Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 74 of 325
Found at i:23237319 original size:54 final size:54
Alignment explanation
Indices: 23237259--23237446 Score: 247
Period size: 54 Copynumber: 3.5 Consensus size: 54
23237249 ACCCCTGTAA
* * * *
23237259 GGTAAAATAACTGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCACTTATGT
1 GGTAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACGGTTTTGCCCTTATGT
* * * *
23237313 GATAAAATGACAGTTTTGGCCTTATGTGGTAAAATGACGGTTTTACCCTTATGT
1 GGTAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACGGTTTTGCCCTTATGT
* *
23237367 GGCAAAATGACTA-TTTTTCCC-T-TGTGTTAAAATGACGGTTTTGCCCTTATGT
1 GGTAAAATGAC-AGTTTTGCCCTTATGTGTTAAAATGACGGTTTTGCCCTTATGT
*
23237419 GGTAAAATGACAGTTTTGCCCCTATGTG
1 GGTAAAATGACAGTTTTGCCCTTATGTG
23237447 ATGTATGTTT
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
51 1 0.01
52 45 0.39
53 2 0.02
54 65 0.57
55 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (54 bp):
GGTAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACGGTTTTGCCCTTATGT
Found at i:23237796 original size:18 final size:18
Alignment explanation
Indices: 23237770--23237806 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23237760 GGACTTGCAT
* *
23237770 ACTGCTTACTGTTATTGC
1 ACTGATTACTGTTACTGC
23237788 ACTGATTACTGTTACTGC
1 ACTGATTACTGTTACTGC
23237806 A
1 A
23237807 ATGGGCGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (18 bp):
ACTGATTACTGTTACTGC
Found at i:23239542 original size:47 final size:48
Alignment explanation
Indices: 23239489--23239696 Score: 112
Period size: 47 Copynumber: 4.4 Consensus size: 48
23239479 TGTTCATAAC
* *
23239489 AAGACCATGTCAAGACATGGCATCGGCA-T-TGATTAAGGACT-CCATGT
1 AAGACCATGTCAAGACATGGCATCGGCACTAAGA-AAAGGA-TACCATGT
** *
23239536 AAGACCACT-TCAAGATGTGGCATTGGCACTAAGAAAAGGATACCATGT
1 AAGACCA-TGTCAAGACATGGCATCGGCACTAAGAAAAGGATACCATGT
*** * * *
23239584 AAGACCATGTTTGGAACATGGCATTTGG---TAAGACAATGATACCATGT
1 AAGACCATGTCAAG-ACATGGCA-TCGGCACTAAGAAAAGGATACCATGT
*** * * *
23239631 AAGACCATGTTTGGAACATGGCATTTGG---TAAGATAAGGATATCATGT
1 AAGACCATGTCAAG-ACATGGCA-TCGGCACTAAGAAAAGGATACCATGT
* *
23239678 AAGACCATGCCAAGGCATG
1 AAGACCATGTCAAGACATG
23239697 TCATTGATAA
Statistics
Matches: 134, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
46 4 0.03
47 96 0.72
48 22 0.16
49 8 0.06
50 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (48 bp):
AAGACCATGTCAAGACATGGCATCGGCACTAAGAAAAGGATACCATGT
Found at i:23239730 original size:54 final size:54
Alignment explanation
Indices: 23239665--23240091 Score: 339
Period size: 54 Copynumber: 8.0 Consensus size: 54
23239655 TTGGTAAGAT
*
23239665 AAGGATATCATGTAAGACCATGCCAAGGCATGTCATTGATAAGTTCTATAAGGA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
* * * * *
23239719 AAGGAAATCATGTAAGTCCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGG-A
* * * *
23239775 AAGG-T-CCAATGTAAGACCATGCCAAGGCATGGCATTGGTGATTTC-ATAA-GA
1 AAGGATATC-ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
* *** *
23239826 CAAGGATACCATGTAAGACCATG-TTTGGAACATGGCATTTGGA-AAG----AT-ACG-
1 -AAGGATATCATGTAAGACCATGCCAAGG--CATGGCA-TT-GATAAGTTCTATAAGGA
*
23239877 --GG-TATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
* * * *
23239928 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGG-A
** * * * *
23239984 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGATTTC-ATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
* * * * * * * *
23240036 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
23240090 AA
1 AA
23240092 AGGTTCCCGA
Statistics
Matches: 301, Mismatches: 46, Indels: 52
0.75 0.12 0.13
Matches are distributed among these distances:
44 2 0.01
45 5 0.02
46 7 0.02
47 16 0.05
48 4 0.01
49 2 0.01
50 2 0.01
51 2 0.01
52 14 0.05
53 60 0.20
54 94 0.31
55 83 0.28
56 10 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
Found at i:23239844 original size:209 final size:209
Alignment explanation
Indices: 23239612--23240058 Score: 804
Period size: 209 Copynumber: 2.1 Consensus size: 209
23239602 TGGCATTTGG
* *
23239612 TAAGACAATGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGAAAGATAAGGATATCATG
* *
23239677 TAAGACCATGCCAAGGCATGTCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGTCCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGT
23239742 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
23239807 CATTGGTGATTTCA
196 CATTGGTGATTTCA
* *
23239821 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGAAAGATACGGGTATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGAAAGATAAGGATATCATG
*
23239886 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGT
*
23239951 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
23240016 CATTGGTGATTTCA
196 CATTGGTGATTTCA
* *
23240030 TAAGGCAAGGATACCACGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
23240059 CAAGACATGG
Statistics
Matches: 228, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
209 228 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (209 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGAAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGT
CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
CATTGGTGATTTCA
Found at i:23240217 original size:17 final size:16
Alignment explanation
Indices: 23240184--23240217 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23240174 CTTATTTAAT
*
23240184 ATTGAGATTGTAAGTA
1 ATTGAGATTATAAGTA
23240200 ATTGAGATTATCAAGTA
1 ATTGAGATTAT-AAGTA
23240217 A
1 A
23240218 GTGATAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATTGAGATTATAAGTA
Found at i:23246446 original size:25 final size:25
Alignment explanation
Indices: 23246416--23246469 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
23246406 CTGTAAACGA
* *
23246416 TAAGCTCCTCTGAGCTAAATAATGG
1 TAAGCTCCTCCGAGCTAAATAATAG
23246441 TAAGCTCCTCCGAGCTAAATAATAG
1 TAAGCTCCTCCGAGCTAAATAATAG
23246466 TAAG
1 TAAG
23246470 ATCATACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (25 bp):
TAAGCTCCTCCGAGCTAAATAATAG
Found at i:23246479 original size:25 final size:25
Alignment explanation
Indices: 23246427--23246481 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
23246417 AAGCTCCTCT
* * * *
23246427 GAGCTAAATAATGGTAAGCTCCTCC
1 GAGCTAAATAATAGTAAGATCATAC
23246452 GAGCTAAATAATAGTAAGATCATAC
1 GAGCTAAATAATAGTAAGATCATAC
23246477 GAGCT
1 GAGCT
23246482 GAGTATCAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (25 bp):
GAGCTAAATAATAGTAAGATCATAC
Found at i:23255655 original size:21 final size:20
Alignment explanation
Indices: 23255631--23255680 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 20
23255621 AGTGTCGTGG
23255631 CACAACCTGAGGATGTCGCGA
1 CACAACCTG-GGATGTCGCGA
*
23255652 CACAAGGCCTGGTATGTCGCGA
1 CACAA--CCTGGGATGTCGCGA
23255674 CATCAAC
1 CA-CAAC
23255681 TTTGTATAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.24
22 12 0.48
23 7 0.28
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (20 bp):
CACAACCTGGGATGTCGCGA
Found at i:23257546 original size:46 final size:45
Alignment explanation
Indices: 23257488--23257805 Score: 202
Period size: 46 Copynumber: 6.8 Consensus size: 45
23257478 TCACTTGTGT
* * * * *
23257488 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGACACAATATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACGAGACGA
23257534 GAGCCAGTGTAAGAC----CTGGGACATGGCATCGGCATCGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCA-CGAGACGA
* * * * *
23257577 GTGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACGAGACG-A
* * *
23257624 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGC-TGTGA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACGAGACGA
* * * * *
23257666 TGTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATG-GTTATGTGA
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACGAG--A--CGA
* * * * *
23257717 GAGCTAGTGTAAGACCATGTCCGAGACATGGCATCGGCCTCGAAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CACG-AGACGA
*
23257766 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAC
23257806 CTTACCCATG
Statistics
Matches: 217, Mismatches: 34, Indels: 40
0.75 0.12 0.14
Matches are distributed among these distances:
42 11 0.05
43 26 0.12
44 14 0.06
45 14 0.06
46 64 0.29
47 12 0.06
48 3 0.01
49 36 0.17
50 31 0.14
51 5 0.02
53 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACGAGACGA
Found at i:23257733 original size:50 final size:49
Alignment explanation
Indices: 23257671--23257804 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 49
23257661 TGAGATGTGT
* *
23257671 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGTTATG-TGAGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCG--AAGATGAGAGC
* * * *
23257721 TAGTGTAAGACCATGTC-CGAGACATGGCATCGGCCTCGAAGATGATAGC
1 CAGTGTAAGACCATGTCTAG-GACATGGCATCGGCATCGAAGATGAGAGC
*
23257770 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
23257805 CCTTACCCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
48 2 0.03
49 37 0.51
50 33 0.46
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAAGATGAGAGC
Found at i:23259315 original size:71 final size:71
Alignment explanation
Indices: 23259202--23259344 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
23259192 GAGCCATGGT
*
23259202 TTAGTTAGTTCTAGGACTAACCTAACGAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
1 TTAGTTAGTTCTAGGACTAACCTAACAAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
23259267 TAATAG
66 TAATAG
*
23259273 TTAGTTAGTTCTAGGACTAACCTAGCAAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
1 TTAGTTAGTTCTAGGACTAACCTAACAAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
23259338 TAATAG
66 TAATAG
23259344 T
1 T
23259345 GTGACGATTT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (71 bp):
TTAGTTAGTTCTAGGACTAACCTAACAAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
TAATAG
Found at i:23264524 original size:24 final size:24
Alignment explanation
Indices: 23264484--23264548 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
23264474 AGACACACGA
*
23264484 CTGTGTCGCTAGGCCGTGTGATAGC
1 CTGTGTC-CCAGGCCGTGTGATAGC
23264509 CTGTGTCCCAGGCCGTGTGATAGC
1 CTGTGTCCCAGGCCGTGTGATAGC
23264533 CTGTGTCCCAGGCCGT
1 CTGTGTCCCAGGCCGT
23264549 ATGAACCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
24 32 0.82
25 7 0.18
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (24 bp):
CTGTGTCCCAGGCCGTGTGATAGC
Found at i:23269399 original size:6 final size:6
Alignment explanation
Indices: 23269390--23269416 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23269380 GTTTGGTTCA
23269390 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
23269417 TGCTACAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:23270232 original size:26 final size:26
Alignment explanation
Indices: 23270175--23270232 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
23270165 CTAATCTATG
* * *
23270175 ATATGACTGTTATACCCCTATGAGGT
1 ATATGACGGATATACCCCTATGAGAT
* *
23270201 AAATGACGGATATACCCCTATGTGAT
1 ATATGACGGATATACCCCTATGAGAT
*
23270227 GTATGA
1 ATATGA
23270233 TTGTTTGAGC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (26 bp):
ATATGACGGATATACCCCTATGAGAT
Found at i:23270555 original size:33 final size:34
Alignment explanation
Indices: 23270494--23270558 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
23270484 GTATGCATCT
23270494 CTGATACTGTACTGAAATGGGGCTAAGGCCCATA
1 CTGATACTGTACTGAAATGGGGCTAAGGCCCATA
*
23270528 CTGATACTGTTACTG-TAT-GGGCTAAGGCCCA
1 CTGATACTG-TACTGAAATGGGGCTAAGGCCCA
23270559 CAATGATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 13 0.45
34 11 0.38
35 5 0.17
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (34 bp):
CTGATACTGTACTGAAATGGGGCTAAGGCCCATA
Found at i:23270566 original size:33 final size:34
Alignment explanation
Indices: 23270495--23270566 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
23270485 TATGCATCTC
* *
23270495 TGATACTGTACTGAAATGGGGCTAAGGCCCATAC
1 TGATACTGTACTGAAATGGGGCTAAGGCCCACAA
*
23270529 TGATACTGTTACTG-TAT-GGGCTAAGGCCCACAA
1 TGATACTG-TACTGAAATGGGGCTAAGGCCCACAA
23270562 TGATA
1 TGATA
23270567 TTGCCACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 19 0.56
34 10 0.29
35 5 0.15
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (34 bp):
TGATACTGTACTGAAATGGGGCTAAGGCCCACAA
Found at i:23273532 original size:83 final size:82
Alignment explanation
Indices: 23273390--23273618 Score: 296
Period size: 83 Copynumber: 2.7 Consensus size: 82
23273380 GCAATAAGGC
* * * * *
23273390 TGCTAGACCTTTAAGTCTGAGATTATTTCACCGGCATTACACTTGCTCGGCTCAGAGCCCGATAA
1 TGCTAGACCTTTAAGTCCGA-AATCTTTCACCGGCATTACACCTGCTAGGCTCA-AGCCCGATAA
*
23273455 TATTCACCAGCTTAAAGCT
64 TATTCACCAGCCTAAAGCT
*
23273474 TGCTAGACCTTTAAGTCCGAAATCTTTCACCGGCATTACACCTGCTAGGCCCGAAGCCCGATAAT
1 TGCTAGACCTTTAAGTCCGAAATCTTTCACCGGCATTACACCTGCTAGGCTC-AAGCCCGATAAT
23273539 ATTCACCAGCCTAAAGCT
65 ATTCACCAGCCTAAAGCT
* * * * **
23273557 TGCTATACCTTTAAGCCCGATATCATTTCACTGGCATTATGCCTGCTAGGCTCAAAGCCCGA
1 TGCTAGACCTTTAAGTCCGAAATC-TTTCACCGGCATTACACCTGCTAGGCTC-AAGCCCGA
23273619 AATTCATCAC
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
83 76 0.59
84 52 0.41
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (82 bp):
TGCTAGACCTTTAAGTCCGAAATCTTTCACCGGCATTACACCTGCTAGGCTCAAGCCCGATAATA
TTCACCAGCCTAAAGCT
Found at i:23273561 original size:41 final size:42
Alignment explanation
Indices: 23273445--23273578 Score: 121
Period size: 42 Copynumber: 3.2 Consensus size: 42
23273435 CTCGGCTCAG
**
23273445 AGCCCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTA
1 AGCCCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTCGA
* * * * * *
23273487 AGTCCGA-AATCTTTCACCGGCATTACA-CCTGCTAGGCC-CGA
1 AGCCCGATAAT-ATTCACCAGC-TTAAAGCTTGCTAGACCTCGA
* * **
23273528 AGCCCGATAATATTCACCAGCCTAAAGCTTGCTATACCTTTA
1 AGCCCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTCGA
23273570 AGCCCGATA
1 AGCCCGATA
23273579 TCATTTCACT
Statistics
Matches: 69, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
40 3 0.04
41 26 0.38
42 36 0.52
43 4 0.06
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (42 bp):
AGCCCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTCGA
Found at i:23275523 original size:14 final size:15
Alignment explanation
Indices: 23275496--23275526 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
23275486 AAATTAAGAC
23275496 ATGATACTTTCACAT
1 ATGATACTTTCACAT
23275511 ATGATAC-TTCACAT
1 ATGATACTTTCACAT
23275525 AT
1 AT
23275527 AATAAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (15 bp):
ATGATACTTTCACAT
Found at i:23279023 original size:46 final size:46
Alignment explanation
Indices: 23278973--23279145 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
23278963 TGGTTGAGCA
23278973 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23279019 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23279064 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
23279112 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
23279146 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23279129 original size:93 final size:93
Alignment explanation
Indices: 23278970--23279140 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23278960 GGATGGTTGA
* *
23278970 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23279035 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23279063 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23279128 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
23279141 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23293352 original size:20 final size:20
Alignment explanation
Indices: 23293327--23293366 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23293317 TAAATTATGT
23293327 TAGACAACTTGTACTACTCG
1 TAGACAACTTGTACTACTCG
23293347 TAGACAACTTGTACTACTCG
1 TAGACAACTTGTACTACTCG
23293367 GTTTTAAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
TAGACAACTTGTACTACTCG
Found at i:23293562 original size:30 final size:30
Alignment explanation
Indices: 23293522--23293612 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
23293512 ATTCCCAAGC
* *
23293522 TTAGGGGCAAAAGTGTAATTATGCAAAAGT
1 TTAGCGGCAAAAATGTAATTATGCAAAAGT
23293552 TTAGCGGCAAAAATGTAATTATGCAAAAGT
1 TTAGCGGCAAAAATGTAATTATGCAAAAGT
* *
23293582 TTAGCGGCAAAAATGTAATTTTGCCAAAGT
1 TTAGCGGCAAAAATGTAATTATGCAAAAGT
23293612 T
1 T
23293613 CGTATTAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (30 bp):
TTAGCGGCAAAAATGTAATTATGCAAAAGT
Found at i:23317813 original size:27 final size:27
Alignment explanation
Indices: 23317783--23317960 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23317773 ATATTAAGTC
* * *
23317783 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
23317810 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
23317838 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
23317865 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
23317892 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
23317919 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
23317946 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23317961 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:23317867 original size:55 final size:54
Alignment explanation
Indices: 23317783--23317960 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
23317773 ATATTAAGTC
* * *
23317783 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
23317838 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
23317892 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
23317946 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23317961 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:23317949 original size:81 final size:82
Alignment explanation
Indices: 23317804--23317959 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
23317794 TGCTATATAA
* *
23317804 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
23317869 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
23317886 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
23317949 ACACTTAGTGC
65 ACACTTAGTGC
23317960 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:23321678 original size:47 final size:47
Alignment explanation
Indices: 23321599--23321792 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
23321589 CATATATATT
* * * *
23321599 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
23321646 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
23321693 TCACATTTGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
23321740 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
23321787 TCACAT
1 TCACAT
23321793 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:23321719 original size:22 final size:22
Alignment explanation
Indices: 23321692--23321763 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
23321682 GCTCACATTC
23321692 ATCACATTTGCCATTCGGCCTT
1 ATCACATTTGCCATTCGGCCTT
* *
23321714 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-TGCCA--TTCGGCCTT
*
23321738 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTTGCCATTCGGCCTT
23321761 ATC
1 ATC
23321764 TCATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 13 0.34
23 7 0.18
24 8 0.21
25 10 0.26
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (22 bp):
ATCACATTTGCCATTCGGCCTT
Found at i:23326575 original size:118 final size:111
Alignment explanation
Indices: 23326351--23326563 Score: 246
Period size: 111 Copynumber: 1.9 Consensus size: 111
23326341 AAACTACATG
* * * * * * *
23326351 ATACATACTTTAACATTTCAAGCAAATATAATATAGAAAATGATAAATAACGACATAAATTGCAT
1 ATACATACATTAACATTTCAAGAAAATACAACATAGAAAATAATAAATAACAACATAAATTACAT
**
23326416 AATATACATTAACATTTCATGCTGATATAATCATAAATAACATAAT
66 AATATACATTAACATTTCATGCAAATATAATCATAAATAACATAAT
* *
23326462 ATACATACATTAACATTTCATGTAAAATACAACATAGAAAATAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCAAG-AAAATACAACATAGAAAATAAT-AA-ATAACAACATAAATTA
* *
23326527 CATAGTATATATATAATAATATTTCATGCAAATATAA
63 CATA--ATATACAT--TAACATTTCATGCAAATATAA
23326564 CTTAAAATAA
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
111 20 0.24
112 18 0.22
113 2 0.02
114 17 0.21
116 7 0.09
118 18 0.22
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (111 bp):
ATACATACATTAACATTTCAAGAAAATACAACATAGAAAATAATAAATAACAACATAAATTACAT
AATATACATTAACATTTCATGCAAATATAATCATAAATAACATAAT
Found at i:23326635 original size:43 final size:42
Alignment explanation
Indices: 23326541--23326621 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 42
23326531 GTATATATAT
23326541 AATAATATTTCATGCAAATATAACTTAAAATAACAACATAAATA
1 AATAAT-TTTCATGCAAATATAAC-TAAAATAACAACATAAATA
* *
23326585 AACAATTTTCATGCAAATAT-A-TAAAA-AATAACATAAA
1 AATAATTTTCATGCAAATATAACTAAAATAACAACATAAA
23326622 ATAACAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 10 0.29
40 5 0.14
42 1 0.03
43 14 0.40
44 5 0.14
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.28
Consensus pattern (42 bp):
AATAATTTTCATGCAAATATAACTAAAATAACAACATAAATA
Found at i:23327008 original size:14 final size:14
Alignment explanation
Indices: 23326989--23327030 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23326979 ATTTTGAAAT
23326989 TATACATAATATAA
1 TATACATAATATAA
*
23327003 TATAC--AATAAAA
1 TATACATAATATAA
*
23327015 TATAAATAATATAA
1 TATACATAATATAA
23327029 TA
1 TA
23327031 GGTAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
TATACATAATATAA
Found at i:23328777 original size:90 final size:91
Alignment explanation
Indices: 23328621--23328854 Score: 334
Period size: 90 Copynumber: 2.6 Consensus size: 91
23328611 ACTATGTTAA
* * * * *
23328621 TATCTTTGATCTTCTCCTCATCAAATACAGAGACACCAAATC-TGCTATCTTCGATCTGCTTTGA
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTTGCTATCTTCGATCTGCTTTGA
23328685 TGTAAACACACGAATGTCAGATCTGC
66 TGTAAACACACGAATGTCAGATCTGC
* * *
23328711 TATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTTTC-ATCTTCGATCTG-TTTCG
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTTGCTATCTTCGATCTGCTTT-G
*
23328774 ATGTAAACACACGAATGTTAGATCTGC
65 ATGTAAACACACGAATGTCAGATCTGC
*
23328801 TATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC-TGCT-TCTTCGAT
1 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTTGCTATCTTCGAT
23328855 TTGTTCCCTA
Statistics
Matches: 128, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
89 13 0.10
90 113 0.88
91 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (91 bp):
TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTTGCTATCTTCGATCTGCTTTGA
TGTAAACACACGAATGTCAGATCTGC
Found at i:23328844 original size:45 final size:45
Alignment explanation
Indices: 23328621--23328893 Score: 159
Period size: 45 Copynumber: 6.1 Consensus size: 45
23328611 ACTATGTTAA
* * * * * **
23328621 TATCTTTGATCTTCTCCTCATCAAATACAGAGACACCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGC
** * * * *
23328666 TATCTTCGATCTGCT--TTGATGTAA-ACACACGAATGTCAGATCTGC
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGC
* * *
23328711 TATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCT-T
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGC
** * * ** *
23328755 TCATCTTCGATCTG-T-TTCGATGTAA-ACACACGAATGTTAGATCTGC
1 T-ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGC
*
23328801 TATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGC
* * ** *
23328846 T-TCTTCGATTTGTTCCCTATC-AATAAAGAGATGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGC
23328889 TATCT
1 TATCT
23328894 ATATTGTCCC
Statistics
Matches: 169, Mismatches: 44, Indels: 31
0.69 0.18 0.13
Matches are distributed among these distances:
43 32 0.19
44 29 0.17
45 86 0.51
46 12 0.07
47 10 0.06
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGC
Found at i:23332278 original size:30 final size:30
Alignment explanation
Indices: 23332244--23332300 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23332234 CCCGAGCCTA
*
23332244 GGGCAAAAGTGAAATTATGCAAAAGTTTAG
1 GGGCAAAAATGAAATTATGCAAAAGTTTAG
* * *
23332274 GGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGCAAAAATGAAATTATGCAAAAGTT
23332301 CGTATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (30 bp):
GGGCAAAAATGAAATTATGCAAAAGTTTAG
Found at i:23339770 original size:29 final size:30
Alignment explanation
Indices: 23339723--23339781 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
23339713 TTCCCGAGCC
*
23339723 TAGGGGCAAAAGTGAAATTATGCAAAAGTT
1 TAGGGGCAAAAATGAAATTATGCAAAAGTT
* * *
23339753 TAGGGG-AAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGAAATTATGCAAAAGTT
23339782 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAATGAAATTATGCAAAAGTT
Found at i:23350807 original size:18 final size:18
Alignment explanation
Indices: 23350784--23350818 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23350774 ATGCAAATAT
*
23350784 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
23350802 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
23350819 TTTATAAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:23351058 original size:17 final size:18
Alignment explanation
Indices: 23351014--23351059 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
23351004 AAAAAAATGG
23351014 TTAATATATATAAATACAC
1 TTAATATATAT-AATACAC
*
23351033 -T-ATAGATATAATA-AC
1 TTAATATATATAATACAC
23351048 TTAATATATATA
1 TTAATATATATA
23351060 TTTATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 2 0.09
16 5 0.22
17 15 0.65
18 1 0.04
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (18 bp):
TTAATATATATAATACAC
Found at i:23351213 original size:26 final size:26
Alignment explanation
Indices: 23351173--23351250 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
23351163 TTTAAAATTT
*
23351173 TAAAATTATACATAATATAATATAAAA
1 TAAAA-TATAAATAATATAATATAAAA
*
23351200 TAAAATATAAATAATATAATATATAA
1 TAAAATATAAATAATATAATATAAAA
*
23351226 TACAAA-A-AAATAATAATAAAATAAA
1 TA-AAATATAAATAAT-ATAATATAAA
23351251 CATTTTTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
25 7 0.16
26 30 0.67
27 8 0.18
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (26 bp):
TAAAATATAAATAATATAATATAAAA
Found at i:23351244 original size:31 final size:31
Alignment explanation
Indices: 23351184--23351249 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 31
23351174 AAAATTATAC
*
23351184 ATAATATAATATAAAATAAAATATAAATAAT
1 ATAATATAATATAAAATAAAATATAAATAAA
23351215 ATAATAT-ATAATACAAA-AAAATA-ATAATAAA
1 ATAATATAAT-ATA-AAATAAAATATA-AATAAA
23351246 ATAA
1 ATAA
23351250 ACATTTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
30 3 0.10
31 25 0.81
32 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (31 bp):
ATAATATAATATAAAATAAAATATAAATAAA
Found at i:23351250 original size:5 final size:5
Alignment explanation
Indices: 23351184--23351250 Score: 55
Period size: 5 Copynumber: 13.0 Consensus size: 5
23351174 AAAATTATAC
* * * * *
23351184 ATAAT ATAAT ATAAA ATAAA ATATAA ATAAT ATAAT ATATA ATACAA A-AAA
1 ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATA-AA ATAAA
23351235 ATAATA ATAAA ATAAA
1 ATAA-A ATAAA ATAAA
23351251 CATTTTTACA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
4 3 0.06
5 38 0.72
6 12 0.23
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (5 bp):
ATAAA
Found at i:23351306 original size:30 final size:26
Alignment explanation
Indices: 23351272--23351328 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 26
23351262 ATAAATAAAG
*
23351272 TTTAAAGTAAAATAAATAGTATACAAAATA
1 TTTAAAAT-AAATAAAT--TATA-AAAATA
23351302 TTTAAAATAAATAAATTATAAAAATA
1 TTTAAAATAAATAAATTATAAAAATA
23351328 T
1 T
23351329 GTATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 4 0.15
29 8 0.31
30 7 0.27
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
TTTAAAATAAATAAATTATAAAAATA
Found at i:23355432 original size:45 final size:45
Alignment explanation
Indices: 23355135--23355432 Score: 240
Period size: 45 Copynumber: 6.6 Consensus size: 45
23355125 TAAGAAAGGA
* * * * * * *
23355135 TGCCATAGCGTCTTTCAGCTATGGTCTTAGTTCTATATATAATGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTTATTTTTGTCATGT
* * * * ** * * **
23355180 TGCCATCGCGTCTTTCAGCCATGCTCTTACTCGTTTCTGACAAAT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTTATTTTTGTCATGT
* * * *
23355225 TGCCATAGCGTTTTTCAACTATGGTCTTATTCATTTTTGTTATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTTATTTTTGTCATGT
* * * * *
23355270 T--CATAGCTTCTTTAAGCTATGGTCCTATTTGGTTTTCGTCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTT-ATTTTTGTCATGT
* * * * *
23355314 TGCCATAGCCTCTTTTAGATATGGTCTTATTGATTTTTTTCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTTATTTTTGTCATGT
* * *
23355359 TGCCATAGTGCCTTTCAGCTATAGTCTTATTTATTTTTGTCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTATTTATTTTTGTCATGT
* * *
23355404 TGCCATAGCGTATTTCAGTTATGCTCTTA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTA
23355433 CTCGTTTTCA
Statistics
Matches: 193, Mismatches: 57, Indels: 6
0.75 0.22 0.02
Matches are distributed among these distances:
43 23 0.12
44 11 0.06
45 135 0.70
46 24 0.12
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (45 bp):
TGCCATAGCGTCTTTCAGCTATGGTCTTATTTATTTTTGTCATGT
Found at i:23355432 original size:90 final size:89
Alignment explanation
Indices: 23355224--23355432 Score: 228
Period size: 89 Copynumber: 2.3 Consensus size: 89
23355214 TTCTGACAAA
* *
23355224 TTGCCATAGCGTTTTTCA-ACTATGGTCTTATTCATTTTTGTTATGTTCATAGCTTCTTTAAGCT
1 TTGCCATAGCGTATTTCAGA-TATGGTCTTATTCATTTTTGTTATGTTCATAGCTCCTTTAAGCT
* *
23355288 ATGGTCCTATTTGGTTTTCGTCATG
65 ATAGTCCTATTTGATTTTCGTCATG
* * * * *
23355313 TTGCCATAGCCTCTTTTAGATATGGTCTTATTGATTTTT-TTCATGTTGCCATAG-TGCCTTTCA
1 TTGCCATAGCGTATTTCAGATATGGTCTTATTCATTTTTGTT-ATGTT--CATAGCT-CCTTTAA
* *
23355376 GCTATAGTCTTATTT-ATTTTTGTCATG
62 GCTATAGTCCTATTTGATTTTCGTCATG
* *
23355403 TTGCCATAGCGTATTTCAGTTATGCTCTTA
1 TTGCCATAGCGTATTTCAGATATGGTCTTA
23355433 CTCGTTTTCA
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
88 2 0.02
89 38 0.38
90 37 0.37
91 23 0.23
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (89 bp):
TTGCCATAGCGTATTTCAGATATGGTCTTATTCATTTTTGTTATGTTCATAGCTCCTTTAAGCTA
TAGTCCTATTTGATTTTCGTCATG
Found at i:23355447 original size:90 final size:91
Alignment explanation
Indices: 23355279--23355450 Score: 204
Period size: 90 Copynumber: 1.9 Consensus size: 91
23355269 TTCATAGCTT
* * * * *
23355279 CTTTAAGCTATGGTCCTATTTGGTTTTCGTCATGTTGCCATAGCCTCTTTTAGATATGGTCTTAT
1 CTTTAAGCTATAGTCCTATTTGATTTTCGTCATGTTGCCATAGCCTATTTCAGATATGCTCTTAT
* **
23355344 TGATTTTTTTCATGTTGCCATAGTGC
66 CGATTTTCATCATGTTGCCATAGTGC
* * * * *
23355370 CTTTCAGCTATAGTCTTATTT-ATTTTTGTCATGTTGCCATAGCGTATTTCAGTTATGCTCTTAC
1 CTTTAAGCTATAGTCCTATTTGATTTTCGTCATGTTGCCATAGCCTATTTCAGATATGCTCTTA-
23355434 TCG-TTTTCATCATGTTG
65 TCGATTTTCATCATGTTG
23355451 GTGATAACAT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
90 47 0.70
91 20 0.30
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (91 bp):
CTTTAAGCTATAGTCCTATTTGATTTTCGTCATGTTGCCATAGCCTATTTCAGATATGCTCTTAT
CGATTTTCATCATGTTGCCATAGTGC
Found at i:23362606 original size:34 final size:33
Alignment explanation
Indices: 23362562--23362640 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
23362552 AAAAAGTCTG
* *
23362562 GGCCTAAGCCC-TTATCAGTAGCAATATCAATGTT
1 GGCCTTAGCCCGTTA-CAGTAACAATATCAATG-T
* *
23362596 GGCCTTAGCCCGTTACGGTAACAGTATCAATGT
1 GGCCTTAGCCCGTTACAGTAACAATATCAATGT
23362629 GGACCTTAGCCC
1 GG-CCTTAGCCC
23362641 AATTCAGTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 3 0.08
34 33 0.85
35 3 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (33 bp):
GGCCTTAGCCCGTTACAGTAACAATATCAATGT
Found at i:23376518 original size:44 final size:43
Alignment explanation
Indices: 23376454--23376616 Score: 197
Period size: 44 Copynumber: 3.8 Consensus size: 43
23376444 GTACTAATCG
* *
23376454 GGCCTTTGAGCCTAATAGGCTATAATGCCGGTGAAATGATATCT
1 GGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAAT-ATATCT
* * * *
23376498 GGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAAATACTATTCA
1 GGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAATA-TA-TCT
*
23376543 GGCCTTCGAGCCTAGTAGGCTATAATGCCAGTGAAATAATAT-T
1 GGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAAT-ATATCT
*
23376586 GG-CTTCGAGCCTAGTAGGCGA-AATGCCGGTG
1 GGCCTTCGAGCCTAGTAGGCTATAATGCCGGTG
23376617 GATGAATTCG
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
41 9 0.09
42 18 0.17
43 3 0.03
44 37 0.35
45 37 0.35
46 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
GGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAATATATCT
Found at i:23376563 original size:45 final size:44
Alignment explanation
Indices: 23376445--23376616 Score: 192
Period size: 45 Copynumber: 3.9 Consensus size: 44
23376435 TACCGTACGG
* * *
23376445 TACTAATCGGGCCTTTGAGCCTAATAGGCTATAATGCCGGTGAAA
1 TACTATTC-GGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
* * *
23376490 TGA-TA-TCTGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAAA
1 T-ACTATTC-GGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
*
23376534 TACTATTCAGGCCTTCGAGCCTAGTAGGCTATAATGCCAGTGAAA
1 TACTATTC-GGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
* *
23376579 TAATATT-GG-CTTCGAGCCTAGTAGGCGA-AATGCCGGTG
1 TACTATTCGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTG
23376617 GATGAATTCG
Statistics
Matches: 112, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
41 9 0.08
42 18 0.16
43 3 0.03
44 38 0.34
45 43 0.38
46 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (44 bp):
TACTATTCGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
Found at i:23395790 original size:34 final size:35
Alignment explanation
Indices: 23395737--23395836 Score: 157
Period size: 35 Copynumber: 2.9 Consensus size: 35
23395727 AATCCAACCA
*
23395737 AAACACACCAGATGCTCATAAGAGCCAATCCATCTG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCTG
*
23395773 -AACACACCAATGCTCATAAGAGCTAATCCTTCTG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCTG
*
23395807 AAACACACCAATGCTCATAAAAGCTAATCC
1 AAACACACCAATGCTCATAAGAGCTAATCC
23395837 CTTCGTAACA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
34 23 0.38
35 37 0.62
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCTG
Found at i:23395847 original size:35 final size:34
Alignment explanation
Indices: 23395738--23395850 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 34
23395728 ATCCAACCAA
* *
23395738 AACACACCAGATGCTCATAAGAGCCAATCCATC-T
1 AACACACCA-ATGCTCATAAGAGCTAATCCTTCGT
*
23395772 GAACACACCAATGCTCATAAGAGCTAATCCTTCTGA
1 -AACACACCAATGCTCATAAGAGCTAATCCTTC-GT
*
23395808 AACACACCAATGCTCATAAAAGCTAATCCCTTCGT
1 AACACACCAATGCTCATAAGAGCTAAT-CCTTCGT
23395843 AACACACC
1 AACACACC
23395851 TAAAAAAAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
34 21 0.30
35 44 0.63
36 5 0.07
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.19
Consensus pattern (34 bp):
AACACACCAATGCTCATAAGAGCTAATCCTTCGT
Found at i:23398260 original size:40 final size:39
Alignment explanation
Indices: 23398183--23398403 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 39
23398173 ACCCAAGTAT
* * *
23398183 CTTCGGGATTTAGCCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCGGATATAGTC-ACTAGCACAAATGC
* * * *
23398222 CTTCGAGTCTTAGCCTGGATAGAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCC-GGATATAGTCACTAGCACAAATGC
* *
23398262 CTTCGGGACTCAGACCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATGC
* *
23398302 CTTCGGGACTTAGCCCGGATATA-TCAACTCGCACAAATGG
1 CTTCGGGACTTAG-CCGGATATAGTC-ACTAGCACAAATGC
*
23398342 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGA-CTTAG-CCGGATATAGTCACTAGCACAAATGC
23398382 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
23398404 CATTCGAATA
Statistics
Matches: 152, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 17 0.11
40 127 0.84
41 8 0.05
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGC
Found at i:23398353 original size:120 final size:119
Alignment explanation
Indices: 23398183--23398403 Score: 329
Period size: 120 Copynumber: 1.8 Consensus size: 119
23398173 ACCCAAGTAT
*
23398183 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGCCTTCGAGTCTTAG-CCTGGATAGAGT
1 CTTCGGGACTTAGCCGGATATAACAACTCGCACAAATGCCTTCGAGTCTTAGTCC-GGATAGAGT
* *
23398247 CACTAGCATAAATGCCTTCGGGACTCAGACCGGATATAGTCGCTAGCACAAATGC
65 CACTAGCACAAAAGCCTTCGGGACTCAGACCGGATATAGTCGCTAGCACAAATGC
* * *
23398302 CTTCGGGACTTAGCCCGGATATATCAACTCGCACAAATGGCTTCG-GATCTTAGTCCGGATATAG
1 CTTCGGGACTTAG-CCGGATATAACAACTCGCACAAATGCCTTCGAG-TCTTAGTCCGGATAGAG
* *
23398366 TCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
64 TCACTAGCACAAAAGCCTTCGGGACTCAGACCGGATAT
23398404 CATTCGAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
119 13 0.14
120 76 0.84
121 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAACAACTCGCACAAATGCCTTCGAGTCTTAGTCCGGATAGAGTC
ACTAGCACAAAAGCCTTCGGGACTCAGACCGGATATAGTCGCTAGCACAAATGC
Found at i:23405411 original size:96 final size:96
Alignment explanation
Indices: 23405302--23405476 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 96
23405292 AATCCGGTAC
* ** * *
23405302 ACATAGTAGCTTGCACTTAGTACTACACACGTTACCTCACCA-TCTGATACACATAGTAGCCTGC
1 ACATAGTAGCTTGCACTCAGTACTACACACGCGA-CTCAACAGTATGATACACATAGTAGCCTGC
23405366 ACTTAGTAATACACATGTGATCGAAGTCATTG
65 ACTTAGTAATACACATGTGATCGAAGTCATTG
* * * *
23405398 ACATAGTAGCTTGCACTCAGTACTACACATGCGACTTAACAGTATGGTACACGTAGTAGCCTGCA
1 ACATAGTAGCTTGCACTCAGTACTACACACGCGACTCAACAGTATGATACACATAGTAGCCTGCA
*
23405463 CTTAGTACTACACA
66 CTTAGTAATACACA
23405477 CGTGTACTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
95 5 0.07
96 63 0.93
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (96 bp):
ACATAGTAGCTTGCACTCAGTACTACACACGCGACTCAACAGTATGATACACATAGTAGCCTGCA
CTTAGTAATACACATGTGATCGAAGTCATTG
Found at i:23408142 original size:24 final size:24
Alignment explanation
Indices: 23408110--23408159 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23408100 TATGAATACT
23408110 TAGTACTCCAGGTGATAAGGTGTG
1 TAGTACTCCAGGTGATAAGGTGTG
23408134 TAGTACTCCAGGTGATAAGGTGTG
1 TAGTACTCCAGGTGATAAGGTGTG
23408158 TA
1 TA
23408160 CTTCTACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (24 bp):
TAGTACTCCAGGTGATAAGGTGTG
Found at i:23408255 original size:16 final size:16
Alignment explanation
Indices: 23408234--23408265 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23408224 TCAACAAATC
23408234 CTGAAATGCCGAAAAG
1 CTGAAATGCCGAAAAG
*
23408250 CTGAAATGTCGAAAAG
1 CTGAAATGCCGAAAAG
23408266 TCGGAAGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.16
Consensus pattern (16 bp):
CTGAAATGCCGAAAAG
Found at i:23408884 original size:27 final size:27
Alignment explanation
Indices: 23408844--23408948 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
23408834 GTAATAAAGA
23408844 AAAATTAC-AGAAATACCCCTGATTTAC
1 AAAATTACTA-AAATACCCCTGATTTAC
** *
23408871 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACTAAAATACCCCTGATTTAC
* * **
23408898 AAAATTACT-GAATA-CCCTCGACTTGT
1 AAAATTACTAAAATACCCCT-GATTTAC
* *
23408924 AAAATTACCAAAATACCCCTAATTT
1 AAAATTACTAAAATACCCCTGATTT
23408949 GTGAAATTAC
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
25 2 0.03
26 15 0.25
27 38 0.63
28 5 0.08
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTAC
Found at i:23409032 original size:27 final size:27
Alignment explanation
Indices: 23408898--23409039 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
23408888 ATTGGTTTAC
23408898 AAAATTACTG-AATACCCTCGACTTGT
1 AAAATTACTGAAATACCCTCGACTTGT
** * *
23408924 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACTGAAATACCCTC-GACTTGT
* * * * *
23408951 GAAATTACCGAAATACCCTTGACCTAT
1 AAAATTACTGAAATACCCTCGACTTGT
* *
23408978 ACAATTACTGAAATACCCTCGACCTGT
1 AAAATTACTGAAATACCCTCGACTTGT
* *
23409005 ACAATTATTGAAATACCCTCGACTTGT
1 AAAATTACTGAAATACCCTCGACTTGT
23409032 AAAATTAC
1 AAAATTAC
23409040 CAAAATGCCC
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
26 9 0.10
27 84 0.90
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCGACTTGT
Found at i:23409038 original size:54 final size:54
Alignment explanation
Indices: 23408899--23409053 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 54
23408889 TTGGTTTACA
**
23408899 AAATTACTG-AATACCCTCGACTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAACCTGTG
* * * * * ** *
23408952 AAATTACCGAAATACCCTTGACCTATACAATTACTGAAATA-CCCTCGACCTGT-
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCT-AACCTGTG
* *
23409005 ACAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAATGCCCCTAA
1 A-AATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAA
23409054 GGGTGAGAAT
Statistics
Matches: 78, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
53 13 0.17
54 61 0.78
55 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAACCTGTG
Found at i:23425614 original size:34 final size:34
Alignment explanation
Indices: 23425563--23425666 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
23425553 GCAGTGTAAA
* * *
23425563 CAGTTTGGGCCTAAGCCC-TTATCAGTAGCAATAT
1 CAGTGTGGGCCTTAGCCCATTA-CAGTAACAATAT
* *
23425597 CAGTGTGGGCCTTAGCCCATTACGGTAACAGTAT
1 CAGTGTGGGCCTTAGCCCATTACAGTAACAATAT
* * *
23425631 CAATGTAGGCCTTAGCCCAATT-CAGT-ACAGTAT
1 CAGTGTGGGCCTTAGCCC-ATTACAGTAACAATAT
23425664 CAG
1 CAG
23425667 AAATGCAAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 9 0.15
34 44 0.75
35 6 0.10
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATTACAGTAACAATAT
Found at i:23436971 original size:16 final size:16
Alignment explanation
Indices: 23436950--23436983 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
23436940 TCAACAAATC
*
23436950 CTAAAATGCTGAAAAG
1 CTAAAATGCCGAAAAG
23436966 CTAAAATGCCGAAAAG
1 CTAAAATGCCGAAAAG
23436982 CT
1 CT
23436984 GAAAGTCTGG
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:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (16 bp):
CTAAAATGCCGAAAAG
Found at i:23437281 original size:28 final size:29
Alignment explanation
Indices: 23437220--23437288 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
23437210 TTCGGGCTAC
* *
23437220 ATGGGCCATATGAATGTGATTTGGGGCGA
1 ATGGGCCATATGAATGAGATTTGGGCCGA
*
23437249 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCGA
*
23437277 GTGGGCCATATG
1 ATGGGCCATATG
23437289 CATATATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCGA
Found at i:23437618 original size:27 final size:27
Alignment explanation
Indices: 23437588--23437712 Score: 99
Period size: 27 Copynumber: 4.7 Consensus size: 27
23437578 GTAATAAAGA
*
23437588 AAAATTACAGAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCCTGATTTAC
* * *
23437615 AAAATTATTGAAATACCCTTGGTTTAC
1 AAAATTACTGAAATACCCCTGATTTAC
* * * **
23437642 AAAATTACTG-AATACCCTTAACTTGT
1 AAAATTACTGAAATACCCCTGATTTAC
* ** * **
23437668 AAAATTGCCAAAATACCCCTAATTTGT
1 AAAATTACTGAAATACCCCTGATTTAC
*
23437695 GAAATTACTGAAATACCC
1 AAAATTACTGAAATACCC
23437713 TCGACCTGTA
Statistics
Matches: 78, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
26 18 0.23
27 60 0.77
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGATTTAC
Found at i:23437655 original size:26 final size:27
Alignment explanation
Indices: 23437588--23437660 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
23437578 GTAATAAAGA
* *
23437588 AAAATTACAGAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGATTTAC
* *
23437615 AAAATTATTGAAATACCCTTGGTTTAC
1 AAAATTACTGAAATACCCTTGATTTAC
23437642 AAAATTACTG-AATACCCTT
1 AAAATTACTGAAATACCCTT
23437661 AACTTGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 9 0.22
27 32 0.78
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGATTTAC
Found at i:23437727 original size:27 final size:27
Alignment explanation
Indices: 23437696--23437762 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
23437686 CTAATTTGTG
23437696 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* * *
23437723 CAATTA-TCGAAATACCCTTGACTTGTA
1 AAATTACT-GAAATACCCTCGACCTGTA
*
23437750 AAATTACCGAAAT
1 AAATTACTGAAAT
23437763 GCCCCTAAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:23437738 original size:54 final size:54
Alignment explanation
Indices: 23437642--23437762 Score: 127
Period size: 54 Copynumber: 2.3 Consensus size: 54
23437632 CTTGGTTTAC
* * * *
23437642 AAAATTACTG-AATACCCTTAACTTGTAAAATTGCCAAAATACCCCTAATTTGT
1 AAAATTACTGAAATACCCTCAACCTGTAAAATTACCAAAATACCCCTAACTTGT
* * * * * * *
23437695 GAAATTACTGAAATACCCTCGACCTGTACAATTATCGAAATACCCTTGACTTGT
1 AAAATTACTGAAATACCCTCAACCTGTAAAATTACCAAAATACCCCTAACTTGT
*
23437749 AAAATTACCGAAAT
1 AAAATTACTGAAAT
23437763 GCCCCTAAGG
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
53 9 0.17
54 45 0.83
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTACTGAAATACCCTCAACCTGTAAAATTACCAAAATACCCCTAACTTGT
Found at i:23438250 original size:16 final size:16
Alignment explanation
Indices: 23438229--23438260 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23438219 CCCAAAATGA
23438229 CTAATGATTGCTTTAT
1 CTAATGATTGCTTTAT
23438245 CTAATGATTGCTTTAT
1 CTAATGATTGCTTTAT
23438261 ACTTATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (16 bp):
CTAATGATTGCTTTAT
Found at i:23443902 original size:20 final size:20
Alignment explanation
Indices: 23443865--23443902 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23443855 TGTGGATTCC
**
23443865 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
23443885 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
23443903 TCCGTGGGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:23452380 original size:37 final size:37
Alignment explanation
Indices: 23452330--23452441 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
23452320 ACCTTTAGCT
* * * *
23452330 CAGACGAAATCTCCACATGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
23452367 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
** *
23452404 TGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
23452441 C
1 C
23452442 GGAATATATT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:23452702 original size:47 final size:47
Alignment explanation
Indices: 23452651--23452844 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
23452641 CATACATATT
* * * *
23452651 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATAGTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
23452698 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
23452745 TCGCATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
23452792 TCACATT-GTCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTAG-CCATTCGGCCTTATCACATATATGCATGTTCACATTCA
23452839 TCACAT
1 TCACAT
23452845 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
46 1 0.01
47 128 0.99
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:23452845 original size:25 final size:24
Alignment explanation
Indices: 23452766--23452845 Score: 58
Period size: 25 Copynumber: 3.3 Consensus size: 24
23452756 ATTTGGCCTT
**
23452766 ATCACATATATGCATGTTCACATTC
1 ATCACATATAT-CACATTCACATTC
* * *
23452791 ATCACAT-TGTC-CATTCGGCCTT-
1 ATCACATATATCACATTC-ACATTC
*
23452813 ATCTCATATATACACATTCACATTC
1 ATCACATATAT-CACATTCACATTC
23452838 ATCACATA
1 ATCACATA
23452846 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (24 bp):
ATCACATATATCACATTCACATTC
Found at i:23456663 original size:48 final size:46
Alignment explanation
Indices: 23456607--23456821 Score: 161
Period size: 46 Copynumber: 4.6 Consensus size: 46
23456597 CATTACACGC
* * * *
23456607 CATGTCCCAAATAGGTCTTATACTAGCTTCTATATCGTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATATC-T-AGGCCGATG
* **
23456655 CATGTCCCAGACATGTCTTACACTAGCTCTCGT-T-TCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TC-TATATCTAGGCCGATG
**
23456701 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATATCT--AGGCCGATG
* * * **
23456749 CATGTCCCATACATGT-TATACACTGGC-TCTCATA-CTGTGGTTGATG
1 CATGTCCCAGACATGTCT-TACACTAGCTTCT-ATATCT-AGGCCGATG
** *
23456795 CACATCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
23456822 ACACATATCA
Statistics
Matches: 133, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 63 0.47
47 5 0.04
48 59 0.44
49 3 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTAGGCCGATG
Found at i:23464346 original size:40 final size:40
Alignment explanation
Indices: 23464286--23464501 Score: 230
Period size: 40 Copynumber: 5.5 Consensus size: 40
23464276 TATTCGAATG
*
23464286 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
23464326 ATATCCGGACTAAGATCCGAAGGCATTCGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCT-AG-TGACT
* * * *
23464366 ATATTCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
23464406 ATATCCGGGCT-AGGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
23464446 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
23464486 ATATCC-GGCTAA-ATCC
1 ATATCCGGGCTAAGATCC
23464502 CAAAGATACT
Statistics
Matches: 147, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
38 3 0.02
39 10 0.07
40 126 0.86
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:23464489 original size:80 final size:80
Alignment explanation
Indices: 23464286--23464501 Score: 255
Period size: 80 Copynumber: 2.7 Consensus size: 80
23464276 TATTCGAATG
* *
23464286 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
*
23464351 TTCGTGTGAGTTGCT
66 TTCATGTGAGTTGCT
* * * * *
23464366 ATATTCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCT-AGGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
*
23464430 ATTTATGCT-AG-TGACT
65 ATTCATG-TGAGTTG-CT
* *
23464446 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGG-CTAA-ATCC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACTATATCCGGACTAAGATCC
23464502 CAAAGATACT
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
78 2 0.02
79 8 0.07
80 104 0.90
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
TTCATGTGAGTTGCT
Found at i:23464774 original size:22 final size:22
Alignment explanation
Indices: 23464734--23464775 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23464724 GAATGTGCAT
*
23464734 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
23464756 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
23464776 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:23472592 original size:40 final size:40
Alignment explanation
Indices: 23472530--23472750 Score: 247
Period size: 40 Copynumber: 5.5 Consensus size: 40
23472520 TATTCGAATG
*
23472530 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * *
23472570 ATATCCGGACTAAGATCTGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
23472610 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
23472650 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
23472690 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
23472730 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGAT-CCGAAG
23472751 ATACTTGGGT
Statistics
Matches: 153, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 134 0.88
41 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:23472733 original size:80 final size:80
Alignment explanation
Indices: 23472530--23472750 Score: 279
Period size: 80 Copynumber: 2.8 Consensus size: 80
23472520 TATTCGAATG
* * * *
23472530 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGAT-CTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGC
*
23472594 ATTTGTACGAGTTGCT
65 ATTTATACGAGTTGCT
* *
23472610 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
* *
23472675 TTTATGCTAG-TGACT
66 TTTATACGAGTTG-CT
* * *
23472690 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAG
23472751 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
79 17 0.14
80 106 0.85
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTATACGAGTTGCT
Found at i:23473018 original size:22 final size:22
Alignment explanation
Indices: 23472978--23473019 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23472968 GAATGTGCAT
*
23472978 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
23473000 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
23473020 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:23474882 original size:40 final size:40
Alignment explanation
Indices: 23474820--23475008 Score: 240
Period size: 40 Copynumber: 4.7 Consensus size: 40
23474810 TATTCGAATG
*
23474820 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * *
23474860 ATATCCGGACTAAGATCTGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
23474900 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
23474940 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
23474980 ATATCCGGGCTAAGACCCGAAGGCATTTG
1 ATATCCGGGCTAAGATCCGAAGGCATTTG
23475009 AGCGAGTTGT
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:23475023 original size:40 final size:40
Alignment explanation
Indices: 23474820--23475040 Score: 238
Period size: 40 Copynumber: 5.5 Consensus size: 40
23474810 TATTCGAATG
* * *
23474820 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGAGCTAGTGACT
* * * *
23474860 ATATCCGGACTAAGATCTGAAGGCATTTGTA-CGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTG-AGCTAG-TGACT
* * *
23474900 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGAGCTAGTGACT
*
23474940 ATATCCGGGCTAAGTCCCGAAGGCATTT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGA-GCTAGTGACT
* *
23474980 ATATCCGGGCTAAGACCCGAAGGCATTTGAGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGAGCTAG-TGACT
23475020 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
23475041 ATACTTGGGT
Statistics
Matches: 152, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 132 0.87
41 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGAGCTAGTGACT
Found at i:23475023 original size:80 final size:80
Alignment explanation
Indices: 23474820--23475040 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
23474810 TATTCGAATG
* * * *
23474820 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGAT-CTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGC
*
23474884 ATTTGTACGAGTTGCT
65 ATTTATACGAGTTGCT
* *
23474900 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
* *
23474965 TTTATGCTAG-TGACT
66 TTTATACGAGTTG-CT
* * * *
23474980 ATATCCGGGCTAAGACCCGAAGGCATTTGAGCGAGTTG-TTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAG
23475041 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 17 0.14
80 105 0.85
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTATACGAGTTGCT
Found at i:23475308 original size:22 final size:22
Alignment explanation
Indices: 23475268--23475309 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23475258 GAATGTGCAT
*
23475268 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
23475290 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
23475310 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:23496432 original size:40 final size:40
Alignment explanation
Indices: 23496367--23496485 Score: 118
Period size: 40 Copynumber: 3.0 Consensus size: 40
23496357 AAACCCGAAC
* * * *
23496367 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACTAAGCCTGCGGGACTTTAAACCCAGAT
* *
23496407 ATAATACCAGCACTAGGCCTGCGGGA-TTT-AACCCGGAT
1 ATAATACCAGCACTAAGCCTGCGGGACTTTAAACCCAGAT
* * * *
23496445 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACTA-AGCCTGCGGGACTTTAAACCCAGAT
23496485 A
1 A
23496486 CACATCAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
37 2 0.03
38 27 0.41
39 6 0.09
40 31 0.47
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (40 bp):
ATAATACCAGCACTAAGCCTGCGGGACTTTAAACCCAGAT
Found at i:23496455 original size:38 final size:40
Alignment explanation
Indices: 23496404--23496485 Score: 107
Period size: 38 Copynumber: 2.1 Consensus size: 40
23496394 TTTAAACTCA
*
23496404 GATATAATACCAGCACTA-GGCCTGCGGG-ATTTAA-CCCG
1 GATATAATACCAGCA-TATAGCCTGCGGGTATTTAAGCCCG
* *
23496442 GATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCATATAGCCTGCGGGTATTTAAGCCCG
23496482 GATA
1 GATA
23496486 CACATCAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 2 0.05
38 23 0.61
39 5 0.13
40 8 0.21
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (40 bp):
GATATAATACCAGCATATAGCCTGCGGGTATTTAAGCCCG
Found at i:23509652 original size:12 final size:12
Alignment explanation
Indices: 23509635--23509659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23509625 TAAAAATGTA
23509635 AAAATCATCAAG
1 AAAATCATCAAG
23509647 AAAATCATCAAG
1 AAAATCATCAAG
23509659 A
1 A
23509660 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:23511119 original size:13 final size:13
Alignment explanation
Indices: 23511097--23511129 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23511087 AAGGGTTTGT
23511097 TTAT-TAAACTAA
1 TTATCTAAACTAA
23511109 TTATCTAAACTAA
1 TTATCTAAACTAA
*
23511122 TTAACTAA
1 TTATCTAA
23511130 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:23514014 original size:6 final size:6
Alignment explanation
Indices: 23514005--23514056 Score: 68
Period size: 6 Copynumber: 8.5 Consensus size: 6
23513995 AATAAAATTG
* * *
23514005 AAATGA AAATAA AAATAA AAATAA AAATAA AATAAAA AAATAA GAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATAA AAATAA AAATAA
23514054 AAA
1 AAA
23514057 GATAGGAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 35 0.88
7 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:23514020 original size:12 final size:11
Alignment explanation
Indices: 23513985--23514056 Score: 63
Period size: 12 Copynumber: 5.9 Consensus size: 11
23513975 TATGTCTTTC
23513985 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
23513998 AAAATTGAAAT
1 AAAATAAAAAT
23514009 GAAAATAAAAAT
1 -AAAATAAAAAT
23514021 AAAAATAAAAAT
1 -AAAATAAAAAT
23514033 AAAATAAAAAAAT
1 AAAAT--AAAAAT
23514046 AAGAATAAAAA
1 AA-AATAAAAA
23514057 GATAGGAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 8 0.16
12 26 0.52
13 13 0.26
14 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:23522992 original size:46 final size:47
Alignment explanation
Indices: 23522886--23523007 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 47
23522876 TGTTTTCGAC
** * *
23522886 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
*
23522936 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATC-AGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTA-AT
*
23522982 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
23523008 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 1 0.02
46 33 0.52
50 30 0.47
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:23528426 original size:30 final size:30
Alignment explanation
Indices: 23528392--23528452 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23528382 TCCTTAACTC
23528392 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
23528422 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
23528452 A
1 A
23528453 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:23534930 original size:25 final size:25
Alignment explanation
Indices: 23534893--23534987 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
23534883 CTCTTTTAAT
* *
23534893 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
23534918 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
23534943 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
23534968 AACTGGGGCATAGTCCTTTT
1 AACTGGGGCAAAGCCCTTTT
23534988 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:23535221 original size:27 final size:27
Alignment explanation
Indices: 23535190--23535432 Score: 249
Period size: 27 Copynumber: 9.0 Consensus size: 27
23535180 GGGGCAAAAT
* * *
23535190 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
23535217 AGTAATTCTACCCTAC-AGGGCTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
23535244 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
23535271 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * * *
23535298 AATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
23535325 AGTAATTCTACCTTA-TAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
23535352 AGCAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
23535379 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
23535406 GATAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
23535433 AATATTTTAC
Statistics
Matches: 182, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.04
27 166 0.91
28 8 0.04
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:23535256 original size:54 final size:54
Alignment explanation
Indices: 23535192--23535433 Score: 297
Period size: 54 Copynumber: 4.5 Consensus size: 54
23535182 GGCAAAATGG
* * * * * **
23535192 TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGCTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
* * *
23535246 TATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
* * * * * *
23535300 TAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCTTATAGGGTTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
* * *
23535354 CAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
23535408 TAATTCTACCCTAC-AGAGGTATTTCA
1 TAATTCTACCCTACAAG-GGTATTTCA
23535434 ATATTTTACA
Statistics
Matches: 159, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 2 0.01
54 157 0.99
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
Found at i:23535294 original size:81 final size:80
Alignment explanation
Indices: 23535193--23535433 Score: 293
Period size: 81 Copynumber: 3.0 Consensus size: 80
23535183 GCAAAATGGT
* * * * * *
23535193 AATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGCTATTTCGGTATTTCTACCCT
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCT
* *
23535258 ACAAGGGTATTTCGGT
66 AC-AGGGTATTTCAGC
* * * * ** *
23535274 AATTCTACCTTATAGGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCTT
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCT
*
23535339 ATAGGGTTATTTCAGC
66 ACAGGG-TATTTCAGC
* *
23535355 AATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCT
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCT
23535420 ACAGAGGTATTTCA
66 ACAG-GGTATTTCA
23535434 ATATTTTACA
Statistics
Matches: 132, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
80 4 0.03
81 126 0.95
82 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (80 bp):
AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCT
ACAGGGTATTTCAGC
Found at i:23535452 original size:27 final size:27
Alignment explanation
Indices: 23535421--23535484 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
23535411 TTCTACCCTA
*
23535421 CAGAGGTATTTCAAT-ATTTTACAAAT
1 CAGAGGTATTTCAATGATTTCACAAAT
**
23535447 C-GAGAGTATTTTGATGATTTCACAAAT
1 CAGAG-GTATTTCAATGATTTCACAAAT
*
23535474 CAGGGGTATTT
1 CAGAGGTATTT
23535485 TGGTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 3 0.10
26 9 0.29
27 17 0.55
28 2 0.06
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
CAGAGGTATTTCAATGATTTCACAAAT
Found at i:23535634 original size:27 final size:27
Alignment explanation
Indices: 23535436--23535629 Score: 208
Period size: 27 Copynumber: 7.2 Consensus size: 27
23535426 GTATTTCAAT
* * * * *
23535436 ATTTTACAAATCGAGAGTATTTTGATG
1 ATTTTACAAACCAAGGGTATTTTGGTA
* * *
23535463 ATTTCACAAATCAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* * *
23535490 ATTTTACAAGCTAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* *
23535517 ATTTTACAAACCAGGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
23535544 ATTTTACAAACCAAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** * *
23535571 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** *
23535598 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
23535625 ATTTT
1 ATTTT
23535630 GTAAATCGAG
Statistics
Matches: 141, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
ATTTTACAAACCAAGGGTATTTTGGTA
Found at i:23535641 original size:27 final size:27
Alignment explanation
Indices: 23535477--23535696 Score: 155
Period size: 27 Copynumber: 8.2 Consensus size: 27
23535467 CACAAATCAG
* *
23535477 GGGTATTTTGGTAA-TTT-TACAAGCTA
1 GGGTATTTTGGTAATTTTGTA-AATCGA
** *
23535503 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTGTAAATCGA
* ** * *
23535530 GGGGTATTTTAGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTGTAAATCGA
* *
23535558 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTTGGTAATTTT-GTAAATCGA
* *
23535585 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*
23535612 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
**
23535639 GGGTGA--ACGGTAATTTTGTAAATCGA
1 GGGT-ATTTTGGTAATTTTGTAAATCGA
* *** *
23535665 AGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
23535692 GGGTA
1 GGGTA
23535697 ACACGGTAAT
Statistics
Matches: 161, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.01
26 21 0.13
27 130 0.81
28 8 0.05
29 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAATCGA
Found at i:23535642 original size:81 final size:81
Alignment explanation
Indices: 23535436--23535629 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 81
23535426 GTATTTCAAT
* * * * * * *
23535436 ATTTTACAAATCGAGAGTATTTT-GATGATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAG
1 ATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAG
*
23535500 CTAGGGGTATTTTGGTA
65 CGAGGGGTATTTTGGTA
* * *
23535517 ATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACTGAT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTAC-AAG
23535582 CGA-GGGTATTTTGGTA
65 CGAGGGGTATTTTGGTA
**
23535598 ATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTT
23535630 GTAAATCGAG
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
81 93 0.96
82 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
ATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAGC
GAGGGGTATTTTGGTA
Found at i:23535697 original size:27 final size:27
Alignment explanation
Indices: 23535622--23535910 Score: 364
Period size: 27 Copynumber: 10.7 Consensus size: 27
23535612 GGGTATTTTA
* * *
23535622 GTAATTTTGTAAATCGAGGGT-GAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
23535648 GTAATTTTGTAAATCGAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
23535675 GTAATTCTGTAAATCGAGGGTAACACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
23535702 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
23535729 ATAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
23535756 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
23535783 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* **
23535810 GTAATTTTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
23535837 GTAATTCTATTAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
23535864 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
23535891 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
23535911 CATTTCAGTA
Statistics
Matches: 230, Mismatches: 32, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
26 20 0.09
27 210 0.91
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:23535769 original size:81 final size:81
Alignment explanation
Indices: 23535622--23535910 Score: 409
Period size: 81 Copynumber: 3.6 Consensus size: 81
23535612 GGGTATTTTA
* * * * * *
23535622 GTAATTTTGTAAATCGAGGGT-GAACGGTAATTTTGTAAATCGAAGGTAAAATGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
*
23535686 AATCGAGGGTAACACG
66 AATCGAGGGTAAAACG
* ** * *
23535702 GTAATTCTATAAATCAAGGGTAAAACAATAATTCTATAAATTGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
23535767 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* *
23535783 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATT
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
23535848 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * *
23535864 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGG
23535911 CATTTCAGTA
Statistics
Matches: 185, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
80 18 0.10
81 167 0.90
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:23537972 original size:49 final size:49
Alignment explanation
Indices: 23537795--23537990 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 49
23537785 TAGCCAAAGC
* * *
23537795 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* *** * **
23537845 CATCTAACACACGTAGTAGCCTGCACTTAGTACTACACGCGTGATTGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
23537896 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
23537945 TATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
23537991 TCACAATAGA
Statistics
Matches: 115, Mismatches: 29, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
49 40 0.35
50 41 0.36
51 34 0.30
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:23548641 original size:27 final size:26
Alignment explanation
Indices: 23548624--23548693 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
23548614 ATATTAAGTC
23548624 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
* *
23548651 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
23548679 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
23548694 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:23548687 original size:28 final size:28
Alignment explanation
Indices: 23548624--23548721 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
23548614 ATATTAAGTC
*
23548624 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
23548651 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23548679 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
23548708 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23548722 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23555416 original size:13 final size:13
Alignment explanation
Indices: 23555398--23555425 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23555388 ATACCAATCA
23555398 AATGTAACACCCG
1 AATGTAACACCCG
23555411 AATGTAACACCCG
1 AATGTAACACCCG
23555424 AA
1 AA
23555426 CCCGAGACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (13 bp):
AATGTAACACCCG
Found at i:23556966 original size:29 final size:27
Alignment explanation
Indices: 23556948--23557017 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
23556938 ATATTAAGTC
23556948 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
23556975 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
23557003 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
23557018 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:23557011 original size:28 final size:28
Alignment explanation
Indices: 23556948--23557045 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
23556938 ATATTAAGTC
*
23556948 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
23556975 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23557003 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
23557032 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23557046 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23559752 original size:43 final size:42
Alignment explanation
Indices: 23559595--23559752 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
23559585 ATGTGTTATA
* * * *
23559595 GTGTAAGACCACTTTTGGGACGTTGGCATCGATTTGTGATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGAATT-TGA-TTAC
* * * * *
23559639 GTGTAAGACCATGTCTAGGATATTGGCATC-ATATATGATTTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGA-ATTTGATTAC
** *
23559681 GTGTAAGACCTTGTCTGGGACAGTGGCATCGACATTTGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGA-ATTTGATTAC
* * *
23559724 ATGTAAGACCACGTTTGGGACATAGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
23559753 TATACGAGCT
Statistics
Matches: 90, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 29 0.32
43 36 0.40
44 25 0.28
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGAATTTGATTAC
Found at i:23563638 original size:17 final size:17
Alignment explanation
Indices: 23563616--23563649 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23563606 TGGTTATATG
23563616 CCAGTCGTTTTAAAATT
1 CCAGTCGTTTTAAAATT
23563633 CCAGTCGTTTTAAAATT
1 CCAGTCGTTTTAAAATT
23563650 TTTCTAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
CCAGTCGTTTTAAAATT
Found at i:23564534 original size:20 final size:20
Alignment explanation
Indices: 23564511--23564548 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23564501 TTATACAAAA
*
23564511 ACATGAATCTATATGCAATG
1 ACATGAACCTATATGCAATG
23564531 ACATGAACCTATATGCAA
1 ACATGAACCTATATGCAA
23564549 CACTATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
ACATGAACCTATATGCAATG
Found at i:23571474 original size:40 final size:40
Alignment explanation
Indices: 23571451--23571633 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
23571441 TACTTGCTCG
* *
23571451 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
23571491 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
23571531 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
23571571 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
23571611 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
23571634 TTATCATCCA
Statistics
Matches: 137, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 136 0.99
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:23581698 original size:324 final size:325
Alignment explanation
Indices: 23581098--23581749 Score: 1117
Period size: 324 Copynumber: 2.0 Consensus size: 325
23581088 AGAAAATGGG
23581098 TCAACATGGGAAATCAACACGGCCTGGACTTCCTCACATGGGTAGTTCACACGCCCGTGTCTATT
1 TCAACATGGGAAATCAACACGGCCTGGACTTCCTCACATGGGTAGTTCACACGCCCGTGTCTATT
* *
23581163 TAGCAGATTCTAAACACAGCCTAAGCCACCTCACACGGGCCTGTCACACAGGCATGTCCCTGTCT
66 TAGCAGATTCTAAACACAGCCTAAGCCACCTCACACGGGCCTGTCACACAAGCATGTCCCTGTCG
* *
23581228 AGCCCAAGTCTAGTTCTATTCAAAAAAGACCACTCTTGAGGGTTTTGAAGCATTCTAAAGCATAT
131 AGCCCAAGTCTAGTTATATTCAAAAAAGACCACTCTTGAGGATTTTGAAGCATTCTAAAGCATAT
*
23581293 AGCAACACCCCAGGAGGTATCTAGAAAACACACACGGAGTAGGAGGGAAAGAATTCCACGAAGAA
196 AGAAACACCCCAGGAGGTATCTAGAAAACACACACGGAGTAGGAGGGAAAGAATTCCACGAAGAA
*
23581358 AGCCAATTGATCCATCTTAGAAGCTGGATTATCTTTCAAGACTGAAGATCTCCCTTCAATTTCCT
261 AGCCAATTGATCCATCTTAGAAGCCGGATTATCTTTCAAGACTGAAGATCTCCCTTCAATTTCCT
* * *
23581423 TCAACGTGGGAAATCAACATGGCCTGGACTTCCTCACATGGGTAGTTCACACGCCTGTGTCTATT
1 TCAACATGGGAAATCAACACGGCCTGGACTTCCTCACATGGGTAGTTCACACGCCCGTGTCTATT
* *
23581488 TAGCAGATTCTAAACACA-CCTAAGCCACCTCACACGGGCGTGTCACACAAGCGTGTCCCTGTCG
66 TAGCAGATTCTAAACACAGCCTAAGCCACCTCACACGGGCCTGTCACACAAGCATGTCCCTGTCG
*** *
23581552 AGCCCAAGTCTAGTTATATTTGGAAAAGGCCACTCTTGAGGATTTTGAAGCATTCTAAAGCATAT
131 AGCCCAAGTCTAGTTATATTCAAAAAAGACCACTCTTGAGGATTTTGAAGCATTCTAAAGCATAT
* *
23581617 ATAAACACCCCAGGAGGTATCTAGAAAACACACACGGAGTAGGAGGGAAGGAATTCCACGAAGAA
196 AGAAACACCCCAGGAGGTATCTAGAAAACACACACGGAGTAGGAGGGAAAGAATTCCACGAAGAA
* * *
23581682 AGGCAATTGTTCCATCTTAGAAGCCGGATTCTCTTTCAAGACTGAAGATCTCCCTTCAATTTCCT
261 AGCCAATTGATCCATCTTAGAAGCCGGATTATCTTTCAAGACTGAAGATCTCCCTTCAATTTCCT
23581747 TCA
1 TCA
23581750 GGGTTTTTTG
Statistics
Matches: 307, Mismatches: 20, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
324 227 0.74
325 80 0.26
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (325 bp):
TCAACATGGGAAATCAACACGGCCTGGACTTCCTCACATGGGTAGTTCACACGCCCGTGTCTATT
TAGCAGATTCTAAACACAGCCTAAGCCACCTCACACGGGCCTGTCACACAAGCATGTCCCTGTCG
AGCCCAAGTCTAGTTATATTCAAAAAAGACCACTCTTGAGGATTTTGAAGCATTCTAAAGCATAT
AGAAACACCCCAGGAGGTATCTAGAAAACACACACGGAGTAGGAGGGAAAGAATTCCACGAAGAA
AGCCAATTGATCCATCTTAGAAGCCGGATTATCTTTCAAGACTGAAGATCTCCCTTCAATTTCCT
Found at i:23590064 original size:40 final size:40
Alignment explanation
Indices: 23590020--23590184 Score: 208
Period size: 40 Copynumber: 4.1 Consensus size: 40
23590010 GTCTTAGCTA
* * *
23590020 GATATGGTCACTAGCATAAATGCCTTCGGGACTTATCCCG
1 GATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
* * *
23590060 GATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGACCG
1 GATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
* *
23590100 GATATAG-CAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 GATATAGTC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCG
* *
23590140 GATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCG
1 GATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
23590180 GATAT
1 GATAT
23590185 CATTCGAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.03
40 100 0.93
41 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
GATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:23598391 original size:40 final size:40
Alignment explanation
Indices: 23598296--23598515 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
23598286 ACCCAAGTAT
* * * *
23598296 CTTCGGGATTTAG-CCGGATATA-ACAACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
23598334 CTTTGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
23598374 CTTCGGGACTTAGCCCGGATATAGTCCCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
23598414 CTTCAGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
23598454 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
23598494 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
23598516 CATTCGAATA
Statistics
Matches: 150, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
38 9 0.06
39 17 0.11
40 120 0.80
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:23605032 original size:23 final size:23
Alignment explanation
Indices: 23605006--23605051 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23604996 TTGAGGGCTC
23605006 TTAGGAATTATAAAGCCCATTTA
1 TTAGGAATTATAAAGCCCATTTA
23605029 TTAGGAATTATAAAGCCCATTTA
1 TTAGGAATTATAAAGCCCATTTA
23605052 AACACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
TTAGGAATTATAAAGCCCATTTA
Found at i:23613217 original size:93 final size:92
Alignment explanation
Indices: 23613088--23613256 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
23613078 CCCCTAAGTG
*
23613088 AACTCAGACTCAACTAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 AACTCAGACTCAACTAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
23613153 AGTTCGGATGCCTAGTTACATTTCACA
66 AGTTCGGATGCCTAGTTACATTTCACA
* *
23613180 AACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCAGACTCAACT-AACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23613244 CGAGTTCGGATGC
64 CGAGTTCGGATGC
23613257 TCAACCATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
92 16 0.22
93 56 0.78
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (92 bp):
AACTCAGACTCAACTAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATTTCACA
Found at i:23613247 original size:46 final size:46
Alignment explanation
Indices: 23613082--23613253 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 46
23613072 AACCCGCCCC
* * *
23613082 TAAGTGAACTCAGACTCAACT-AACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* *
23613127 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA-TCCA
*
23613178 -CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
23613220 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23613254 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 9, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
45 22 0.21
46 36 0.34
47 28 0.27
49 1 0.01
50 3 0.03
51 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:23613710 original size:30 final size:30
Alignment explanation
Indices: 23613676--23613735 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23613666 ATTTAATACG
23613676 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
23613706 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
23613736 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:23620755 original size:92 final size:92
Alignment explanation
Indices: 23620644--23620813 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
23620634 CGCCCTAAGT
* *
23620644 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23620709 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
23620736 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23620801 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23620814 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:23620810 original size:46 final size:46
Alignment explanation
Indices: 23620639--23620810 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
23620629 TAACCCGCCC
* * *
23620639 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
23620685 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
23620731 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
23620777 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23620811 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:23620829 original size:46 final size:46
Alignment explanation
Indices: 23620641--23620829 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
23620631 ACCCGCCCTA
* ** * *
23620641 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
23620686 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
23620734 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
23620779 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
23620825 AGTGA
1 AGTGA
23620830 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:23621265 original size:30 final size:30
Alignment explanation
Indices: 23621231--23621290 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23621221 ATTTAATACG
23621231 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
23621261 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
23621291 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Done.