAAAAAGAGGTGAATTATGAAGAGATCA
** * *
66651243 TCAATTTTTTAACTGAAGGTTGAGGAAATTAGGTTCGAAAAGTCATAACTGAAAAACCAATAAGA
66 TCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAAGCCACAACTGAAAAACCAATAAGA
66651308 TTCTATGATTGCGATCGAAGCCGTCCATAAGAA
131 TTCTATGATTGCGATCGAAGCCGTCCATAAGAA
*
66651341 ACCTTGGTAT-AACCTGGATTTTTATGAAAAATTACA-AGAAAAAGAGGTGAATTATGAAGAGAT
1 ACCTTGGTATAAACC-AGATTTTTATGAAAAATTACATA-AAAAAGAGGTGAATTATGAAGAGAT
* * * *
66651404 CATCAATTTTTTAATTGAGGGTCAAGGAACTTGGGTTC-AAAAGACCACAACT-AAAGAACCAAT
64 CATCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAAG-CCACAACTGAAA-AACCAAT
66651467 AAGATT
127 AAGATT
66651473 TAAACAATCT
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
162 13 0.11
163 101 0.89
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (163 bp):
ACCTTGGTATAAACCAGATTTTTATGAAAAATTACATAAAAAAGAGGTGAATTATGAAGAGATCA
TCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAAGCCACAACTGAAAAACCAATAAGA
TTCTATGATTGCGATCGAAGCCGTCCATAAGAA
Found at i:66652789 original size:6 final size:6
Alignment explanation
Indices: 66652770--66652832 Score: 81
Period size: 6 Copynumber: 10.3 Consensus size: 6
66652760 TCTAAATGAA
* * *
66652770 TTCATT TCTCATT TTCATT TTTATT TTCATT TTCGTT TTCGTT TTCATT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT
*
66652819 TACATT TTCATT TT
1 TTCATT TTCATT TT
66652833 GAGAAAACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
6 44 0.88
7 6 0.12
ACGTcount: A:0.14, C:0.16, G:0.03, T:0.67
Consensus pattern (6 bp):
TTCATT
Found at i:66655221 original size:48 final size:48
Alignment explanation
Indices: 66655108--66655677 Score: 575
Period size: 48 Copynumber: 11.8 Consensus size: 48
66655098 GTAAGATGCT
* * * *
66655108 GATGCCATGTCCCAGACATGGTCTTACACTTACTCTCATATATCG-GTGCC
1 GATGCCATGTTCCAAACATGGTCTTACAC-TA-GCTCACATATCGAG-GCC
* *
66655158 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * ** * *
66655206 GATTCCATGTCCCAAACATGATCTTACACAAGCTCTCCCATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * *
66655254 GATGCCATGTTCCAAACATGGTCTTATATTGGCTCACATATCGAGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * **
66655302 GATGCAATGTCCCAAGCATGGTCTTACACTAGCTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * *
66655350 GATGCCAAGTTCCAAACATGGTTTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
** * * * * * **
66655398 GATTTCATGTCCCAGACATGGCCTTACACTAGCTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * *
66655446 GATGCCATGTTCTAAACATGGTCTTACATTGGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * *
66655494 AATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* *
66655542 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * **
66655590 GATGCCATGTTCCAGACATGGTCTTACACTAGTTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * *
66655638 GATGTCATGTTCCAAACATGGTATTATACTGGTTCACATA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
66655678 ACCCTAGTAT
Statistics
Matches: 415, Mismatches: 104, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
48 385 0.93
49 3 0.01
50 27 0.07
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:66655278 original size:96 final size:96
Alignment explanation
Indices: 66655108--66655677 Score: 782
Period size: 96 Copynumber: 5.9 Consensus size: 96
66655098 GTAAGATGCT
* ** *
66655108 GATGCCATGTCCCAGACATGGTCTTACACTTA-CTCTCATATATCGGTGCCGATGCCATGTTCCA
1 GATGCCATGTCCCAAACATGGTCTTACAC-TAGCTCTC--ATATCAATACCGATGCCATGTTCCA
* * *
66655172 AACATGGTCTTACACTAGCCCACATGTCGAGGCC
63 AACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * ** *
66655206 GATTCCATGTCCCAAACATGATCTTACACAAGCTCTCCCATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
* * *
66655271 ATGGTCTTATATTGGCTCACATATCGAGGCT
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
66655302 GATGCAATGTCCCAAGCATGGTCTTACACTAGCTCTCATATCAATACCGATGCCAAGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
*
66655367 ATGGTTTTACACTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
** * * *
66655398 GATTTCATGTCCCAGACATGGCCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCTAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
*
66655463 ATGGTCTTACATTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* *
66655494 AATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
*
66655559 ATGGTCTTACACTGGCTCACATATCGAGGTC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * * *
66655590 GATGCCATGTTCCAGACATGGTCTTACACTAGTTCTCATATCAATACCGATGTCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
* * *
66655655 ATGGTATTATACTGGTTCACATA
66 ATGGTCTTACACTGGCTCACATA
66655678 ACCCTAGTAT
Statistics
Matches: 416, Mismatches: 55, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
96 384 0.92
97 1 0.00
98 31 0.07
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:66665015 original size:56 final size:56
Alignment explanation
Indices: 66664928--66665040 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
66664918 AGGGAAAAAG
66664928 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACAGGAC
1 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACAGGAC
* *
66664984 AATGTAAATTTCAAATATTGTATTCATAGTTCATATGACCATATCAGAGACCGGAC
1 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACAGGAC
66665040 A
1 A
66665041 GACACAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (56 bp):
AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACAGGAC
Found at i:66668421 original size:14 final size:15
Alignment explanation
Indices: 66668386--66668415 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66668376 AATAATTTTA
66668386 AAAAATATTTAAAAT
1 AAAAATATTTAAAAT
66668401 AAAAATATTTAAAAT
1 AAAAATATTTAAAAT
66668416 TCAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATATTTAAAAT
Found at i:66668443 original size:19 final size:19
Alignment explanation
Indices: 66668399--66668444 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
66668389 AATATTTAAA
*
66668399 ATAAAAATATTTAAAATTC
1 ATAAAAATATTAAAAATTC
66668418 A-ATAAAATA-TAAAAAGTTC
1 ATA-AAAATATTAAAAA-TTC
66668437 ATAAAAAT
1 ATAAAAAT
66668445 TCAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 6 0.26
19 16 0.70
20 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAATATTAAAAATTC
Found at i:66675683 original size:5 final size:5
Alignment explanation
Indices: 66675675--66675706 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
66675665 AATATAGTGG
66675675 TAAAA TAAAA TAAAA TAAAA TAAAA GTAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA T
66675707 CCATATGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:66678391 original size:79 final size:79
Alignment explanation
Indices: 66678292--66678447 Score: 294
Period size: 79 Copynumber: 2.0 Consensus size: 79
66678282 TAGAGTTGCT
* *
66678292 TCTTCACCACAGTTACCACCATAATATTTTATTTCCAAGAACAGACCTAAAAGAGAAATTAAAAC
1 TCTTCACCACAGCTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
66678357 TCCAAAAAGGTATG
66 TCCAAAAAGGTATG
66678371 TCTTCACCACAGCTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
1 TCTTCACCACAGCTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
66678436 TCCAAAAAGGTA
66 TCCAAAAAGGTA
66678448 CGTCAAGGCT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (79 bp):
TCTTCACCACAGCTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
TCCAAAAAGGTATG
Found at i:66681270 original size:39 final size:39
Alignment explanation
Indices: 66681226--66681319 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 39
66681216 GGTCTTTAAC
* * * *
66681226 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAACACATAGCCTGCGAACCTCAAGT
* * * *
66681265 TCGGATATATTTCCAACATATAGCCTGCGAACCTTATGT
1 CCGGATATATTTCCAACACATAGCCTGCGAACCTCAAGT
66681304 CCGGATATATTTCCAA
1 CCGGATATATTTCCAA
66681320 TCTCATATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAACACATAGCCTGCGAACCTCAAGT
Found at i:66695094 original size:3 final size:3
Alignment explanation
Indices: 66695086--66695126 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
66695076 GTATTCATCC
*
66695086 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
66695127 AAGGTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:66695963 original size:20 final size:19
Alignment explanation
Indices: 66695916--66695963 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
66695906 TTTTAAAATT
66695916 TAAAATTACATTATATATA
1 TAAAATTACATTATATATA
* *
66695935 TATATATTACATTATATAGTC
1 TA-AAATTACATTATATA-TA
66695956 TAAAATTA
1 TAAAATTA
66695964 AAGTTCATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAATTACATTATATATA
Found at i:66696424 original size:11 final size:11
Alignment explanation
Indices: 66696408--66696437 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
66696398 ACTTGTCGCA
66696408 TGAATCATCAC
1 TGAATCATCAC
66696419 TGAATCATCAC
1 TGAATCATCAC
*
66696430 TAAATCAT
1 TGAATCAT
66696438 ATTAAGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (11 bp):
TGAATCATCAC
Found at i:66699774 original size:24 final size:24
Alignment explanation
Indices: 66699747--66699804 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
66699737 TAGATAGTTG
66699747 ATAGTTGATACATGTCGTAATTAC
1 ATAGTTGATACATGTCGTAATTAC
66699771 ATAGTTGATACATGTCGTAATTAC
1 ATAGTTGATACATGTCGTAATTAC
66699795 ATAGTTGATA
1 ATAGTTGATA
66699805 GTTGATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (24 bp):
ATAGTTGATACATGTCGTAATTAC
Found at i:66699778 original size:31 final size:31
Alignment explanation
Indices: 66699740--66699827 Score: 127
Period size: 31 Copynumber: 3.1 Consensus size: 31
66699730 TGGCAGGTAG
66699740 ATAGTTGATAGTTGATACATGTCGTAATTAC
1 ATAGTTGATAGTTGATACATGTCGTAATTAC
66699771 -------ATAGTTGATACATGTCGTAATTAC
1 ATAGTTGATAGTTGATACATGTCGTAATTAC
66699795 ATAGTTGATAGTTGATACATGTCGTAATTAC
1 ATAGTTGATAGTTGATACATGTCGTAATTAC
66699826 AT
1 AT
66699828 TCTTCACAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
24 24 0.48
31 26 0.52
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (31 bp):
ATAGTTGATAGTTGATACATGTCGTAATTAC
Found at i:66700053 original size:36 final size:36
Alignment explanation
Indices: 66700004--66700081 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
66699994 TAGCACCGGC
*
66700004 TGTGTTTCAGGATTCTCTTTTGTATCAGGTTTAGGT
1 TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
**
66700040 TGTGTTTTGGGATTCTCTTTTGTATCAAGTTTAGGT
1 TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
*
66700076 AGTGTT
1 TGTGTT
66700082 GATTCCAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.14, C:0.09, G:0.26, T:0.51
Consensus pattern (36 bp):
TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
Found at i:66700987 original size:17 final size:16
Alignment explanation
Indices: 66700965--66701007 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
66700955 GCTCTTTCTG
66700965 CAAGAGTACAATAATTC
1 CAAGAG-ACAATAATTC
*
66700982 CAAGAG-GAATAATTC
1 CAAGAGACAATAATTC
66700997 CAAGAGGACAA
1 CAAGA-GACAA
66701008 AGGGATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.59
16 1 0.05
17 8 0.36
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
CAAGAGACAATAATTC
Found at i:66700994 original size:15 final size:15
Alignment explanation
Indices: 66700974--66701004 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66700964 GCAAGAGTAC
66700974 AATAATTCCAAGAGG
1 AATAATTCCAAGAGG
66700989 AATAATTCCAAGAGG
1 AATAATTCCAAGAGG
66701004 A
1 A
66701005 CAAAGGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (15 bp):
AATAATTCCAAGAGG
Found at i:66707815 original size:17 final size:17
Alignment explanation
Indices: 66707793--66707826 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66707783 AGCCACTGTT
* *
66707793 GTTGATTTCATGTCCTG
1 GTTGATATCAGGTCCTG
66707810 GTTGATATCAGGTCCTG
1 GTTGATATCAGGTCCTG
66707827 CCCTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (17 bp):
GTTGATATCAGGTCCTG
Found at i:66718811 original size:24 final size:24
Alignment explanation
Indices: 66718778--66718835 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 24
66718768 TACATTTAAT
66718778 TTTAGTTTTCAGTTTTCTTTCGTTC
1 TTTA-TTTTCAGTTTTCTTTCGTTC
66718803 TTTATTTTCAGTTTTCTTTCGTTC
1 TTTATTTTCAGTTTTCTTTCGTTC
66718827 TTTCATTTT
1 TTT-ATTTT
66718836 TAATTTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.09, C:0.16, G:0.09, T:0.67
Consensus pattern (24 bp):
TTTATTTTCAGTTTTCTTTCGTTC
Found at i:66718847 original size:31 final size:31
Alignment explanation
Indices: 66718763--66718848 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 31
66718753 GTCATACATA
*
66718763 TTTCATACATTTAATTTTAGTTTTCAGTTTTC
1 TTTCATTC-TTTAATTTTAGTTTTCAGTTTTC
* *
66718795 TTTCGTTCTTT-ATTTTCAGTTTTC-TTTCGTTC
1 TTTCATTCTTTAATTTT-AGTTTTCAGTT--TTC
66718827 TTTCATT-TTTAATTTTAGTTTT
1 TTTCATTCTTTAATTTTAGTTTT
66718849 TCTTAAGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
30 7 0.15
31 19 0.41
32 20 0.43
ACGTcount: A:0.15, C:0.13, G:0.07, T:0.65
Consensus pattern (31 bp):
TTTCATTCTTTAATTTTAGTTTTCAGTTTTC
Found at i:66718979 original size:13 final size:14
Alignment explanation
Indices: 66718963--66718992 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
66718953 TTTTCCTTTA
66718963 TTATTT-TATTTTG
1 TTATTTATATTTTG
66718976 TTATTTATATTTTG
1 TTATTTATATTTTG
66718990 TTA
1 TTA
66718993 ACTTGATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
TTATTTATATTTTG
Found at i:66720498 original size:42 final size:42
Alignment explanation
Indices: 66720452--66720601 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 42
66720442 TGAGATTACG
* *
66720452 TGTAAAACCATATCTAGGATATGACATCGATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
* **
66720494 TGTAAGACCATATCTGGGATATGGA-ATTGATATGAGACTTTG
1 TGTAAGACCATATCTGGGATAT-GACATCGATATGAGACTTCA
* * * * *
66720536 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTTCA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGACTTCA
* *
66720579 TGTAAGACCATATTTGAGATATG
1 TGTAAGACCATATCTGGGATATG
66720602 GCATTGGTAC
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
42 56 0.64
43 32 0.36
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
Found at i:66730923 original size:16 final size:16
Alignment explanation
Indices: 66730902--66730935 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
66730892 TGTTAGTTGG
66730902 GATCTTAGACCTGAAA
1 GATCTTAGACCTGAAA
*
66730918 GATCTTAGAGCTGAAA
1 GATCTTAGACCTGAAA
66730934 GA
1 GA
66730936 ATTTTTGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (16 bp):
GATCTTAGACCTGAAA
Found at i:66733742 original size:18 final size:18
Alignment explanation
Indices: 66733719--66733756 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
66733709 ATTTGTCAAA
66733719 AAGTAAAAGCCGAACACC
1 AAGTAAAAGCCGAACACC
66733737 AAGTAAAAGCCGAACACC
1 AAGTAAAAGCCGAACACC
66733755 AA
1 AA
66733757 ATGCCTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.26, G:0.16, T:0.05
Consensus pattern (18 bp):
AAGTAAAAGCCGAACACC
Found at i:66736391 original size:19 final size:20
Alignment explanation
Indices: 66736362--66736406 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
66736352 ATGTAATCAA
*
66736362 ATATCGATGCCATTGTCCCAG
1 ATAT-GATGCCAATGTCCCAG
66736383 -TATGATGCCAATGTCCCAG
1 ATATGATGCCAATGTCCCAG
66736402 ATATG
1 ATATG
66736407 GTATTTCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (20 bp):
ATATGATGCCAATGTCCCAG
Found at i:66743377 original size:43 final size:42
Alignment explanation
Indices: 66743311--66743467 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
66743301 AGCTCGTATA
* * *
66743311 ATGCCAATGTCCCAAA-TGTGGTCTTACATGTAATCAAATATAG
1 ATGCCATTGTCCCAAACAG-GGTCTTACATGAAATCAAATAT-G
* *
66743354 ATGCCACTT-TCCCAAACAGGGTCTTATATGAAATCATATATG
1 ATGCCA-TTGTCCCAAACAGGGTCTTACATGAAATCAAATATG
* *
66743396 ATGCCATTGTCCCATACATGGTCTTACACAT-AAATCACAA-ATCG
1 ATGCCATTGTCCCAAACAGGGTCTT--ACATGAAATCA-AATAT-G
* *
66743440 ATGCCAATGT-CCAAGACATGGTCTTACA
1 ATGCCATTGTCCCAA-ACAGGGTCTTACA
66743468 CGATAACACA
Statistics
Matches: 95, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 24 0.25
43 43 0.45
44 26 0.27
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATTGTCCCAAACAGGGTCTTACATGAAATCAAATATG
Found at i:66752771 original size:16 final size:15
Alignment explanation
Indices: 66752731--66752772 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
66752721 AGATGATAAT
66752731 TATTAATATATAATTA
1 TATTAAT-TATAATTA
66752747 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
66752763 TATTAATTAT
1 TATTAATTAT
66752773 TATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:66752776 original size:22 final size:23
Alignment explanation
Indices: 66752729--66752776 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
66752719 GAAGATGATA
66752729 ATTATTAATATATAATTATATCT
1 ATTATTAATATATAATTATATCT
66752752 ATTA-TAATATAT-ATTA-AT-T
1 ATTATTAATATATAATTATATCT
66752771 ATTATT
1 ATTATT
66752777 TATTTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATTAATATATAATTATATCT
Found at i:66759353 original size:27 final size:27
Alignment explanation
Indices: 66759315--66759428 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
66759305 GTTGTTAAGA
66759315 CCCTCGATTTGTGAAATTATCGAAATAC
1 CCCT-GATTTGTGAAATTATCGAAATAC
** *
66759343 CCCTGGGTTGT-AAACTTACCGAAATAC
1 CCCTGATTTGTGAAA-TTATCGAAATAC
*
66759370 CCCTGATTTGTGAAATTATCGAAATAT
1 CCCTGATTTGTGAAATTATCGAAATAC
* *
66759397 CCCTAATTTGTAAAATTATCGAAATAC
1 CCCTGATTTGTGAAATTATCGAAATAC
66759424 CCCTG
1 CCCTG
66759429 TAAGGTAGGA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.04
27 63 0.86
28 7 0.10
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (27 bp):
CCCTGATTTGTGAAATTATCGAAATAC
Found at i:66759384 original size:54 final size:54
Alignment explanation
Indices: 66759315--66759428 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
66759305 GTTGTTAAGA
** *
66759315 CCCTCGATTTGTGAAATTATCGAAATACCCCTGGGTTGTAAACTTACCGAAATAC
1 CCCT-GATTTGTGAAATTATCGAAATACCCCTAAGTTGTAAAATTACCGAAATAC
* * *
66759370 CCCTGATTTGTGAAATTATCGAAATATCCCTAATTTGTAAAATTATCGAAATAC
1 CCCTGATTTGTGAAATTATCGAAATACCCCTAAGTTGTAAAATTACCGAAATAC
66759424 CCCTG
1 CCCTG
66759429 TAAGGTAGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 49 0.92
55 4 0.08
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (54 bp):
CCCTGATTTGTGAAATTATCGAAATACCCCTAAGTTGTAAAATTACCGAAATAC
Found at i:66759448 original size:23 final size:23
Alignment explanation
Indices: 66759421--66759465 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
66759411 ATTATCGAAA
66759421 TACCCCTGTAAGGTAGGATTACC
1 TACCCCTGTAAGGTAGGATTACC
*
66759444 TACCCCTGTAGGGTAGGATTAC
1 TACCCCTGTAAGGTAGGATTAC
66759466 TGTAATCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
TACCCCTGTAAGGTAGGATTACC
Found at i:66763024 original size:15 final size:15
Alignment explanation
Indices: 66763004--66763035 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66762994 TAATTATGTT
*
66763004 TTAAATGCTTTATTA
1 TTAAATGCTTCATTA
66763019 TTAAATGCTTCATTA
1 TTAAATGCTTCATTA
66763034 TT
1 TT
66763036 GTATGAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.53
Consensus pattern (15 bp):
TTAAATGCTTCATTA
Found at i:66763199 original size:42 final size:42
Alignment explanation
Indices: 66763136--66763286 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
66763126 CTGATATTAC
* *
66763136 GTGTAAGACCACATCTAGGATATGGCATCGATATGAGACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
* *
66763178 GTGTAAAACCATATCTGGGATATGGCATCGATATGAGACCTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
* * * *
66763220 GTATAAGACCATAGT-TGAGCTATTGGCATCGATACGAGA-TTT
1 GTGTAAGACCATA-TCTGGGATA-TGGCATCGATATGAGACTTT
* *
66763262 CATGTAAGACCATATTTGGGATATG
1 -GTGTAAGACCATATCTGGGATATG
66763287 ACATTAGTAC
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 59 0.65
43 32 0.35
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
Found at i:66768466 original size:43 final size:43
Alignment explanation
Indices: 66768310--66768467 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
66768300 ATGTGTTTTT
* * *
66768310 GTGTAAGACCTCGTCTGAGACGTTGACATCGACT-TATGATTTAC
1 GTGTAAGACCTCGTCTGGGACGTTGGCATCGA-TATTTGA-TTAC
* * * * **
66768354 GTGTAATACCAT-GTCTGGGACATCGGTATCG-TATTTGATTTT
1 GTGTAAGACC-TCGTCTGGGACGTTGGCATCGATATTTGATTAC
* *
66768396 GTGTAAGACCTTGTCTGGGCCAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCTCGTCTGGGAC-GTTGGCATCGATATTTGATTAC
*
66768439 ATGTAAGA-CTACGTCTGGGACGTTGGCAT
1 GTGTAAGACCT-CGTCTGGGACGTTGGCAT
66768468 TATATGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 34 0.39
44 23 0.26
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCTCGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:66779575 original size:14 final size:14
Alignment explanation
Indices: 66779556--66779583 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66779546 GTATACATAG
66779556 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
66779570 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
66779584 AGAACAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:66780626 original size:13 final size:13
Alignment explanation
Indices: 66780610--66780649 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
66780600 GAAATAACTG
*
66780610 AAATTAATAATAA
1 AAATTAAAAATAA
*
66780623 AAATAAAAAATAA
1 AAATTAAAAATAA
*
66780636 AAAATAAAAATAA
1 AAATTAAAAATAA
66780649 A
1 A
66780650 CTTTCTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATTAAAAATAA
Found at i:66780633 original size:7 final size:7
Alignment explanation
Indices: 66780621--66780649 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
66780611 AATTAATAAT
66780621 AAAAATA
1 AAAAATA
66780628 AAAAATA
1 AAAAATA
66780635 AAAAAT-
1 AAAAATA
66780641 AAAAATA
1 AAAAATA
66780648 AA
1 AA
66780650 CTTTCTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:66789743 original size:63 final size:65
Alignment explanation
Indices: 66789625--66789758 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 65
66789615 ATAAAAATGG
* * *
66789625 TGAAAATGGATAAATGAGAAATCATTTGAAAATTATTTTGGTTTCTCCAAAATGAAAAT-GAAAA
1 TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGGTTTCTCCAAAATGAAAATGGAAAA
* *
66789689 TGAAAATGGATAAAT-AG-AATTATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGGAAA
1 TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGG-TTTCTCCAAAATGAAAATGGAAA
66789752 A
65 A
66789753 TGAAAA
1 TGAAAA
66789759 ATGAAAATGA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
62 17 0.27
63 20 0.32
64 26 0.41
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (65 bp):
TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGGTTTCTCCAAAATGAAAATGGAAAA
Found at i:66790726 original size:134 final size:134
Alignment explanation
Indices: 66790486--66790755 Score: 531
Period size: 134 Copynumber: 2.0 Consensus size: 134
66790476 CACACAGTTA
*
66790486 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
1 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCCCTAAGAAATACATAAGTGTGAA
66790551 TAAGACGAGAATTCAGTTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
66 TAAGACGAGAATTCAGTTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
66790616 GGTC
131 GGTC
66790620 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCCCTAAGAAATACATAAGTGTGAA
1 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCCCTAAGAAATACATAAGTGTGAA
66790685 TAAGACGAGAATTCAGTTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
66 TAAGACGAGAATTCAGTTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
66790750 GGTC
131 GGTC
66790754 TA
1 TA
66790756 TTATAATTAT
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (134 bp):
TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCCCTAAGAAATACATAAGTGTGAA
TAAGACGAGAATTCAGTTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
GGTC
Found at i:66792772 original size:48 final size:48
Alignment explanation
Indices: 66792698--66792965 Score: 288
Period size: 48 Copynumber: 5.6 Consensus size: 48
66792688 TAAAGTACCA
* * * * *
66792698 ATGCCATGTCCCCGACATGCTCTTACATGAATC-CACATATCATCCCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAAGCACACATATCATCGCCG
* * *
66792746 ATGCCATGTCCCAGACATGGTTTTACACAGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* *
66792794 ATACCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* * * * *
66792842 ACGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* * * * * * *
66792890 ATGCTATGTCCCAGACATGGTCTTACATAGGCACACGTCTAGAT-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATAT-CATCGCCG
* *
66792938 ATGCCATGTCCTAGACATGGACTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
66792966 GGGATCTCAT
Statistics
Matches: 185, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
47 2 0.01
48 181 0.98
49 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
Found at i:66794981 original size:27 final size:27
Alignment explanation
Indices: 66794951--66795040 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
66794941 TTCAAAGAAT
*
66794951 GCCACAAAGGCTTCCTTATCATAGATC
1 GCCACAAAGGCTTCCTTTTCATAGATC
*
66794978 GCCACAAAGGCTTCCTTTTCATAGCTC
1 GCCACAAAGGCTTCCTTTTCATAGATC
* * *
66795005 GCCAGAAAGGATTCATTTTCATAGATC
1 GCCACAAAGGCTTCCTTTTCATAGATC
**
66795032 AACACAAAG
1 GCCACAAAG
66795041 ATCACCACAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTTCATAGATC
Found at i:66795080 original size:66 final size:67
Alignment explanation
Indices: 66794973--66795107 Score: 182
Period size: 66 Copynumber: 2.0 Consensus size: 67
66794963 TCCTTATCAT
* * * *
66794973 AGATCGCCACAAAGGCTTCCTTTTCATAGCTCGCCAGAAAGG-ATTCATTTTCATAGATCAACAC
1 AGATCACCACAAAAGCTCCCTTTTCATAGATCGCCAGAAAGGCATTCATTTTCATAGATCAACAC
66795037 AA
66 AA
* * * **
66795039 AGATCACCACAAAAGCTCCCTTTTCATAGATCGCCATAAAGGCTTTTATTTTCATAGATCGTCAC
1 AGATCACCACAAAAGCTCCCTTTTCATAGATCGCCAGAAAGGCATTCATTTTCATAGATCAACAC
66795104 AA
66 AA
66795106 AG
1 AG
66795108 GCTTTCTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 37 0.63
67 22 0.37
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (67 bp):
AGATCACCACAAAAGCTCCCTTTTCATAGATCGCCAGAAAGGCATTCATTTTCATAGATCAACAC
AA
Found at i:66795125 original size:27 final size:28
Alignment explanation
Indices: 66795058--66795134 Score: 111
Period size: 27 Copynumber: 2.8 Consensus size: 28
66795048 CAAAAGCTCC
*
66795058 CTTTTCATAGATCGCCATAAAGGCTTTT
1 CTTTTCATAGATCGTCATAAAGGCTTTT
* *
66795086 ATTTTCATAGATCGTCACAAAGGC-TTT
1 CTTTTCATAGATCGTCATAAAGGCTTTT
*
66795113 CTTTTCAAAGATCGTCATAAAG
1 CTTTTCATAGATCGTCATAAAG
66795135 ACTTCCATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 22 0.51
28 21 0.49
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (28 bp):
CTTTTCATAGATCGTCATAAAGGCTTTT
Found at i:66795135 original size:94 final size:93
Alignment explanation
Indices: 66794952--66795125 Score: 224
Period size: 93 Copynumber: 1.9 Consensus size: 93
66794942 TCAAAGAATG
* * * * *
66794952 CCACAAAGGCTTCCTTATCATAGATCGCCACAAAGGCTTCCTTTTCATAGCTCGCCAGAAAGGAT
1 CCACAAAAGCTCCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGAT
*
66795017 TCATTTTCATAGATCAACACAAAGATCA
66 TCATTTTCAAAGATCAACACAAAGATCA
* * * *
66795045 CCACAAAAGCTCCCTTTTCATAGATCGCCATAAAGGCTTTTATTTTCATAGATCGTCACAAAGGC
1 CCACAAAAGCTCCCTTATCATAGATCGCCACAAAGGC-TTCATTTTCATAGATCGCCACAAAGG-
*
66795110 TTTC-TTTTCAAAGATC
64 ATTCATTTTCAAAGATC
66795126 GTCATAAAGA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
93 33 0.49
94 32 0.47
95 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (93 bp):
CCACAAAAGCTCCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGAT
TCATTTTCAAAGATCAACACAAAGATCA
Found at i:66806832 original size:120 final size:120
Alignment explanation
Indices: 66806708--66806932 Score: 310
Period size: 122 Copynumber: 1.9 Consensus size: 120
66806698 CCAAAATAAC
** * *
66806708 CATGAGAATGTGAATAATAATGTAATAGGTATGAGGTTTTCCTAAT-CTCGATTTAACACAGAAT
1 CATGAGAATAAGAATAATAATGCAATAGGTATGAGGTTTCCCTAATACTCGATTTAACA-AGAA-
66806772 AT-ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACAGTGGCATGGTAATAG
64 ATCATGATAACTAACCTAAGAATGCAAATTAAATGATAGACAGTGGCATGGTAATAG
* * * * *
66806828 CATGAGAATAAGCATAGTAATGCCATGGGTTTGAGGTTTCCCTAATAACTCGATTTAACAAGAAA
1 CATGAGAATAAGAATAATAATGCAATAGGTATGAGGTTTCCCTAAT-ACTCGATTTAACAAGAAA
*
66806893 TGCATGATAACTAACCTAAGAATTCAAATTAAATGATAGA
65 T-CATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
66806933 ATAATGAGAA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
120 39 0.43
121 4 0.04
122 48 0.53
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (120 bp):
CATGAGAATAAGAATAATAATGCAATAGGTATGAGGTTTCCCTAATACTCGATTTAACAAGAAAT
CATGATAACTAACCTAAGAATGCAAATTAAATGATAGACAGTGGCATGGTAATAG
Found at i:66812806 original size:21 final size:20
Alignment explanation
Indices: 66812769--66812807 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
66812759 GTTCGCATCT
*
66812769 GAATATACATCTGTTTGTCA
1 GAATATACATCTATTTGTCA
*
66812789 GAATATTCTATCTATTTGT
1 GAATATAC-ATCTATTTGT
66812808 GTGACCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
GAATATACATCTATTTGTCA
Found at i:66814470 original size:6 final size:6
Alignment explanation
Indices: 66814459--66814501 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
66814449 TTCTGTTATT
* *
66814459 TGAATC TAAATC TGAATC TGAATC TAAATC TGAATC TGAATC T
1 TGAATC TGAATC TGAATC TGAATC TGAATC TGAATC TGAATC T
66814502 AAAACTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (6 bp):
TGAATC
Found at i:66814515 original size:18 final size:18
Alignment explanation
Indices: 66814459--66814504 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
66814449 TTCTGTTATT
66814459 TGAATCTAAATCTGAATC
1 TGAATCTAAATCTGAATC
66814477 TGAATCTAAATCTGAATC
1 TGAATCTAAATCTGAATC
66814495 TGAATCTAAA
1 TGAATCTAAA
66814505 ACTTTATCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (18 bp):
TGAATCTAAATCTGAATC
Found at i:66826410 original size:38 final size:38
Alignment explanation
Indices: 66826353--66826428 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
66826343 TGATATGAAA
*
66826353 TGTGTAAGACCATGATTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACAATGATTGAAAGATACCATGGCAACCTG
*
66826391 TGTGTAAGACAATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACAATGATTGAAAGATACCATGGCAACCTG
66826429 ATATGAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (38 bp):
TGTGTAAGACAATGATTGAAAGATACCATGGCAACCTG
Found at i:66826458 original size:46 final size:45
Alignment explanation
Indices: 66826391--66826504 Score: 158
Period size: 45 Copynumber: 2.5 Consensus size: 45
66826381 TGGCAACCTG
* * *
66826391 TGTGTAAGACAATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
1 TGTGTAAGACCATGGTTGAAAGATACCAT-GCAACATGACA-GAAAA
66826437 TGTGTAAGACCATGGTTGAAAGATACCATGCAACATGACAGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGCAACATGACAGAAAA
* *
66826482 TGAGTAAGACCATAGTTGAAAGA
1 TGTGTAAGACCATGGTTGAAAGA
66826505 CGCTATGGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 1 0.02
45 33 0.53
46 28 0.45
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (45 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGCAACATGACAGAAAA
Found at i:66826829 original size:223 final size:223
Alignment explanation
Indices: 66826441--66826871 Score: 862
Period size: 223 Copynumber: 1.9 Consensus size: 223
66826431 ATGAAATGTG
66826441 TAAGACCATGGTTGAAAGATACCATGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
1 TAAGACCATGGTTGAAAGATACCATGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
66826506 GCTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGAGGCTATAACATCTGTTGAACA
66 GCTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGAGGCTATAACATCTGTTGAACA
66826571 ATTGATATTCAGGTAAAATGTATCAGATGATGAATGGTTATATGAAATGGTTGTGTGAAATGTTT
131 ATTGATATTCAGGTAAAATGTATCAGATGATGAATGGTTATATGAAATGGTTGTGTGAAATGTTT
66826636 ACAAGAACTAGTCGTGACATGAAAAGAA
196 ACAAGAACTAGTCGTGACATGAAAAGAA
66826664 TAAGACCATGGTTGAAAGATACCATGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
1 TAAGACCATGGTTGAAAGATACCATGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
66826729 GCTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGAGGCTATAACATCTGTTGAACA
66 GCTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGAGGCTATAACATCTGTTGAACA
66826794 ATTGATATTCAGGTAAAATGTATCAGATGATGAATGGTTATATGAAATGGTTGTGTGAAATGTTT
131 ATTGATATTCAGGTAAAATGTATCAGATGATGAATGGTTATATGAAATGGTTGTGTGAAATGTTT
66826859 ACAAGAACTAGTC
196 ACAAGAACTAGTC
66826872 ATATGGAAAT
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
223 208 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (223 bp):
TAAGACCATGGTTGAAAGATACCATGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
GCTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGAGGCTATAACATCTGTTGAACA
ATTGATATTCAGGTAAAATGTATCAGATGATGAATGGTTATATGAAATGGTTGTGTGAAATGTTT
ACAAGAACTAGTCGTGACATGAAAAGAA
Found at i:66827043 original size:23 final size:25
Alignment explanation
Indices: 66826998--66827044 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
66826988 GATAAATATA
*
66826998 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
66827023 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
66827045 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:66843000 original size:12 final size:12
Alignment explanation
Indices: 66842983--66843007 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66842973 ACCGTAGACA
66842983 GCACAAATAGGG
1 GCACAAATAGGG
66842995 GCACAAATAGGG
1 GCACAAATAGGG
66843007 G
1 G
66843008 TGGCATAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.36, T:0.08
Consensus pattern (12 bp):
GCACAAATAGGG
Found at i:66848125 original size:25 final size:26
Alignment explanation
Indices: 66848097--66848151 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
66848087 TGAAACAACA
** *
66848097 AAAAAATCTAATTTAAAAA-GAAAAG
1 AAAAAATCTAACCTAAAAACAAAAAG
*
66848122 AAAATATCTAACCTAAAAACAAAAAG
1 AAAAAATCTAACCTAAAAACAAAAAG
66848148 AAAA
1 AAAA
66848152 CAAACCTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.69, C:0.09, G:0.05, T:0.16
Consensus pattern (26 bp):
AAAAAATCTAACCTAAAAACAAAAAG
Found at i:66853458 original size:24 final size:25
Alignment explanation
Indices: 66853426--66853482 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
66853416 GTATCATTAA
* *
66853426 ATATAATTAAAATTAAACGATTA-TT
1 ATAT-ATTAAAAATAAAAGATTATTT
*
66853451 ATATATTAAAAATAAAATATTATTT
1 ATATATTAAAAATAAAAGATTATTT
66853476 ATATATT
1 ATATATT
66853483 TTTTGAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
ATATATTAAAAATAAAAGATTATTT
Found at i:66858690 original size:68 final size:66
Alignment explanation
Indices: 66858559--66858823 Score: 210
Period size: 68 Copynumber: 3.9 Consensus size: 66
66858549 TACATCTCGG
* * **
66858559 CTATGTCAACAAATAGAGTCCACTAGGACAATAAACGTGAGGTTATATTGTGTAAGATTATAGCA
1 CTATGTCAACAAATA-AGTCCACTAGGACGATAAACATG-GGTTATATTGTGTAAGACCATAGCA
* *
66858624 TGC
64 CGA
* * *
66858627 CTATGTCAACAAATATAGTCCACCAGGATGATAAACATAGGGTTATATTATGTAAGACCATAGCA
1 CTATGTCAACAAATA-AGTCCACTAGGACGATAAACAT-GGGTTATATTGTGTAAGACCATAGCA
66858692 CGA
64 CGA
** * ** ** *
66858695 CTATGGAAACAAATGAAGTTCGTTATAACGATAAACATGGGTTATATTGTGTAAGACCATAGCTC
1 CTATGTCAACAAAT-AAGTCCACTAGGACGATAAACATGGGTTATATTGTGTAAGACCATAGCAC
66858760 -A
65 GA
* * * * * * * * *
66858761 GCTATGACAACATATGGAGTTCACCAGAAC-ATTAAACATGGGGTATGTTGTGTAAGACAATAG
1 -CTATGTCAACAAAT-AAGTCCACTAGGACGA-TAAACATGGGTTATATTGTGTAAGACCATAG
66858824 TTAGGTTAAG
Statistics
Matches: 161, Mismatches: 32, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
66 2 0.01
67 74 0.46
68 83 0.52
69 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (66 bp):
CTATGTCAACAAATAAGTCCACTAGGACGATAAACATGGGTTATATTGTGTAAGACCATAGCACG
A
Found at i:66858766 original size:67 final size:67
Alignment explanation
Indices: 66858589--66858823 Score: 208
Period size: 67 Copynumber: 3.5 Consensus size: 67
66858579 CACTAGGACA
* ** * * * *
66858589 ATAAACGTGAGGTTATATTGTGTAAGATTATAGCATGCCTATGTCAACAAAT-ATAGTCCACCAG
1 ATAAACATG-GGTTATATTGTGTAAGACCATAGCACGACTATGACAACAAATGA-AGTTCACCAG
* *
66858653 GATG
64 AACG
* *** *
66858657 ATAAACATAGGGTTATATTATGTAAGACCATAGCACGACTATGGA-AACAAATGAAGTTCGTTAT
1 ATAAACAT-GGGTTATATTGTGTAAGACCATAGCACGACTAT-GACAACAAATGAAGTTCACCAG
66858721 AACG
64 AACG
* * *
66858725 ATAAACATGGGTTATATTGTGTAAGACCATAGCTC-AGCTATGACAACATATGGAGTTCACCAGA
1 ATAAACATGGGTTATATTGTGTAAGACCATAGCACGA-CTATGACAACAAATGAAGTTCACCAGA
66858789 AC-
65 ACG
* * *
66858791 ATTAAACATGGGGTATGTTGTGTAAGACAATAG
1 A-TAAACATGGGTTATATTGTGTAAGACCATAG
66858824 TTAGGTTAAG
Statistics
Matches: 136, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
66 4 0.03
67 73 0.54
68 56 0.41
69 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (67 bp):
ATAAACATGGGTTATATTGTGTAAGACCATAGCACGACTATGACAACAAATGAAGTTCACCAGAA
CG
Found at i:66859891 original size:41 final size:41
Alignment explanation
Indices: 66859811--66859931 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 41
66859801 AGTTAACTCG
* * * * *
66859811 TATGAGTTTTAGTTTAACCTATTGGGTTTCTGTTCAGCT-C
1 TATGAGCTTCAGTTTAACCTTTTGGGTTTCCGTTTAGCTCC
* *
66859851 TCTGAGCTTCAGTTTAATCCTTTTGGGTTTCCATTTAGCTCC
1 TATGAGCTTCAGTTTAA-CCTTTTGGGTTTCCGTTTAGCTCC
* * **
66859893 TATGAGCTTCTGTTCAACCCTTACGGGTTTCCGTTTAGC
1 TATGAGCTTCAGTTTAA-CCTTTTGGGTTTCCGTTTAGC
66859932 ACTTATGTGC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
40 14 0.22
41 18 0.28
42 33 0.51
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (41 bp):
TATGAGCTTCAGTTTAACCTTTTGGGTTTCCGTTTAGCTCC
Found at i:66872504 original size:16 final size:15
Alignment explanation
Indices: 66872483--66872512 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
66872473 TTAAGAATTT
66872483 AAATAAAATAATTTTA
1 AAAT-AAATAATTTTA
66872499 AAATAAATAATTTT
1 AAATAAATAATTTT
66872513 GACACTCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATAAATAATTTTA
Found at i:66874500 original size:46 final size:46
Alignment explanation
Indices: 66874380--66874585 Score: 154
Period size: 46 Copynumber: 4.5 Consensus size: 46
66874370 TATATCTGTG
* *
66874380 CCAGACATGGTCTTACACT-G-ACACATCTCGTA-GCCGATGCATGTC
1 CCAGACAT-GTCTTACACTAGCACTCGTCTCG-AGGCCGATGCATGTC
* * *
66874425 TCAGACATGTCTTACGCTAGCTTA-T-GTCTCGAGGCCGATACATGTC
1 CCAGACATGTCTTACACTAGC--ACTCGTCTCGAGGCCGATGCATGTC
* * ** *
66874471 CCAAACATGTCTTACACTAGCACTCGTCTCAATACTGATGCCATGTC
1 CCAGACATGTCTTACACTAGCACTCGTCTCGAGGCCGATG-CATGTC
* * * * * *
66874518 CCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGCCGATGCATGTC
1 CCAGACAT-GTCTTACACTAGCACTCGT-CTCGAGGCCGATGCATGTC
*
66874565 CTAGACATGTCTTACACTAGC
1 CCAGACATGTCTTACACTAGC
66874586 TCACACGAGT
Statistics
Matches: 124, Mismatches: 27, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
44 10 0.08
45 10 0.08
46 56 0.45
47 26 0.21
48 21 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CCAGACATGTCTTACACTAGCACTCGTCTCGAGGCCGATGCATGTC
Found at i:66882050 original size:46 final size:45
Alignment explanation
Indices: 66882000--66882172 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
66881990 ATGTCGTAGT
66882000 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-CGTCTCGAGGC
* * * * **
66882046 CGATGCATGTACCAAACATGTCTTACACTAGCACTCGTCTCAATAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-TTCGTCTCGAGGC
* * * * * * *
66882092 CGATGCCATGTCCTAGACATGGTTTTACACTGGCTCTCATAAT-GTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCGT-CTCGAGGC
*
66882140 CGATGCATGTCCTAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
66882173 CACACGAGTG
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
46 55 0.54
47 26 0.26
48 19 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTCGTCTCGAGGC
Found at i:66888378 original size:24 final size:24
Alignment explanation
Indices: 66888347--66888398 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
66888337 ATTCTATATT
66888347 TTCA-TTTTTTTTAGTTTTTGATA
1 TTCATTTTTTTTTAGTTTTTGATA
66888370 TTCATTTTTTTTTAGTTTTTGATA
1 TTCATTTTTTTTTAGTTTTTGATA
66888394 TTCAT
1 TTCAT
66888399 GAAGAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.69
Consensus pattern (24 bp):
TTCATTTTTTTTTAGTTTTTGATA
Found at i:66904416 original size:37 final size:37
Alignment explanation
Indices: 66904363--66904449 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 37
66904353 TCATAGTTAG
* *
66904363 CGGGTCTCACCAGGACAAAATCTCCACACGTAGTCAT
1 CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
*
66904400 CGGGTCTTACCCGGACATAATCTCCACACGTAGTCAT
1 CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
66904437 CGGGTCTTACCCG
1 CGGGTCTTACCCG
66904450 AAATATATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (37 bp):
CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
Found at i:66904650 original size:48 final size:48
Alignment explanation
Indices: 66904592--66904723 Score: 228
Period size: 48 Copynumber: 2.8 Consensus size: 48
66904582 ATATACACAC
* *
66904592 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACAT
* *
66904640 ATCTCATACATATTTCACACTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACAT
66904688 ATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTA
66904724 ACACACACAC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACAT
Found at i:66904736 original size:48 final size:48
Alignment explanation
Indices: 66904584--66904737 Score: 227
Period size: 48 Copynumber: 3.2 Consensus size: 48
66904574 CGGCCACAAT
* * * *
66904584 ATACACACATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAA
1 ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
66904632 ATATACATATCTCATACATATTTCACACTAGTCATTCGGCTTTACCAC
1 ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
66904680 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAACAC
1 ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
66904728 ACACACATAT
1 ATACACATAT
66904738 ATATATATAT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (48 bp):
ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:66908830 original size:5 final size:5
Alignment explanation
Indices: 66908814--66908845 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
66908804 CAAATAATTC
66908814 AGAAA A-AAA AGAAA AGAAA AGAAA AGAAA AGA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGA
66908846 GATTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:66919442 original size:20 final size:20
Alignment explanation
Indices: 66919419--66919507 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
66919409 CAATCTAAAT
66919419 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
66919439 TAAAAT-C--AAATCCA-AA
1 TAAAATACTGAAATTCAGGA
*
66919455 TTAAAATACTGAAATTTAGGA
1 -TAAAATACTGAAATTCAGGA
*
66919476 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
66919496 TAAGAATACTGA
1 TAA-AATACTGA
66919508 TGTGGCATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.02
17 12 0.22
18 1 0.02
19 1 0.02
20 32 0.58
21 8 0.15
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:66919456 original size:37 final size:37
Alignment explanation
Indices: 66919403--66919482 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
66919393 TATCCTGAAA
* *
66919403 AAAATCCAATCTAAATTAAAATACTGAAATTCAGGAT
1 AAAATCAAATCCAAATTAAAATACTGAAATTCAGGAT
*
66919440 AAAATCAAATCCAAATTAAAATACTGAAATTTAGGAT
1 AAAATCAAATCCAAATTAAAATACTGAAATTCAGGAT
66919477 AAAATC
1 AAAATC
66919483 CTGAAATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.26
Consensus pattern (37 bp):
AAAATCAAATCCAAATTAAAATACTGAAATTCAGGAT
Found at i:66920633 original size:11 final size:10
Alignment explanation
Indices: 66920615--66920670 Score: 58
Period size: 10 Copynumber: 5.2 Consensus size: 10
66920605 TTGTTGTTTG
66920615 ATTTTAATTT
1 ATTTTAATTT
66920625 ATCTTTAATTTT
1 AT-TTTAA-TTT
*
66920637 ATGTTAATTT
1 ATTTTAATTT
*
66920647 AATTTAATTT
1 ATTTTAATTT
66920657 AATTCTTAATTT
1 -ATT-TTAATTT
66920669 AT
1 AT
66920671 GCTCTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 13 0.34
11 13 0.34
12 12 0.32
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
ATTTTAATTT
Found at i:66920646 original size:22 final size:23
Alignment explanation
Indices: 66920618--66920670 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
66920608 TTGTTTGATT
* * *
66920618 TTAATTTATCTTTAATTTTA-TG
1 TTAATTTATATTTAATTTAATTC
66920640 TTAATTTA-ATTTAATTTAATTC
1 TTAATTTATATTTAATTTAATTC
66920662 TTAATTTAT
1 TTAATTTAT
66920671 GCTCTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTAATTTATATTTAATTTAATTC
Found at i:66920650 original size:5 final size:5
Alignment explanation
Indices: 66920617--66920660 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
66920607 GTTGTTTGAT
* *
66920617 TTTAA TTTATC TTTAA TTTTA TGTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTA-A TTTAA TTTAA T-TTAA TTTAA TTTAA TTTAA TT
66920661 CTTAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 25 0.76
6 8 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:66920653 original size:10 final size:10
Alignment explanation
Indices: 66920617--66920660 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
66920607 GTTGTTTGAT
*
66920617 TTTAATTTATC
1 TTTAATTTA-A
*
66920628 TTTAATTTTA
1 TTTAATTTAA
66920638 TGTTAATTTAA
1 T-TTAATTTAA
66920649 TTTAATTTAA
1 TTTAATTTAA
66920659 TT
1 TT
66920661 CTTAATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 12 0.41
11 17 0.59
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTAATTTAA
Found at i:66925593 original size:39 final size:38
Alignment explanation
Indices: 66925526--66925943 Score: 575
Period size: 39 Copynumber: 10.7 Consensus size: 38
66925516 ATAAAGCATG
* * *
66925526 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
66925566 CGGGACTTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCAC-AATGCCTT
* * *
66925606 CGGGGCTTAGCCCGAATATAACACGAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* *
66925645 TGGGACTTAGCCCGGATATAACACCAGCGCGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
*
66925684 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* *
66925723 CAGGATTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
*
66925762 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* *
66925801 CAGGATTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
*
66925840 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* *
66925879 CAGGATTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
66925918 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
66925944 TTATAAAGTC
Statistics
Matches: 339, Mismatches: 32, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
39 319 0.94
40 20 0.06
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:66925655 original size:78 final size:78
Alignment explanation
Indices: 66925526--66925943 Score: 667
Period size: 78 Copynumber: 5.3 Consensus size: 78
66925516 ATAAAGCATG
* * * * *
66925526 CGGGACTTTAAGCCCGGATATAATACCAGCA-CAAAGCCTGCGGGACTTTAGCCCGGATATAACA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCATGAATGCCTTCAGGA-TTTAGCCCGGATATAACA
*
66925590 CCAGCACAAATGCCTT
63 CCAGCACGAATGCCTT
* * * ** ** *
66925606 CGGGGCTTAGCCCGAATATAACACGAGCACAAATGCCTTTGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGATTTAGCCCGGATATAACACCA
*
66925671 GCGCGAATGCCTT
66 GCACGAATGCCTT
66925684 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGATTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGATTTAGCCCGGATATAACACCA
66925749 GCACGAATGCCTT
66 GCACGAATGCCTT
66925762 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGATTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGATTTAGCCCGGATATAACACCA
66925827 GCACGAATGCCTT
66 GCACGAATGCCTT
66925840 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGATTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGATTTAGCCCGGATATAACACCA
66925905 GCACGAATGCCTT
66 GCACGAATGCCTT
66925918 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
66925944 TTATAAAGTC
Statistics
Matches: 317, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
78 300 0.95
79 12 0.04
80 5 0.02
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGATTTAGCCCGGATATAACACCA
GCACGAATGCCTT
Found at i:66928091 original size:3 final size:3
Alignment explanation
Indices: 66928077--66928111 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
66928067 CTCTTCCTTG
* *
66928077 TCA TCG TCA TCA TCA TCA TCA TCA TTA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
66928112 CTCTCCTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.03, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:66931510 original size:27 final size:27
Alignment explanation
Indices: 66931480--66931657 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
66931470 TTATTGAGCC
* *
66931480 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
66931507 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
66931534 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAAT-CAACT
** **
66931562 CGCACACTTAGTGCCGCATGGTCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
* **
66931588 CCGCACACTTAGTGC-ATCATATTCATTT
1 -CGCACACTTAGTGCTA-CATAATCAACT
* * *
66931616 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
66931643 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66931658 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:66931619 original size:82 final size:81
Alignment explanation
Indices: 66931507--66931656 Score: 212
Period size: 82 Copynumber: 1.8 Consensus size: 81
66931497 ATAATCAACT
* * **
66931507 CGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCACACTTA
66931572 GTGCCGCATGGTCAATC
65 GTGCCGCATGGTCAATC
* **
66931589 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
66931653 GTGC
65 GTGC
66931657 TGTACAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 18 0.30
82 42 0.70
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (81 bp):
CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
TGCCGCATGGTCAATC
Found at i:66939545 original size:27 final size:27
Alignment explanation
Indices: 66939515--66939692 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
66939505 ATATTGAGTC
* * * *
66939515 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
66939542 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66939569 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
66939597 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
66939624 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
66939651 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66939678 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66939693 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:66939654 original size:82 final size:81
Alignment explanation
Indices: 66939536--66939691 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
66939526 TGCTATATAA
* *
66939536 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
66939601 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
66939618 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
66939682 CACTTAGTGC
65 CACTTAGTGC
66939692 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:66941759 original size:18 final size:17
Alignment explanation
Indices: 66941720--66941762 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
66941710 GACAAGGTAC
66941720 ATAAAAAATTTATTGAA
1 ATAAAAAATTTATTGAA
66941737 ATAAAAACATTTACTT-AA
1 ATAAAAA-ATTTA-TTGAA
*
66941755 CTAAAAAA
1 ATAAAAAA
66941763 AATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 13 0.57
19 2 0.09
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAAAAATTTATTGAA
Found at i:66947429 original size:23 final size:22
Alignment explanation
Indices: 66947379--66947434 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
66947369 TTTAGTTAAA
*
66947379 ATTTAAATTTATTATATCCTTT
1 ATTTAAATTTATTATATCCTAT
* *
66947401 ATTTTAAGTTTATTTTATCCATAT
1 A-TTTAAATTTATTATATCC-TAT
66947425 ATTTAAATTT
1 ATTTAAATTT
66947435 TGAAATCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.04
23 24 0.86
24 3 0.11
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTAAATTTATTATATCCTAT
Found at i:66950455 original size:39 final size:39
Alignment explanation
Indices: 66950398--66950475 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
66950388 AAGCATACTA
* *
66950398 GAGACTCCGATCCGGATCGGCTCGGTTTATCGCTAAAAG
1 GAGACTCCGAGCCAGATCGGCTCGGTTTATCGCTAAAAG
66950437 GAGACTCCGAGCCAGATCGGCTCGGTTTATCGCTAAAAG
1 GAGACTCCGAGCCAGATCGGCTCGGTTTATCGCTAAAAG
66950476 AAGCAATTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (39 bp):
GAGACTCCGAGCCAGATCGGCTCGGTTTATCGCTAAAAG
Found at i:66951965 original size:55 final size:53
Alignment explanation
Indices: 66951886--66952010 Score: 181
Period size: 55 Copynumber: 2.4 Consensus size: 53
66951876 AACGTTTTGC
*
66951886 TTCTTTTTTT--TTTTTAA-A-GAACTATTTGGTGAAAAGTAATATTTGATTCT
1 TTCTTTTTTTCCTTTTTAATATGAACTATTTGATGAAAAGTAATATTTGATT-T
66951936 TTCTTTTTTTTCCTTTTTAATATGAACTATTTGATGAAAAGTAATATTTGATTT
1 TTC-TTTTTTTCCTTTTTAATATGAACTATTTGATGAAAAGTAATATTTGATTT
66951990 TTC--TTTTTCCTTTTTAATATG
1 TTCTTTTTTTCCTTTTTAATATG
66952011 GTGAATAATG
Statistics
Matches: 69, Mismatches: 1, Indels: 9
0.87 0.01 0.11
Matches are distributed among these distances:
50 3 0.04
51 25 0.36
53 7 0.10
54 5 0.07
55 29 0.42
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.57
Consensus pattern (53 bp):
TTCTTTTTTTCCTTTTTAATATGAACTATTTGATGAAAAGTAATATTTGATTT
Found at i:66953277 original size:21 final size:20
Alignment explanation
Indices: 66953253--66953333 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 20
66953243 TAGTTGGAGT
* *
66953253 TTAAGATTTAGCGGTTATGGG
1 TTAAGATTAAG-GGTTAAGGG
*
66953274 TTAAGAATTAAGGGTTAGGGG
1 TTAAG-ATTAAGGGTTAAGGG
*
66953295 ATAATGATTAAGGGTTAAGGG
1 TTAA-GATTAAGGGTTAAGGG
*
66953316 TTAAGGGTTAAGGGTTAA
1 TTAA-GATTAAGGGTTAA
66953334 AAGTTTATGG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
21 45 0.88
22 6 0.12
ACGTcount: A:0.32, C:0.01, G:0.35, T:0.32
Consensus pattern (20 bp):
TTAAGATTAAGGGTTAAGGG
Found at i:66953314 original size:7 final size:7
Alignment explanation
Indices: 66953265--66953333 Score: 75
Period size: 7 Copynumber: 9.9 Consensus size: 7
66953255 AAGATTTAGC
*
66953265 GGTTATG
1 GGTTAAG
66953272 GGTTAAG
1 GGTTAAG
**
66953279 AATTAAG
1 GGTTAAG
*
66953286 GGTTAGG
1 GGTTAAG
* *
66953293 GGATAAT
1 GGTTAAG
*
66953300 GATTAAG
1 GGTTAAG
66953307 GGTTAAG
1 GGTTAAG
66953314 GGTTAAG
1 GGTTAAG
66953321 GGTTAAG
1 GGTTAAG
66953328 GGTTAA
1 GGTTAA
66953334 AAGTTTATGG
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30
Consensus pattern (7 bp):
GGTTAAG
Found at i:66954498 original size:82 final size:81
Alignment explanation
Indices: 66954236--66954500 Score: 203
Period size: 75 Copynumber: 3.3 Consensus size: 81
66954226 AAAATTAAGA
* ** * *
66954236 GATTAGTGGCGTTTTTCCAAAAAACG-CTGCAAAAAACAGT-ATAATTTAA-AGAAAACGACGTC
1 GATTAGCGGCGTTTTT--AAAAAACGCCACCAAAAAA-ATTGATAGTTTAATAG-AAACGACGTC
*
66954298 GTTTTAGTTGGATATTTAGGG
62 GTTTTAGTT-GATATATAGGG
* * * * *
66954319 GATTAGCGGCATTTTT-AAAAATGCCACTGCAAAAAAGTTTATAGTTTAATAG-AACGGCGTCGT
1 GATTAGCGGCGTTTTTAAAAAACGCCAC--CAAAAAAATTGATAGTTTAATAGAAACGACGTCGT
*
66954382 TTTAGTTG---GATA-GG
64 TTTAGTTGATATATAGGG
* * * *
66954396 GAATAGTGGCGTTTATAAAAAACGCCA-CAAAAAGAATTGA-AGTTT-ATGGAAACGACGTCGTT
1 GATTAGCGGCGTTTTTAAAAAACGCCACCAAAAA-AATTGATAGTTTAATAGAAACGACGTCGTT
66954458 TTAGTTGAATATATAGGG
65 TTAGTTG-ATATATAGGG
66954476 GATTAGCGGCGTTTTTTCAAAAAAC
1 GATTAGCGGCG-TTTTT-AAAAAAC
66954501 ATTAGTGCTT
Statistics
Matches: 143, Mismatches: 24, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
74 3 0.02
75 29 0.20
76 4 0.03
77 14 0.10
78 11 0.08
79 3 0.02
80 17 0.12
81 6 0.04
82 25 0.17
83 29 0.20
84 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (81 bp):
GATTAGCGGCGTTTTTAAAAAACGCCACCAAAAAAATTGATAGTTTAATAGAAACGACGTCGTTT
TAGTTGATATATAGGG
Found at i:66956031 original size:20 final size:19
Alignment explanation
Indices: 66956008--66956046 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
66955998 CCAAACAAAT
66956008 AAAAAATAATATAATAACCC
1 AAAAAATAATATAA-AACCC
* *
66956028 AAAACATTATATAAAACCC
1 AAAAAATAATATAAAACCC
66956047 TTTTAGGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAATAATATAAAACCC
Found at i:66957332 original size:24 final size:24
Alignment explanation
Indices: 66957304--66957350 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
66957294 TTAATAAATT
*
66957304 AAATATTCTCATACGTTTTATCAC
1 AAATATTATCATACGTTTTATCAC
* *
66957328 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCATACGTTTTATCA
66957351 TTTAAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (24 bp):
AAATATTATCATACGTTTTATCAC
Found at i:66957519 original size:22 final size:24
Alignment explanation
Indices: 66957472--66957519 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
66957462 TGGATTAATA
66957472 AAAGCAAAAAGACATGTCTATATT
1 AAAGCAAAAAGACATGTCTATATT
* *
66957496 AAAGGAAAAA-ACATG-CTATTTT
1 AAAGCAAAAAGACATGTCTATATT
66957518 AA
1 AA
66957520 TTAATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 5 0.23
24 9 0.41
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (24 bp):
AAAGCAAAAAGACATGTCTATATT
Found at i:66957540 original size:19 final size:19
Alignment explanation
Indices: 66957516--66957579 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
66957506 ACATGCTATT
66957516 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTTGGA
* *
66957535 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
66957554 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTTGGA
66957574 TTAATT
1 TTAATT
66957580 TATTTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 19 0.53
20 13 0.36
21 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TTAATTAATATAATTTGGA
Found at i:66957558 original size:39 final size:39
Alignment explanation
Indices: 66957515--66957590 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
66957505 AACATGCTAT
66957515 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
66957554 TTTAATTAATATAATTTGGATTAATTTATTTAAATAT
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATAT
66957591 ATAAGAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:66957837 original size:9 final size:9
Alignment explanation
Indices: 66957691--66957840 Score: 153
Period size: 9 Copynumber: 16.7 Consensus size: 9
66957681 TATATACTGG
66957691 AACTTACAT
1 AACTTACAT
*
66957700 AACTCACAT
1 AACTTACAT
*
66957709 AATTTACACAT
1 AACTT--ACAT
*
66957720 AACTTATAT
1 AACTTACAT
*
66957729 AACTCACAT
1 AACTTACAT
66957738 AACTTACAT
1 AACTTACAT
66957747 AACTTACAT
1 AACTTACAT
*
66957756 AACTCACAT
1 AACTTACAT
*
66957765 AACTCACAT
1 AACTTACAT
*
66957774 AACTCACAT
1 AACTTACAT
66957783 AACTTACAT
1 AACTTACAT
66957792 AACTTACAT
1 AACTTACAT
66957801 AA--TACAT
1 AACTTACAT
* *
66957808 AA-GTAGAT
1 AACTTACAT
* *
66957816 ATCATATCAT
1 AACTTA-CAT
66957826 AACTTACAT
1 AACTTACAT
66957835 AACTTA
1 AACTTA
66957841 ATTATACTTA
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
7 7 0.06
8 5 0.04
9 94 0.78
10 6 0.05
11 8 0.07
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:66963339 original size:21 final size:21
Alignment explanation
Indices: 66963307--66963379 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
66963297 TAGAGCGGAT
* **
66963307 GCAGCAGTGAGGGAGGCAGTG
1 GCAGCAGCGAGGGAGGCAACG
*
66963328 GCAGTAGCGAGGGAGGCAACG
1 GCAGCAGCGAGGGAGGCAACG
**
66963349 GCAGCAGCGAGGGAGGCAAAA
1 GCAGCAGCGAGGGAGGCAACG
66963370 GCAGCAGCGA
1 GCAGCAGCGA
66963380 TGGCAGTAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.47, T:0.04
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAACG
Found at i:66963677 original size:31 final size:31
Alignment explanation
Indices: 66963612--66963697 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
66963602 TTAGATTTAA
* *
66963612 TGTTTTTTATTGTATTTTTTATGCTACATTTGC
1 TGTTTTTTATTGGA--TTTCATGCTACATTTGC
* *
66963645 TGTTTTTTATTGGATTTCATGTTATATTTGC
1 TGTTTTTTATTGGATTTCATGCTACATTTGC
** *
66963676 TGTTTTTGGTTGGATTTAATGC
1 TGTTTTTTATTGGATTTCATGC
66963698 AGGAAGGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
31 32 0.71
33 13 0.29
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.60
Consensus pattern (31 bp):
TGTTTTTTATTGGATTTCATGCTACATTTGC
Found at i:66970359 original size:39 final size:39
Alignment explanation
Indices: 66970316--66970406 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 39
66970306 AATTATGCAT
*
66970316 TAGCGGCGTTTGCACAAAAACGCCGCT-AAAACTGAGTAA
1 TAGCGGCGTTTGCAC-AAAACGCCGCTAAAAACTGAGAAA
** * *
66970355 TAGCGGCGTTTTTGGTCCAAACGCCGCTAAAAACTTAGAAA
1 TAGCGGCG--TTTGCACAAAACGCCGCTAAAAACTGAGAAA
66970396 TAGCGGCGTTT
1 TAGCGGCGTTT
66970407 TCTTAGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
39 11 0.25
40 10 0.23
41 23 0.52
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (39 bp):
TAGCGGCGTTTGCACAAAACGCCGCTAAAAACTGAGAAA
Found at i:66970580 original size:18 final size:17
Alignment explanation
Indices: 66970548--66970582 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
66970538 ATTTTCTTAT
*
66970548 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
66970565 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
66970583 AACTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:66971168 original size:18 final size:18
Alignment explanation
Indices: 66971145--66971183 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
66971135 TAATTAGTAC
66971145 ATGTTTAGAGTATTATAT
1 ATGTTTAGAGTATTATAT
*
66971163 ATGTTTATAGTATTATAT
1 ATGTTTAGAGTATTATAT
66971181 ATG
1 ATG
66971184 GTTCTAGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (18 bp):
ATGTTTAGAGTATTATAT
Found at i:66971348 original size:36 final size:37
Alignment explanation
Indices: 66971259--66971348 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 37
66971249 AATAAAAATA
* *
66971259 TTGACGTTTATGGTTTACAAATTTAGGGTATATGGAAT
1 TTGA-GTTTATGGTTTACAAATTTAAGGTATAAGGAAT
* * * *
66971297 TAGGGTTTA-GAGTTTA-AAATTTAAGGTTTAAGGTAT
1 TTGAGTTTATG-GTTTACAAATTTAAGGTATAAGGAAT
66971333 TTGAGTTTATGGTTTA
1 TTGAGTTTATGGTTTA
66971349 GTTTATAAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
36 29 0.69
37 11 0.26
38 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.44
Consensus pattern (37 bp):
TTGAGTTTATGGTTTACAAATTTAAGGTATAAGGAAT
Found at i:66972921 original size:46 final size:45
Alignment explanation
Indices: 66972854--66972944 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 45
66972844 TTCATCTAGC
66972854 AGGAATAACCACTTTCAAATGGTGCGTGGAGATCTATGCATTTTG
1 AGGAATAACCACTTTCAAATGGTGCGTGGAGATCTATGCATTTTG
*
66972899 NAGGAATGACCACTTTCAAATGGTGCGTGGAGATCTATGCATTTTG
1 -AGGAATAACCACTTTCAAATGGTGCGTGGAGATCTATGCATTTTG
66972945 CGTTACAGGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.31
Consensus pattern (45 bp):
AGGAATAACCACTTTCAAATGGTGCGTGGAGATCTATGCATTTTG
Found at i:66974455 original size:64 final size:64
Alignment explanation
Indices: 66974387--66974520 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
66974377 TAATATTTCT
* *
66974387 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATAAAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAA
* *
66974451 ATATTTCTATCACGATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAA
66974515 ATATTT
1 ATATTT
66974521 AATAAAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAA
Found at i:66974533 original size:64 final size:64
Alignment explanation
Indices: 66974400--66974534 Score: 184
Period size: 64 Copynumber: 2.1 Consensus size: 64
66974390 TTTCTATCAC
* * * * *
66974400 GATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATAAAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAAATATTTATATAAA
* *
66974464 GATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAAATATTTATATAAA
66974527 -ATATTTTA
1 GAT-TTTTA
66974535 TATAGTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
62 2 0.03
63 7 0.11
64 53 0.85
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAAATATTTATATAAA
Found at i:66974596 original size:24 final size:24
Alignment explanation
Indices: 66974568--66974638 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
66974558 ATTATTATTG
*
66974568 AAATATTCTCTTCCGTTTTATCAC
1 AAATATTATCTTCCGTTTTATCAC
* *
66974592 GAATATTAT-TGTCTGTTTTATCAC
1 AAATATTATCT-TCCGTTTTATCAC
* *
66974616 AAATATTATCGTCCATTTTATCA
1 AAATATTATCTTCCGTTTTATCA
66974639 TTTAAGTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.03
24 37 0.97
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCTTCCGTTTTATCAC
Found at i:66975561 original size:240 final size:241
Alignment explanation
Indices: 66974680--66975626 Score: 1815
Period size: 241 Copynumber: 3.9 Consensus size: 241
66974670 ATACCTTTTT
* *
66974680 AAGTTCTATCGAGCTCAATTACTATTGAATATTTATTACCATGTAGCTTGCTTGTGCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
66974745 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66974810 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
*
66974875 AACGTCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
196 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
* *
66974921 AAGTTCTATCGAGTTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTGCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
66974986 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66975051 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
66975116 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
196 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
66975162 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
66975227 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66975292 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
*
66975357 AACGTCACGTATGATGAATCTTAAAAAATTC-AAAAGACTTGAAAA
196 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
*
66975402 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
66975467 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
*
66975532 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCATAGGTGTAAC
131 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
66975597 AACGCCACGTATGATGAATCTTAAAAAATT
196 AACGCCACGTATGATGAATCTTAAAAAATT
66975627 ACTATATTCA
Statistics
Matches: 697, Mismatches: 9, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
240 236 0.34
241 461 0.66
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
Found at i:66975619 original size:481 final size:482
Alignment explanation
Indices: 66974680--66975626 Score: 1833
Period size: 481 Copynumber: 2.0 Consensus size: 482
66974670 ATACCTTTTT
*
66974680 AAGTTCTATCGAGCTCAATTACTATTGAATATTTATTACCATGTAGCTTGCTTGTGCATTAAAAT
1 AAGTTCTATCGAGCTCAATTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
66974745 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66974810 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
*
66974875 AACGTCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGTTCATT
196 AACGTCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATT
* *
66974940 TACTATTGAATATTTATTACCATGTAGCTTGCTTGTGCATTAAAATTACAACAATAGCTGACCTT
261 TACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTT
66975005 CTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTG
326 CTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTG
*
66975070 CCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAAT
391 CCTTATATCGAGCTGTAAGATATAATGGATCCTCCATAGGTGTAACAACGCCACGTATGATGAAT
66975135 CTTAAAAAATTCAAAAAGACTTGAAAA
456 CTTAAAAAATTCAAAAAGACTTGAAAA
*
66975162 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCAATTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
66975227 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66975292 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
66975357 AACGTCACGTATGATGAATCTTAAAAAATTC-AAAAGACTTGAAAAAAGTTCTATCGAGCTCATT
196 AACGTCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATT
66975421 TACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTT
261 TACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTT
66975486 CTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTG
326 CTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTG
66975551 CCTTATATCGAGCTGTAAGATATAATGGATCCTCCATAGGTGTAACAACGCCACGTATGATGAAT
391 CCTTATATCGAGCTGTAAGATATAATGGATCCTCCATAGGTGTAACAACGCCACGTATGATGAAT
66975616 CTTAAAAAATT
456 CTTAAAAAATT
66975627 ACTATATTCA
Statistics
Matches: 459, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
481 235 0.51
482 224 0.49
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (482 bp):
AAGTTCTATCGAGCTCAATTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
AACGTCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATT
TACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTT
CTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTG
CCTTATATCGAGCTGTAAGATATAATGGATCCTCCATAGGTGTAACAACGCCACGTATGATGAAT
CTTAAAAAATTCAAAAAGACTTGAAAA
Found at i:66975769 original size:9 final size:9
Alignment explanation
Indices: 66975746--66975873 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
66975736 ATTGATCATT
*
66975746 ACTTAAATA
1 ACTTACATA
*
66975755 AATTACATA
1 ACTTACATA
66975764 ACTTACATA
1 ACTTACATA
* *
66975773 ACTCATATA
1 ACTTACATA
66975782 ACTTACATA
1 ACTTACATA
*
66975791 ATTTACATAACA
1 ACTTACAT---A
66975803 ACTTACATA
1 ACTTACATA
*
66975812 ACTCACATA
1 ACTTACATA
66975821 ACTTACATA
1 ACTTACATA
*
66975830 ATTTACATA
1 ACTTACATA
*
66975839 ACTCACATA
1 ACTTACATA
*
66975848 ACGTACATAACA
1 ACTTACAT---A
66975860 ACTTACATA
1 ACTTACATA
66975869 ACTTA
1 ACTTA
66975874 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:66975815 original size:39 final size:39
Alignment explanation
Indices: 66975763--66975840 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
66975753 TAAATTACAT
*
66975763 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
66975802 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
66975841 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:66975840 original size:57 final size:57
Alignment explanation
Indices: 66975759--66975871 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
66975749 TAAATAAATT
* * **
66975759 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
66975816 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
66975872 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:66981508 original size:21 final size:21
Alignment explanation
Indices: 66981455--66981509 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
66981445 ACTTAGAGCG
* * *
66981455 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCTGCAGCGAGAGAGGCA
*
66981476 GCGGCTGCAGCGAGAGAGGCA
1 GAGGCTGCAGCGAGAGAGGCA
66981497 GAGGCATG-AGCGA
1 GAGGC-TGCAGCGA
66981510 TGGTAGCAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.49, T:0.04
Consensus pattern (21 bp):
GAGGCTGCAGCGAGAGAGGCA
Found at i:66981797 original size:31 final size:32
Alignment explanation
Indices: 66981731--66981798 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
66981721 TGGTTGTATT
* *
66981731 TTTTATGTTAAATTTGTTGTTTTTTGGCTGCA
1 TTTTATATTAAATTTGTTGTTATTTGGCTGCA
* * *
66981763 TTTTATATTATATTTGTTG-TATTTGGTTGGA
1 TTTTATATTAAATTTGTTGTTATTTGGCTGCA
66981794 TTTTA
1 TTTTA
66981799 ATGCAGGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.18, C:0.03, G:0.18, T:0.62
Consensus pattern (32 bp):
TTTTATATTAAATTTGTTGTTATTTGGCTGCA
Found at i:66981899 original size:43 final size:42
Alignment explanation
Indices: 66981873--66982035 Score: 254
Period size: 43 Copynumber: 3.8 Consensus size: 42
66981863 GTGGGAAAAG
* *
66981873 CGCCGCTAAAAGCCTTGATCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG-TTTTCCAACAAA
* *
66981916 CGCCGCTAAAAGCCTTGACCTTTTGCGGCACTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC-GTTTTCCAACAAA
*
66981959 CGCCGCTAAAAGCCTTGACCTTTTGCGGCGCTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG-TTTTCCAACAAA
66982002 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
66982036 TTTCAATAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
42 4 0.04
43 108 0.96
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTCCAACAAA
Found at i:66982001 original size:86 final size:86
Alignment explanation
Indices: 66981873--66982030 Score: 280
Period size: 86 Copynumber: 1.8 Consensus size: 86
66981863 GTGGGAAAAG
* *
66981873 CGCCGCTAAAAGCCTTGATCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCTTGACCTT
*
66981938 TTGCGGCACTTTTCCAACAAA
66 TAGCGGCACTTTTCCAACAAA
*
66981959 CGCCGCTAAAAGCCTTGACCTTTTGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCTTGACCTT
66982024 TAGCGGC
66 TAGCGGC
66982031 GTTTTTTTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCACTTTTCCAACAAA
Found at i:66991099 original size:17 final size:18
Alignment explanation
Indices: 66991069--66991114 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
66991059 ATTTAAATTG
66991069 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
66991087 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
66991103 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
66991115 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Done.