Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 78 of 202
Found at i:23080677 original size:13 final size:13
Alignment explanation
Indices: 23080604--23080679 Score: 59
Period size: 13 Copynumber: 5.7 Consensus size: 13
23080594 CCAAATAAGT
23080604 AATAAATAAT-AA
1 AATAAATAATAAA
23080616 AATAAAATAAAGTAATA
1 AAT-AAAT-AA-TAA-A
*
23080633 AATAAAGTAA-AGA
1 AATAAA-TAATAAA
* *
23080646 AAGAAA-AATAAT
1 AATAAATAATAAA
23080658 AATAAATAATAAA
1 AATAAATAATAAA
23080671 AATAAATAA
1 AATAAATAA
23080680 AAACAAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
11 2 0.04
12 9 0.18
13 24 0.48
14 3 0.06
15 1 0.02
16 6 0.12
17 5 0.10
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:23086185 original size:43 final size:42
Alignment explanation
Indices: 23086047--23086197 Score: 133
Period size: 42 Copynumber: 3.5 Consensus size: 42
23086037 AATGTGTTAT
** * * *
23086047 CGTGTAAGACCACATCTGGGACATTAGCATCG-ATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACAATGGCATCGTATAT--GA-TTA
* * *
23086091 TGTGTAAGACCATGTCTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCATGTCTGGGACAATGGCATCGTATATGATTA
* * *
23086133 CGTGTAAGACCCTGTCTGGGAGAATGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGACAATGGCATCG-TATATGATTA
* * *
23086176 CTTGTAAGACCACGTTTGGGAC
1 CGTGTAAGACCATGTCTGGGAC
23086198 GTTGGCATTG
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 30 0.34
43 28 0.32
44 27 0.31
45 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACAATGGCATCGTATATGATTA
Found at i:23086204 original size:43 final size:43
Alignment explanation
Indices: 23086049--23086205 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
23086039 TGTGTTATCG
* * *
23086049 TGTAAGACCACATCTGGGACATTAGCATCGAT-TTGAGATTTA-T
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGA-TTACT
* * * *
23086092 GTGTAAGACCATGTCTGGGACATTGGCGTCG-TATATGATTACG
1 -TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACT
* *
23086135 TGTAAGACC-CTGTCTGGGAGAATGGCATCGATATTTGATTACT
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTACT
* *
23086178 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
23086206 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
42 28 0.31
43 35 0.38
44 28 0.31
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACT
Found at i:23090395 original size:72 final size:73
Alignment explanation
Indices: 23090296--23090433 Score: 233
Period size: 72 Copynumber: 1.9 Consensus size: 73
23090286 TTTTCAAACT
* * *
23090296 CAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGAT-CCTT
1 CAAGTTTTAAACGATCTCGAGAATTAAGAAAACATCGTGTCCTAACTTACTGGGCATGATACCTT
23090360 TTTTTCCC
66 TTTTTCCC
*
23090368 CAAGTTTTAAACGATCTCGAGAATTAAGAAAACATCGTGTCCTAACTTACTGGGCGTGATACCTT
1 CAAGTTTTAAACGATCTCGAGAATTAAGAAAACATCGTGTCCTAACTTACTGGGCATGATACCTT
23090433 T
66 T
23090434 CTCTAAAATC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
72 56 0.92
73 5 0.08
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (73 bp):
CAAGTTTTAAACGATCTCGAGAATTAAGAAAACATCGTGTCCTAACTTACTGGGCATGATACCTT
TTTTTCCC
Found at i:23090770 original size:106 final size:107
Alignment explanation
Indices: 23090580--23090782 Score: 311
Period size: 106 Copynumber: 1.9 Consensus size: 107
23090570 AAAAATAATA
* * *
23090580 AAGGCAATATTTTGCATTTGGGAATTCGGGAAAGCGTGCCCTAATGTGTTGGGTTTCGATTTTTT
1 AAGGCAATATTTTGCATTTAGAAATTCGGGAAAGCGTGCCCTAATGTGCTGGGTTTCGATTTTTT
*
23090645 CGTTCGACCAAATAACCAAATATCCT-TTAAAATTTTAGAGT
66 CGTTCAACCAAATAACCAAATATCCTCTTAAAATTTTAGAGT
*
23090686 AAGGCAATATTTTGCGTTTAGAAATTCGAGGAAA-CGTGCCCTAATGTGCTGGGTTTCGATTTTT
1 AAGGCAATATTTTGCATTTAGAAATTCG-GGAAAGCGTGCCCTAATGTGCTGGGTTTCGATTTTT
* * *
23090750 TCGTTTAACCAAATAGCCAAATATTCTCTTAAA
65 TCGTTCAACCAAATAACCAAATATCCTCTTAAA
23090783 TCTTAATCCA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
106 77 0.89
107 10 0.11
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (107 bp):
AAGGCAATATTTTGCATTTAGAAATTCGGGAAAGCGTGCCCTAATGTGCTGGGTTTCGATTTTTT
CGTTCAACCAAATAACCAAATATCCTCTTAAAATTTTAGAGT
Found at i:23092428 original size:25 final size:25
Alignment explanation
Indices: 23092382--23092429 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23092372 CACGCCACAG
* *
23092382 CTCTTATGAGCTTCCTATTATTTAT
1 CTCTTATGAGCATCCGATTATTTAT
23092407 CTCTTATGAGCATCTCGA-TATTT
1 CTCTTATGAGCATC-CGATTATTT
23092430 GGCTCTCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (25 bp):
CTCTTATGAGCATCCGATTATTTAT
Found at i:23092435 original size:25 final size:25
Alignment explanation
Indices: 23092380--23092435 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
23092370 GACACGCCAC
* *
23092380 AGCTCTTATGAGCTTCCTATTATTT
1 AGCTCTTATGAGCATCCGATTATTT
*
23092405 ATCTCTTATGAGCATCTCGA-TATTT
1 AGCTCTTATGAGCATC-CGATTATTT
*
23092430 GGCTCT
1 AGCTCT
23092436 CACAGCTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (25 bp):
AGCTCTTATGAGCATCCGATTATTT
Found at i:23092579 original size:49 final size:48
Alignment explanation
Indices: 23092429--23092616 Score: 152
Period size: 49 Copynumber: 3.9 Consensus size: 48
23092419 TCTCGATATT
* * * *
23092429 TGGCTCTCA-CAGCTTTCCGTTTAGTGGCTCTCTTGAGCTTCCCATTTA
1 TGGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCTTCCCA-TTA
* * ** *
23092477 TGGATCAT-ATGAGCTTCCTGA-TAATTGGCTC-CCGGAGCTTCCCAATATT
1 TGGCTC-TCATGAGCTTCCCGATTAA-TGGCTCTCTTGAGCTTCCC-AT-TA
23092526 TGGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCTTCCCGATTA
1 TGGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCTTCCC-ATTA
* * * * *
23092575 TGGCTTTCATGAGTTTCCCG-TAACATGGCTCACATGAGCTTC
1 TGGCTCTCATGAGCTTCCCGATTA-ATGGCTCTCTTGAGCTTC
23092617 TTGTTATATG
Statistics
Matches: 111, Mismatches: 20, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
48 22 0.20
49 74 0.67
50 15 0.14
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (48 bp):
TGGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCTTCCCATTA
Found at i:23092587 original size:24 final size:24
Alignment explanation
Indices: 23092429--23092616 Score: 132
Period size: 25 Copynumber: 7.7 Consensus size: 24
23092419 TCTCGATATT
* * *
23092429 TGGCTCTCA-CAGCTTTCCGTTTA
1 TGGCTCTCATGAGCTTCCCGATTA
*
23092452 GTGGCTCTCTTGAGCTTCCC-ATTTA
1 -TGGCTCTCATGAGCTTCCCGA-TTA
* * *
23092477 TGGATCAT-ATGAGCTTCCTGATAA
1 TGGCTC-TCATGAGCTTCCCGATTA
** * *
23092501 TTGGCTC-CCGGAGCTTCCCAATATT
1 -TGGCTCTCATGAGCTTCCCGAT-TA
23092526 TGGCTCTCATGAGCTTCCCGATTAA
1 TGGCTCTCATGAGCTTCCCGATT-A
*
23092551 TGGCTCTCTTGAGCTTCCCGATTA
1 TGGCTCTCATGAGCTTCCCGATTA
* * **
23092575 TGGCTTTCATGAGTTTCCCGTAACA
1 TGGCTCTCATGAGCTTCCCG-ATTA
*
23092600 TGGCTCACATGAGCTTC
1 TGGCTCTCATGAGCTTC
23092617 TTGTTATATG
Statistics
Matches: 126, Mismatches: 28, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
24 59 0.47
25 67 0.53
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGATTA
Found at i:23096006 original size:18 final size:18
Alignment explanation
Indices: 23095979--23096019 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
23095969 ACGAATAATT
23095979 AATAAATACAAATAAG-C
1 AATAAATACAAATAAGAC
*
23095996 AATACAATACACATAAGAC
1 AATA-AATACAAATAAGAC
23096015 AATAA
1 AATAA
23096020 GCTCACATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.63, C:0.15, G:0.05, T:0.17
Consensus pattern (18 bp):
AATAAATACAAATAAGAC
Found at i:23096198 original size:14 final size:14
Alignment explanation
Indices: 23096179--23096205 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23096169 CATACATGTA
23096179 TAATAAAAATAGTT
1 TAATAAAAATAGTT
23096193 TAATAAAAATAGT
1 TAATAAAAATAGT
23096206 ATATCTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
TAATAAAAATAGTT
Found at i:23098159 original size:50 final size:49
Alignment explanation
Indices: 23098105--23098264 Score: 130
Period size: 50 Copynumber: 3.2 Consensus size: 49
23098095 CGCCATCATG
23098105 GCTTTAATCTGTTCCACTACACCGCCAGGAAAGTAAGATTCGCTGTTGTA
1 GCTTTAATCTGTTCCACTACACCGCC-GGAAAGTAAGATTCGCTGTTGTA
* ** * * * * * *
23098155 GCTTTAATCTTTTTAACTGCAATTTCG-GGGAAA-CAGGATTCG-TCGTTAT-
1 GCTTTAATCTGTTCCACTAC-A--CCGCCGGAAAGTAAGATTCGCT-GTTGTA
* *
23098204 GACTTTAATTTGTTCCACTACACCGCCTGAGAAGTAAGATTCGCTGTTGTA
1 G-CTTTAATCTGTTCCACTACACCGCCGGA-AAGTAAGATTCGCTGTTGTA
23098255 GCTTTAATCT
1 GCTTTAATCT
23098265 TTCTAACTGC
Statistics
Matches: 79, Mismatches: 21, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
47 2 0.03
48 2 0.03
49 5 0.06
50 60 0.76
51 8 0.10
53 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (49 bp):
GCTTTAATCTGTTCCACTACACCGCCGGAAAGTAAGATTCGCTGTTGTA
Found at i:23098293 original size:50 final size:50
Alignment explanation
Indices: 23098139--23098314 Score: 137
Period size: 50 Copynumber: 3.5 Consensus size: 50
23098129 CCAGGAAAGT
* * *
23098139 AAGATTCGCTGTTGT-AGCTTTAATCTTTTTAACTGCAATTTCGGGGAAAC
1 AAGATTCGCTGTTGTGA-CTTTAATCTTTCTAACTGCAATGTCGGGAAAAC
* * * * * ** ** **
23098189 AGGATTCG-TCGTTATGACTTTAATTTGTTC-CACTACACCG-CCTGAGAAGT
1 AAGATTCGCT-GTTGTGACTTTAATCT-TTCTAACTGCAATGTCGGGA-AAAC
23098239 AAGATTCGCTGTTGT-AGCTTTAATCTTTCTAACTGCAATGTCGGGAAAAC
1 AAGATTCGCTGTTGTGA-CTTTAATCTTTCTAACTGCAATGTCGGGAAAAC
*
23098289 AAGATTCGCCGTTGTGACTTTAATCT
1 AAGATTCGCTGTTGTGACTTTAATCT
23098315 GCTCACCACA
Statistics
Matches: 91, Mismatches: 26, Indels: 18
0.67 0.19 0.13
Matches are distributed among these distances:
49 7 0.08
50 76 0.84
51 8 0.09
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (50 bp):
AAGATTCGCTGTTGTGACTTTAATCTTTCTAACTGCAATGTCGGGAAAAC
Found at i:23098296 original size:100 final size:97
Alignment explanation
Indices: 23097966--23098342 Score: 373
Period size: 100 Copynumber: 3.8 Consensus size: 97
23097956 CTTCAGTCTG
* * * * * * *
23097966 TTTAACTGCAATGTCGGGGAAATAAGATTCACTGTTGT-AGCTTTAATCTATTCCACTGCACCGT
1 TTTAACTGCAATATC-GGGAAACAAGATTCGCCGTTATGA-CTTTAATCTGTTCCACTACACCG-
** * * * *
23098030 CAAGGAAGTAAAATTTG-TCGTTGTGGCTTCAATCT
63 CCTGGAAGTAAGATTCGCT-GTTGTAGCTTTAATCT
* * * *
23098065 ATTTAATTGCAATATCAGGGAAACAAGATTCGCCATCATGGCTTTAATCTGTTCCACTACACCGC
1 -TTTAACTGCAATATC-GGGAAACAAGATTCGCCGTTATGACTTTAATCTGTTCCACTACACCGC
*
23098130 CAGGAAAGTAAGATTCGCTGTTGTAGCTTTAATCTT
64 CTGG-AAGTAAGATTCGCTGTTGTAGCTTTAATC-T
* * * *
23098166 TTTAACTGCAATTTCGGGGAAACAGGATTCGTCGTTATGACTTTAATTTGTTCCACTACACCGCC
1 TTTAACTGCAATATC-GGGAAACAAGATTCGCCGTTATGACTTTAATCTGTTCCACTACACCGCC
23098231 TGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCT
65 TG-GAAGTAAGATTCGCTGTTGTAGCTTTAATCT
* * * *
23098265 TTCTAACTGCAATGTCGGGAAAACAAGATTCGCCGTTGTGACTTTAATCTGCT-CACCACACCGC
1 TT-TAACTGCAATATCGGG-AAACAAGATTCGCCGTTATGACTTTAATCTGTTCCACTACACCGC
*
23098329 TTGGGAAGTAAGAT
64 CT-GGAAGTAAGAT
23098343 CTGTAATTCT
Statistics
Matches: 234, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
99 31 0.13
100 200 0.85
101 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (97 bp):
TTTAACTGCAATATCGGGAAACAAGATTCGCCGTTATGACTTTAATCTGTTCCACTACACCGCCT
GGAAGTAAGATTCGCTGTTGTAGCTTTAATCT
Found at i:23098791 original size:132 final size:132
Alignment explanation
Indices: 23098460--23098800 Score: 538
Period size: 132 Copynumber: 2.6 Consensus size: 132
23098450 ACCGTAATAT
* * * *
23098460 CAGGGAAATAGGATAACTGGCTTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCCACCAT
1 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCAT
* * *
23098525 ATTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATCTTCAATTTATTCCACTACTA
66 CTTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACCACTA
23098590 CC
131 CC
*
23098592 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCCCCAT
1 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCAT
* * *
23098657 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACCGCTG
66 CTTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACCACTA
23098722 CC
131 CC
* ** *
23098724 CAGGGAGATAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCTAT
1 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCAT
*
23098789 CTTCGATCTGCT
66 CTTTGATCTGCT
23098801 TTGCCGTCAG
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 193 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (132 bp):
CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCAT
CTTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACCACTA
CC
Found at i:23098904 original size:88 final size:88
Alignment explanation
Indices: 23098788--23099014 Score: 348
Period size: 88 Copynumber: 2.6 Consensus size: 88
23098778 AAATCTGCTA
* * *
23098788 TCTTCGATCTGCTTTGCCGTC-AGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTG
1 TCTTCGATCTGCTTCGCTGTCTA-TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACAG
* *
23098852 CAACTGAGGGAGGCAAGGCTGGTG
65 CAACCGAGGGAGGCAAGGCTGGGG
* * *
23098876 TCTTCGATCTGCTTCGCTGTCTACACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACAGC
1 TCTTCGATCTGCTTCGCTGTCTATACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACAGC
23098941 AACCGAGGGAGGCAAGGCTGGGG
66 AACCGAGGGAGGCAAGGCTGGGG
* *
23098964 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAAATCTGCTATCTTCA
1 TCTTCGATCTGCTTCGCTGTCTATACAGGAAGGCAAGATCTGCTATCTTCA
23099015 CTGATCTATT
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
88 125 0.99
89 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCTATACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACAGC
AACCGAGGGAGGCAAGGCTGGGG
Found at i:23098910 original size:44 final size:43
Alignment explanation
Indices: 23098862--23098999 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 43
23098852 CAACTGAGGG
23098862 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCTACACAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCTAC-CAGGA
* * * * * * * * * * *
23098906 AGGCAAGATCTGCTATTTTCAACCTGCTCCACAG-CAACCGAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCTACC-AGGA
* *
23098950 AGGCAAGGCTGGGGTCTTCGATCTGCTTCGCTGTCTATGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCTA-CCAGGA
23098994 AGGCAA
1 AGGCAA
23099000 AATCTGCTAT
Statistics
Matches: 66, Mismatches: 24, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
43 17 0.26
44 31 0.47
45 18 0.27
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (43 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCTACCAGGA
Found at i:23101231 original size:30 final size:30
Alignment explanation
Indices: 23101197--23101253 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
23101187 TATTTTTTCA
23101197 TTTTCATTTTTTG-TTTCAACTTTGATTGAT
1 TTTTC-TTTTTTGCTTTCAACTTTGATTGAT
**
23101227 TTTTCTTTTTTGCTTTTGACTTTGATT
1 TTTTCTTTTTTGCTTTCAACTTTGATT
23101254 TTTTTTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.12, C:0.11, G:0.11, T:0.67
Consensus pattern (30 bp):
TTTTCTTTTTTGCTTTCAACTTTGATTGAT
Found at i:23102068 original size:25 final size:25
Alignment explanation
Indices: 23102018--23102083 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
23102008 AAGAAAGTCC
* *
23102018 AAAAGAATGAAATAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
*
23102043 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
23102068 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
23102084 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:23105862 original size:18 final size:18
Alignment explanation
Indices: 23105835--23105875 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
23105825 ACGAATAATT
23105835 AATAAATACAAATAA-AC
1 AATAAATACAAATAAGAC
*
23105852 AATACAATACACATAAGAC
1 AATA-AATACAAATAAGAC
23105871 AATAA
1 AATAA
23105876 GCTCACATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (18 bp):
AATAAATACAAATAAGAC
Found at i:23106054 original size:14 final size:14
Alignment explanation
Indices: 23106035--23106061 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23106025 CATATATGTA
23106035 TAATAAAAATAGTT
1 TAATAAAAATAGTT
23106049 TAATAAAAATAGT
1 TAATAAAAATAGT
23106062 ATATCTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
TAATAAAAATAGTT
Found at i:23107225 original size:11 final size:11
Alignment explanation
Indices: 23107209--23107234 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23107199 TTTACAGAGG
23107209 AAAAATAAAAT
1 AAAAATAAAAT
23107220 AAAAATAAAAT
1 AAAAATAAAAT
23107231 AAAA
1 AAAA
23107235 GGAAAATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:23116303 original size:5 final size:5
Alignment explanation
Indices: 23116293--23116326 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
23116283 GTTGATAAAG
23116293 AAAAT AAAAT -AAAT AAATAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AAAA
23116327 ACATAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:23118270 original size:20 final size:20
Alignment explanation
Indices: 23118227--23118285 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
23118217 TTGTACAGGT
*
23118227 TTGCACTTCGGTGCCTCTAA
1 TTGCACTTTGGTGCCTCTAA
* **
23118247 TTGCA-TATTTGTGCCTCTGT
1 TTGCACT-TTGGTGCCTCTAA
23118267 TTGCACTTTGGTGCCTCTA
1 TTGCACTTTGGTGCCTCTA
23118286 TTAAGTGTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTAA
Found at i:23122458 original size:22 final size:22
Alignment explanation
Indices: 23122430--23122582 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
23122420 TGTTGATAGT
*
23122430 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
23122452 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
23122474 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
23122496 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
23122518 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
23122540 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
23122562 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
23122583 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:23129494 original size:19 final size:19
Alignment explanation
Indices: 23129470--23129507 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
23129460 ATCAAAAGTT
23129470 TTATTTAATTTA-TATTTTA
1 TTATTT-ATTTACTATTTTA
23129489 TTATTTATTTACTATTTTA
1 TTATTTATTTACTATTTTA
23129508 CCCTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTATTTACTATTTTA
Found at i:23131630 original size:15 final size:14
Alignment explanation
Indices: 23131603--23131660 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
23131593 AAAAACATAA
*
23131603 TTTTCCTTGAATTT
1 TTTTCCATGAATTT
23131617 TTTTCTCATGAATTT
1 TTTTC-CATGAATTT
*
23131632 TTTTCCACGAATTT
1 TTTTCCATGAATTT
23131646 TTTT--A-GAATTT
1 TTTTCCATGAATTT
23131657 TTTT
1 TTTT
23131661 AGAATCTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
11 10 0.24
12 1 0.02
14 17 0.41
15 13 0.32
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.62
Consensus pattern (14 bp):
TTTTCCATGAATTT
Found at i:23131659 original size:10 final size:11
Alignment explanation
Indices: 23131626--23131665 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
23131616 TTTTTCTCAT
23131626 GAATTTTTTTCCA
1 GAATTTTTTT--A
23131639 CGAATTTTTTTA
1 -GAATTTTTTTA
23131651 GAATTTTTTTA
1 GAATTTTTTTA
23131662 GAAT
1 GAAT
23131666 CTCAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 15 0.58
12 1 0.04
14 10 0.38
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (11 bp):
GAATTTTTTTA
Found at i:23131736 original size:12 final size:12
Alignment explanation
Indices: 23131714--23131747 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23131704 CTTTGAACAT
*
23131714 TTTTTTGAACTA
1 TTTTTTAAACTA
*
23131726 TTTTTTAAACTC
1 TTTTTTAAACTA
23131738 TTTTTTAAAC
1 TTTTTTAAAC
23131748 ACAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.03, T:0.59
Consensus pattern (12 bp):
TTTTTTAAACTA
Found at i:23139077 original size:12 final size:12
Alignment explanation
Indices: 23139060--23139087 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23139050 CTTATCAAGG
23139060 TAAATATTATAT
1 TAAATATTATAT
23139072 TAAATATTATAT
1 TAAATATTATAT
23139084 TAAA
1 TAAA
23139088 CAATATGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAAATATTATAT
Found at i:23145078 original size:14 final size:14
Alignment explanation
Indices: 23145061--23145102 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
23145051 ATCGAAATTC
23145061 ACATTAATTTTTCA
1 ACATTAATTTTTCA
*
23145075 ACATTAATTTTCCA
1 ACATTAATTTTTCA
23145089 A-ATTAATTTTTCA
1 ACATTAATTTTTCA
23145102 A
1 A
23145103 GAAAATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (14 bp):
ACATTAATTTTTCA
Found at i:23150921 original size:33 final size:33
Alignment explanation
Indices: 23150879--23150944 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
23150869 AAATGTCAAA
23150879 GTATAGGGGCATTTTGATAATTTTCTATTCTCC
1 GTATAGGGGCATTTTGATAATTTTCTATTCTCC
23150912 GTATAGGGGCATTTTGATAATTTTCTATTCTCC
1 GTATAGGGGCATTTTGATAATTTTCTATTCTCC
23150945 TCAATTTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (33 bp):
GTATAGGGGCATTTTGATAATTTTCTATTCTCC
Found at i:23153514 original size:31 final size:32
Alignment explanation
Indices: 23153476--23153537 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
23153466 GTTTTTAGAT
23153476 AAATTTGATCC-CCAACCTTT-AAAAAAGAGTA
1 AAATTTGA-CCACCAACCTTTAAAAAAAGAGTA
23153507 AAATTTGACCACCAACCTTTAAAAAAAGAGT
1 AAATTTGACCACCAACCTTTAAAAAAAGAGT
23153538 TGAATTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 2 0.07
31 17 0.59
32 10 0.34
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (32 bp):
AAATTTGACCACCAACCTTTAAAAAAAGAGTA
Found at i:23159452 original size:9 final size:9
Alignment explanation
Indices: 23159434--23159553 Score: 82
Period size: 9 Copynumber: 13.0 Consensus size: 9
23159424 AAAAACATAA
*
23159434 TTTATTATT
1 TTTATAATT
23159443 TTTATAA-T
1 TTTATAATT
*
23159451 TTTATTATT
1 TTTATAATT
* *
23159460 TATTATGACT
1 T-TTATAATT
* *
23159470 TTAATTAACT
1 TTTA-TAATT
23159480 TTTAT-ATT
1 TTTATAATT
*
23159488 TTTATAAAT
1 TTTATAATT
23159497 TTTATAATT
1 TTTATAATT
*
23159506 TTAATTAATT
1 TTTA-TAATT
*
23159516 TTTAATGATT
1 TTT-ATAATT
23159526 TTTATAATT
1 TTTATAATT
* *
23159535 TTTTTATGTT
1 TTTATA-ATT
23159545 TTTATAATT
1 TTTATAATT
23159554 CTAGGATGAA
Statistics
Matches: 86, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
8 14 0.16
9 36 0.42
10 35 0.41
11 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:23159456 original size:17 final size:17
Alignment explanation
Indices: 23159430--23159519 Score: 74
Period size: 17 Copynumber: 5.1 Consensus size: 17
23159420 TGGAAAAAAC
23159430 ATAA-TTTATTATTTTT
1 ATAATTTTATTATTTTT
23159446 ATAATTTTATTATTTATT
1 ATAATTTTATTATTT-TT
* * *
23159464 ATGACTTTAATTAACTTTT
1 AT-AATTTTATT-ATTTTT
* * *
23159483 ATATTTTTATAAATTTT
1 ATAATTTTATTATTTTT
23159500 ATAATTTTAATTAATTTTT
1 ATAATTTT-ATT-ATTTTT
23159519 A
1 A
23159520 ATGATTTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
16 4 0.07
17 22 0.38
18 12 0.21
19 17 0.29
20 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (17 bp):
ATAATTTTATTATTTTT
Found at i:23159509 original size:36 final size:36
Alignment explanation
Indices: 23159442--23159537 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
23159432 AATTTATTAT
* * *
23159442 TTTTATAATTTTATTATTTATTATGACTTTAATTAAC
1 TTTTATATTTTTATAATTT-TTATAACTTTAATTAAC
* * *
23159479 TTTTATATTTTTATAAATTTTATAATTTTAATTAAT
1 TTTTATATTTTTATAATTTTTATAACTTTAATTAAC
23159515 TTTTAATGATTTTTATAATTTTT
1 TTTT-AT-ATTTTTATAATTTTT
23159538 TTATGTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 18 0.36
37 18 0.36
38 14 0.28
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (36 bp):
TTTTATATTTTTATAATTTTTATAACTTTAATTAAC
Found at i:23159533 original size:19 final size:18
Alignment explanation
Indices: 23159434--23159553 Score: 84
Period size: 19 Copynumber: 6.5 Consensus size: 18
23159424 AAAAACATAA
* *
23159434 TTTATTATTTTTAT-AAT
1 TTTATAATTTTTATGATT
* *
23159451 TTTATTATTTATTATGACT
1 TTTATAATTT-TTATGATT
* *
23159470 TTAATTAACTTTTAT-ATT
1 TTTA-TAATTTTTATGATT
* *
23159488 TTTATAAATTTTATAATT
1 TTTATAATTTTTATGATT
*
23159506 TTAATTAATTTTTAATGATT
1 TTTA-TAATTTTT-ATGATT
23159526 TTTATAATTTTTTTATG-TT
1 TTTATAA--TTTTTATGATT
23159545 TTTATAATT
1 TTTATAATT
23159554 CTAGGATGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
17 21 0.25
18 15 0.18
19 28 0.33
20 15 0.18
21 5 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTATAATTTTTATGATT
Found at i:23159546 original size:29 final size:29
Alignment explanation
Indices: 23159479--23159548 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
23159469 TTTAATTAAC
23159479 TTTTATATTTTT-ATAAATTTTATAATTT
1 TTTTATATTTTTAATAAATTTTATAATTT
* * *
23159507 TAATTA-ATTTTTAATGATTTTTATAATTT
1 T-TTTATATTTTTAATAAATTTTATAATTT
*
23159536 TTTTATGTTTTTA
1 TTTTATATTTTTA
23159549 TAATTCTAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTATATTTTTAATAAATTTTATAATTT
Found at i:23166089 original size:29 final size:30
Alignment explanation
Indices: 23166057--23166127 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
23166047 GAAAAGAAGC
*
23166057 AGAAGAAGAAAAAAAATGAGAAAGAAT-AG
1 AGAAGAAGAAAAAAAATGAAAAAGAATGAG
* * *
23166086 AGAAAAAAAAGAAAAAAATGAAAAAGAGTGAG
1 AG-AAGAAGA-AAAAAAATGAAAAAGAATGAG
*
23166118 AAAAGAAGAA
1 AGAAGAAGAA
23166128 TTTAAATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
29 2 0.06
30 6 0.19
31 21 0.66
32 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.06
Consensus pattern (30 bp):
AGAAGAAGAAAAAAAATGAAAAAGAATGAG
Found at i:23171603 original size:22 final size:22
Alignment explanation
Indices: 23171583--23171660 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
23171573 ACCCCTTAGC
**
23171583 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAAA
* * *
23171605 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAAA
23171627 CATGAGAGCTTAGTACGTTAAA
1 CATGAGAGCTTAGTACGTTAAA
23171649 CATGAGAGCTTA
1 CATGAGAGCTTA
23171661 ATTCTCATCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAAA
Found at i:23180329 original size:19 final size:19
Alignment explanation
Indices: 23180305--23180342 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
23180295 GTGCCTTGCT
23180305 CGTGTGGG-CCAACACGCCC
1 CGTGTGGGTCC-ACACGCCC
23180324 CGTGTGGGTCCACACGCCC
1 CGTGTGGGTCCACACGCCC
23180343 AGATTGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.13, C:0.42, G:0.32, T:0.13
Consensus pattern (19 bp):
CGTGTGGGTCCACACGCCC
Found at i:23180360 original size:33 final size:33
Alignment explanation
Indices: 23180322--23180404 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
23180312 GCCAACACGC
*
23180322 CCCGTGTGGGTCCACACGCCCAGATTGGCCTTG
1 CCCGTGTGGGCCCACACGCCCAGATTGGCCTTG
*
23180355 CCCGTGTGGGCCCACATGCCCAGATTGGCCTTG
1 CCCGTGTGGGCCCACACGCCCAGATTGGCCTTG
*
23180388 CCCGTGT-GACCCACACG
1 CCCGTGTGGGCCCACACG
23180405 ATCTGGCCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 8 0.17
33 38 0.83
ACGTcount: A:0.13, C:0.39, G:0.29, T:0.19
Consensus pattern (33 bp):
CCCGTGTGGGCCCACACGCCCAGATTGGCCTTG
Found at i:23183642 original size:35 final size:36
Alignment explanation
Indices: 23183603--23183699 Score: 114
Period size: 34 Copynumber: 2.8 Consensus size: 36
23183593 TCACATGACT
23183603 TATAGGCTTCGCATGTACCTAGGGTTCGCATGG-CA
1 TATAGGCTTCGCATGTACCTAGGGTTCGCATGGTCA
* * *
23183638 TATAGGCTT-GCAGGTACTTAGGGTTTGCATGGTCA
1 TATAGGCTTCGCATGTACCTAGGGTTCGCATGGTCA
* *
23183673 TGTAGGC-TCACAT-T-CCTAGGGTTCGCA
1 TATAGGCTTCGCATGTACCTAGGGTTCGCA
23183700 CTAAGGGGTC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
33 11 0.21
34 22 0.42
35 19 0.37
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.31
Consensus pattern (36 bp):
TATAGGCTTCGCATGTACCTAGGGTTCGCATGGTCA
Found at i:23183719 original size:13 final size:13
Alignment explanation
Indices: 23183687--23183725 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
23183677 GGCTCACATT
23183687 CCTAGGGTTCGCA
1 CCTAGGGTTCGCA
*
23183700 -CTAAGGGGTCGCA
1 CCT-AGGGTTCGCA
23183713 CCTAGGGTTCGCA
1 CCTAGGGTTCGCA
23183726 TTCTAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (13 bp):
CCTAGGGTTCGCA
Found at i:23186549 original size:29 final size:27
Alignment explanation
Indices: 23186482--23186576 Score: 79
Period size: 29 Copynumber: 3.4 Consensus size: 27
23186472 AAGTTGTCAT
* *
23186482 AAATTATAAAAATGA-AAAA-ATTATAA
1 AAATTATAAAAATTATAAAATATTA-CA
23186508 AAGATTATTAAAAACTTAT-AAATATTACCA
1 AA-ATTA-TAAAAA-TTATAAAATATTA-CA
* *
23186538 AAACTTATAAAAATTCTAAAATATTATA
1 AAA-TTATAAAAATTATAAAATATTACA
23186566 AAATTATAAAA
1 AAATTATAAAA
23186577 TACATGTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.04
27 12 0.21
28 13 0.23
29 20 0.35
30 10 0.18
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (27 bp):
AAATTATAAAAATTATAAAATATTACA
Found at i:23186577 original size:8 final size:9
Alignment explanation
Indices: 23186482--23186576 Score: 86
Period size: 9 Copynumber: 10.2 Consensus size: 9
23186472 AAGTTGTCAT
23186482 AAATTATAA
1 AAATTATAA
*
23186491 AAATGA-AA
1 AAATTATAA
23186499 AAATTATAA
1 AAATTATAA
23186508 AAGATTATTAA
1 AA-ATTA-TAA
23186519 AAACTTATAA
1 AAA-TTATAA
* *
23186529 ATATTACCAA
1 AAATTA-TAA
*
23186539 AACTTATAA
1 AAATTATAA
*
23186548 AAATTCTAA
1 AAATTATAA
23186557 AATATTAT-A
1 AA-ATTATAA
23186566 AAATTATAA
1 AAATTATAA
23186575 AA
1 AA
23186577 TACATGTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
8 12 0.17
9 29 0.42
10 20 0.29
11 8 0.12
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (9 bp):
AAATTATAA
Found at i:23187151 original size:18 final size:19
Alignment explanation
Indices: 23187116--23187154 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
23187106 AGTTTATTAG
23187116 AATTTTTTACAAGTATTTAT
1 AATTTTTTACAAG-ATTTAT
*
23187136 AATTTTTTATAA-ATTTAT
1 AATTTTTTACAAGATTTAT
23187154 A
1 A
23187155 TATCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
AATTTTTTACAAGATTTAT
Found at i:23187180 original size:29 final size:28
Alignment explanation
Indices: 23187130--23187204 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 28
23187120 TTTTACAAGT
23187130 ATTTATAATTTTTTATAAATTTATATATC
1 ATTTATAATTTTTTATAAATTT-TATATC
* *
23187159 ATTTTTAA-TTTTTAGTATATTTTATAT-
1 ATTTATAATTTTTTA-TAAATTTTATATC
*
23187186 -TTTATTA-TTTTTATAAATT
1 ATTTATAATTTTTTATAAATT
23187205 ATTTGTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 5 0.12
26 11 0.28
28 11 0.28
29 13 0.32
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTTATAATTTTTTATAAATTTTATATC
Found at i:23187199 original size:16 final size:17
Alignment explanation
Indices: 23187159--23187200 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
23187149 TTTATATATC
23187159 ATTTTTA-ATTTTTAGT
1 ATTTTTATATTTTTAGT
*
23187175 ATATTTTATA-TTTTATT
1 AT-TTTTATATTTTTAGT
23187192 ATTTTTATA
1 ATTTTTATA
23187201 AATTATTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 13 0.57
18 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTTATATTTTTAGT
Found at i:23203326 original size:24 final size:23
Alignment explanation
Indices: 23203295--23203340 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
23203285 ATTGAAATGG
*
23203295 ATTGATTTGTATGTGA-TGAATTT
1 ATTGATTTATAT-TGATTGAATTT
23203318 ATTGAATTTATATTGATTGAATT
1 ATTG-ATTTATATTGATTGAATT
23203341 GAATTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (23 bp):
ATTGATTTATATTGATTGAATTT
Found at i:23211580 original size:20 final size:20
Alignment explanation
Indices: 23211556--23211601 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23211546 TAAAAAATAT
*
23211556 TAAAAAT-TACTAAATATTA
1 TAAAAATATTCTAAATATTA
*
23211575 TAAAAATATTGTAAATATTA
1 TAAAAATATTCTAAATATTA
23211595 TAAAAAT
1 TAAAAAT
23211602 TTTAATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAATATTCTAAATATTA
Found at i:23222070 original size:3 final size:3
Alignment explanation
Indices: 23222062--23222105 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
23222052 ATAAGTAAGT
*
23222062 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA A-A CTA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23222106 TAAATAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 3 0.08
3 30 0.83
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23222074 original size:21 final size:18
Alignment explanation
Indices: 23222061--23222105 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
23222051 TATAAGTAAG
23222061 TATAATAATAATATATAA
1 TATAATAATAATATATAA
*
23222079 TATAATAATAATAAACTAA
1 TATAATAATAATATA-TAA
23222098 TAATAATA
1 T-ATAATA
23222106 TAAATAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 14 0.58
19 4 0.17
20 6 0.25
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAATAATAATATATAA
Found at i:23222089 original size:11 final size:11
Alignment explanation
Indices: 23222061--23222108 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
23222051 TATAAGTAAG
23222061 TATAATAATAA
1 TATAATAATAA
23222072 TAT-ATAAT-A
1 TATAATAATAA
23222081 TAATAATAATAA
1 T-ATAATAATAA
23222093 -ACTAATAATAA
1 TA-TAATAATAA
23222104 TATAA
1 TATAA
23222109 ATAAACAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 2 0.06
10 8 0.25
11 20 0.62
12 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TATAATAATAA
Found at i:23222098 original size:14 final size:14
Alignment explanation
Indices: 23222065--23222105 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
23222055 AGTAAGTATA
23222065 ATAATAATATATAAT
1 ATAATAATA-ATAAT
23222080 ATAATAATAATAA-
1 ATAATAATAATAAT
23222093 ACTAATAATAATA
1 A-TAATAATAATA
23222106 TAAATAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 1 0.04
14 15 0.60
15 9 0.36
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:23223361 original size:44 final size:44
Alignment explanation
Indices: 23223297--23223580 Score: 161
Period size: 44 Copynumber: 6.5 Consensus size: 44
23223287 AGTCTACTCT
23223297 ACTGCAACTTC-GGGAAGATAAGACTTGTAGCTTCAATCTGCCCC
1 ACTGCAACTTCAGGG-AGATAAGACTTGTAGCTTCAATCTGCCCC
* * *** * * *
23223341 ACTGCAACTTCAGGGGGATAAGATTTGTTTTTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCCCC
* * ** * * *
23223385 TCTGCAACTTCAAGGAGATAAGAC---TAAATGCGATTTG-CCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCCCC
* * * * * * ** *
23223425 TCTGCAACTTCAGAGAAATAAGATTTGT-GATTTTAATCCACTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAG-CTTCAATCTGCCCC
* * * * * *
23223469 ACCGCAACTTCAGGAAGATAGGACTAT-TGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACT-TGTAGCTTCAATCTGCCCC
** *
23223513 ACTGCAACTTCAGGGAGATAAGA-TTCACCATCTTCAATCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGACTT--GTAGCTTCAATCTGCCCC
*
23223558 ACTGCAACTTCAGGGGGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
23223581 TTTGCTTTCT
Statistics
Matches: 176, Mismatches: 53, Indels: 21
0.70 0.21 0.08
Matches are distributed among these distances:
40 22 0.12
41 5 0.03
42 1 0.01
43 5 0.03
44 104 0.59
45 39 0.22
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCCCC
Found at i:23223676 original size:50 final size:50
Alignment explanation
Indices: 23223622--23223906 Score: 191
Period size: 50 Copynumber: 5.7 Consensus size: 50
23223612 TCGAGGAAAC
* *
23223622 AAGATTCGCCGTCGTGACTTCAATCTGTTCCACTGCACTGCCAGAGAAGT
1 AAGATCCGCCGTCGTGACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * * ** * * ** *
23223672 AAGATCCGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGGAA-C
1 AAGATCCGCCGTCGTGACTTCAATCTGTTCCACTGCACTG-CCAGGGAAGT
* * *
23223722 CAGATCCGCCGTCGT-AGCTTCAATCTGTTCCACTACACCGCCAGGGAAGT
1 AAGATCCGCCGTCGTGA-CTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * * ** * * ** *
23223772 AAGATCCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGGAA-C
1 AAGATCCGCCGTCGTGACTTCAATCTGTTCCACTGCACTG-CCAGGGAAGT
* * * *
23223822 CAGATCCGCCGTCGT-AGCTTCAATCTGTTCCATTACACCGCCAGGGAAGT
1 AAGATCCGCCGTCGTGA-CTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * *
23223872 AAGATCCACCGTTGTGGCTTCAATCTTTTCCACTG
1 AAGATCCGCCGTCGTGACTTCAATCTGTTCCACTG
23223907 TAATGCTAAA
Statistics
Matches: 166, Mismatches: 61, Indels: 16
0.68 0.25 0.07
Matches are distributed among these distances:
49 12 0.07
50 143 0.86
51 11 0.07
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGATCCGCCGTCGTGACTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
Found at i:23223732 original size:100 final size:100
Alignment explanation
Indices: 23223598--23223900 Score: 482
Period size: 100 Copynumber: 3.0 Consensus size: 100
23223588 TCTCAGTCTG
* * * * * * *
23223598 TTTTAACTGCAATGTCGAGGAAACAAGATTCGCCGTCGT-GACTTCAATCTGTTCCACTGCACTG
1 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCGTCGTAG-CTTCAATCTGTTCCACTACACCG
* *
23223662 CCAGAGAAGTAAGATCCGCCATTGTGGCTTCAATCT
65 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT
23223698 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGC
1 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGC
*
23223763 CAGGGAAGTAAGATCCGTCGTTGTGGCTTCAATCT
66 CAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT
*
23223798 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCATTACACCGC
1 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGC
*
23223863 CAGGGAAGTAAGATCCACCGTTGTGGCTTCAATCT
66 CAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT
23223898 TTT
1 TTT
23223901 CCACTGTAAT
Statistics
Matches: 189, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
100 188 0.99
101 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (100 bp):
TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGC
CAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT
Found at i:23224813 original size:16 final size:16
Alignment explanation
Indices: 23224792--23224824 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23224782 AAAGTCTTAA
23224792 TTTAGACTCTTCATTC
1 TTTAGACTCTTCATTC
23224808 TTTAGACTCTTCATTC
1 TTTAGACTCTTCATTC
23224824 T
1 T
23224825 CAGATTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTAGACTCTTCATTC
Found at i:23225524 original size:23 final size:23
Alignment explanation
Indices: 23225494--23225543 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
23225484 TAATTTTTTA
23225494 TTTTGATTTTGATTTTTTCT-GAT
1 TTTTGATTTTG-TTTTTTCTAGAT
*
23225517 TTTTGATTTTGTTTTTTTTAGAT
1 TTTTGATTTTGTTTTTTCTAGAT
23225540 TTTT
1 TTTT
23225544 CTTTGATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.74
Consensus pattern (23 bp):
TTTTGATTTTGTTTTTTCTAGAT
Found at i:23226368 original size:25 final size:25
Alignment explanation
Indices: 23226318--23226383 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
23226308 AAGAAAATCC
* *
23226318 AAAAGAATGAAAAAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
*
23226343 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
23226368 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
23226384 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:23230508 original size:3 final size:3
Alignment explanation
Indices: 23230500--23230566 Score: 68
Period size: 3 Copynumber: 22.0 Consensus size: 3
23230490 ATAAGTAAGT
23230500 ATA ATA ATA ATA TATA AGTA AGT- ATA ATA ATA ATA TATA AT- ATA ATA
1 ATA ATA ATA ATA -ATA A-TA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA
*
23230547 ATA ATA A-A CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
23230567 TAAATAAACA
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
2 4 0.07
3 41 0.73
4 11 0.20
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23230514 original size:23 final size:23
Alignment explanation
Indices: 23230486--23230539 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
23230476 GCATACACGC
23230486 ATATATAAGTAAGTATAATAATA
1 ATATATAAGTAAGTATAATAATA
23230509 ATATATAAGTAAGTATAATAATA
1 ATATATAAGTAAGTATAATAATA
23230532 ATATATAA
1 ATATATAA
23230540 TATAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
ATATATAAGTAAGTATAATAATA
Found at i:23230559 original size:14 final size:14
Alignment explanation
Indices: 23230500--23230566 Score: 68
Period size: 14 Copynumber: 4.6 Consensus size: 14
23230490 ATAAGTAAGT
23230500 ATAATAATAATAT-
1 ATAATAATAATATA
23230513 ATAAGTAAGT-ATAATA
1 ATAA-TAA-TAAT-ATA
23230529 ATAATATATAATATA
1 ATAATA-ATAATATA
23230544 ATAATAATAA-ACTA
1 ATAATAATAATA-TA
23230558 ATAATAATA
1 ATAATAATA
23230567 TAAATAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
13 5 0.11
14 20 0.43
15 15 0.32
16 7 0.15
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:23235185 original size:12 final size:12
Alignment explanation
Indices: 23235150--23235186 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
23235140 AATATATCAT
23235150 AAAAATTATA-A
1 AAAAATTATATA
23235161 AAAAATTAT-TA
1 AAAAATTATATA
*
23235172 AAAAATTGTATA
1 AAAAATTATATA
23235184 AAA
1 AAA
23235187 TCATAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
AAAAATTATATA
Found at i:23235447 original size:21 final size:22
Alignment explanation
Indices: 23235409--23235449 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23235399 AAAATTACAA
*
23235409 AAAAATATTATTACAATTATTC
1 AAAAATAATATTACAATTATTC
*
23235431 AAAAATAATA-TAGAATTAT
1 AAAAATAATATTACAATTAT
23235450 AAAAAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAATAATATTACAATTATTC
Found at i:23235489 original size:17 final size:17
Alignment explanation
Indices: 23235381--23235490 Score: 62
Period size: 17 Copynumber: 5.9 Consensus size: 17
23235371 AAAAGCGTAA
*
23235381 AAAATTATAAAAATATAG
1 AAAATTATAAAAA-ATAT
*
23235399 AAAATTACAAAAAAATATT
1 AAAATTA-TAAAAAATA-T
23235418 ATTACAATTATTCAAAAATAATAT
1 A--A-AATTA-T--AAAA-AATAT
*
23235442 AGAATTATAAAAAGA-AT
1 AAAATTATAAAAA-ATAT
*
23235459 AAAATTATATAAAATAT
1 AAAATTATAAAAAATAT
23235476 AACAA-TATAAAAAAT
1 AA-AATTATAAAAAAT
23235491 GTTTACAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.01
17 27 0.37
18 17 0.23
19 6 0.08
20 1 0.01
21 6 0.08
22 5 0.07
24 6 0.08
25 4 0.05
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:23244206 original size:41 final size:41
Alignment explanation
Indices: 23244153--23244264 Score: 136
Period size: 41 Copynumber: 2.7 Consensus size: 41
23244143 TAAGGTGATT
* * *
23244153 AAATGTTTCAGACTTTACGTCTAGCAGG-TCTGATGCCGGTG
1 AAATATTTCAGACTTTAAGTCTAGCAGGCT-TAATGCCGGTG
*
23244194 AAATATTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTG
1 AAATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
* * * *
23244235 AAACAATTCGGACTATAAGTCTAGCAGGCT
1 AAATATTTCAGACTTTAAGTCTAGCAGGCT
23244265 AAAAGCTGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 61 0.98
42 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (41 bp):
AAATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
Found at i:23244463 original size:69 final size:67
Alignment explanation
Indices: 23244388--23244607 Score: 268
Period size: 63 Copynumber: 3.2 Consensus size: 67
23244378 TTTAAGAACA
* * *
23244388 TGTATATACATTCGGTGATAATACTTGTTAGGCATATGTATATATGCATTCAGCTATTTATGTTT
1 TGTATATACATTCGGTGATAATATTTGTTA-GCATATGTATATA-GCATTCGGCTATTCATGTTT
23244453 AAAG
64 AAAG
*
23244457 TGTATATACATTCGGTGATAATATTTGTT---ATGTGTATA-AGCATTCGGCTATTCATGTTTAA
1 TGTATATACATTCGGTGATAATATTTGTTAGCATATGTATATAGCATTCGGCTATTCATGTTTAA
23244518 AG
66 AG
* * *
23244520 TGTATATACATTTGATGATAATATTTGTTAAGCATATATGTATATACACATTCGGCTATTCATGT
1 TGTATATACATTCGGTGATAATATTTGTT-AGC--ATATGTATATA-GCATTCGGCTATTCATG-
*
23244585 TTTAAAT
61 TTTAAAG
*
23244592 TGTATATGCATTCGGT
1 TGTATATACATTCGGT
23244608 TTTAAGTGTT
Statistics
Matches: 130, Mismatches: 12, Indels: 15
0.83 0.08 0.10
Matches are distributed among these distances:
63 49 0.38
64 1 0.01
65 8 0.06
69 36 0.28
70 1 0.01
71 16 0.12
72 19 0.15
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (67 bp):
TGTATATACATTCGGTGATAATATTTGTTAGCATATGTATATAGCATTCGGCTATTCATGTTTAA
AG
Found at i:23244469 original size:31 final size:30
Alignment explanation
Indices: 23244428--23244531 Score: 86
Period size: 31 Copynumber: 3.3 Consensus size: 30
23244418 GGCATATGTA
*
23244428 TATATGCATTCAGCTATTTATGTTTAAAGTG
1 TATATACATTC-GCTATTTATGTTTAAAGTG
* * * *
23244459 TATATACATTCGGTGATAATAT-TTGTTATGTG
1 TATATACATTCGCT-AT-TTATGTT-TAAAGTG
*
23244491 TATA-AGCATTCGGCTATTCATGTTTAAAGTG
1 TATATA-CATTC-GCTATTTATGTTTAAAGTG
23244522 TATATACATT
1 TATATACATT
23244532 TGATGATAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
30 2 0.04
31 30 0.54
32 22 0.39
33 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (30 bp):
TATATACATTCGCTATTTATGTTTAAAGTG
Found at i:23248433 original size:16 final size:16
Alignment explanation
Indices: 23248396--23248492 Score: 51
Period size: 14 Copynumber: 6.0 Consensus size: 16
23248386 AATATGCCTA
*
23248396 TTTTATATA-TAT-AT
1 TTTTATATATTTTAAT
23248410 TTTTATAT-TTTTAAT
1 TTTTATATATTTTAAT
*
23248425 TTATTATATATTTTTAT
1 TT-TTATATATTTTAAT
*
23248442 GCTTCTTACAATATTTT-A-
1 --TT-TTA-TATATTTTAAT
** *
23248460 TAATATATATTTTAAA
1 TTTTATATATTTTAAT
23248476 TTTTATATAATTTTAAT
1 TTTTATAT-ATTTTAAT
23248493 AAATTTTTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
14 17 0.27
15 7 0.11
16 13 0.21
17 13 0.21
19 6 0.10
20 7 0.11
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (16 bp):
TTTTATATATTTTAAT
Found at i:23248506 original size:17 final size:18
Alignment explanation
Indices: 23248472--23248541 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
23248462 ATATATATTT
23248472 TAAATTTTATATAATTTTAA
1 TAAATTTT-TAT-ATTTTAA
23248492 TAAATTTTTAT-TTTTAA
1 TAAATTTTTATATTTTAA
* ** *
23248509 AAAATTCATAT-TTTTTA
1 TAAATTTTTATATTTTAA
*
23248526 TAATTTTTTATATTTT
1 TAAATTTTTATATTTT
23248542 TCTCGTAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 26 0.63
18 4 0.10
19 3 0.07
20 8 0.20
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (18 bp):
TAAATTTTTATATTTTAA
Found at i:23248621 original size:19 final size:20
Alignment explanation
Indices: 23248599--23248639 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
23248589 TTTTTGCAAT
23248599 TTTTTTATCATTTAT-ATAA
1 TTTTTTATCATTTATAATAA
*
23248618 TTTTTTGTCATTTATAATAA
1 TTTTTTATCATTTATAATAA
23248638 TT
1 TT
23248640 GTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTTATCATTTATAATAA
Found at i:23249706 original size:169 final size:169
Alignment explanation
Indices: 23249420--23249906 Score: 688
Period size: 169 Copynumber: 2.9 Consensus size: 169
23249410 TTCTTCAATT
* * * * * *
23249420 TTAACGCCAGGGAGATGAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCTACAACACCAGGGAA
1 TTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAA
* * * *
23249485 ACCAGATTTGCTACCTTTAGCCTTAATCTGTTCCACTGTAATGCAAAAGAGATAGGATTCGCTGC
66 ACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCAAAAGAGATAGGATTCGCTGC
* *
23249550 CCACAGCTTTAATCCGCTCCACTTCAGCTATTCCAAGTC
131 CCACAGCTTTAATCCGCTCAACCTCAGCTATTCCAAGTC
*** * * *
23249589 TTAATGTCAGGGAGATAAGATTCTCTGCCCT-ATGCTCTAATCTGCTCCGCTGCAACGCTAGGGA
1 TTAACACCAGGGAGATAAGATTCGCTGCCCTCA-GCTTTAATCTGCTCCGCTGCAACGCCAGGGA
* *
23249653 AACAAGATTCGCTACCTTTAGCTTTAATATGTTCCACTATAATGCCAAAGAGATAGGATTCGCTG
65 AACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCAAAAGAGATAGGATTCGCTG
* * *
23249718 TCCGCAGCTTTAATCCACTCAACCTCAGCTATTCCAAGTC
130 CCCACAGCTTTAATCCGCTCAACCTCAGCTATTCCAAGTC
*
23249758 TTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAGTCTGCTCCGCTGCAACGCCAGGGAA
1 TTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAA
* * * * * *
23249823 AGAAGATTCACTACCTTTAGCTTTAATCTATTCCACTATAAGGCTAAATAGATAGGATTCGCTGC
66 ACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCAAAAGAGATAGGATTCGCTGC
23249888 CCACAGCTTTAATCCGCTC
131 CCACAGCTTTAATCCGCTC
23249907 TACTCTAGCA
Statistics
Matches: 278, Mismatches: 38, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
168 1 0.00
169 276 0.99
170 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (169 bp):
TTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAA
ACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCAAAAGAGATAGGATTCGCTGC
CCACAGCTTTAATCCGCTCAACCTCAGCTATTCCAAGTC
Found at i:23250186 original size:45 final size:45
Alignment explanation
Indices: 23250137--23250277 Score: 126
Period size: 45 Copynumber: 3.1 Consensus size: 45
23250127 AAGATTTGTC
* *
23250137 ATCTTCGATCTGCTTCGCTGTCAGTACAGAAAAGCAAGATCTGCT
1 ATCTTCGATCTGCTTCGCTGACAATACAGAAAAGCAAGATCTGCT
* * * * *
23250182 ATCTTC-AGTCTGCTCCGCTAACAATACAGGAATA-TAAGATCTACT
1 ATCTTCGA-TCTGCTTCGCTGACAATACA-GAAAAGCAAGATCTGCT
* * * * *
23250227 ATCTTTGATCTACTTCGCTGCCAATACAG-TAAGACAAGATTTGCT
1 ATCTTCGATCTGCTTCGCTGACAATACAGAAAAG-CAAGATCTGCT
23250272 ATCTTC
1 ATCTTC
23250278 AATCCACTTC
Statistics
Matches: 73, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 65 0.89
46 5 0.07
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTTCGATCTGCTTCGCTGACAATACAGAAAAGCAAGATCTGCT
Found at i:23251597 original size:6 final size:6
Alignment explanation
Indices: 23251551--23251581 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
23251541 CATTTTTCCA
23251551 TCATTT TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
23251582 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:23254188 original size:16 final size:16
Alignment explanation
Indices: 23254163--23254197 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23254153 TTCTATGATG
*
23254163 AAATGCCATGCAGTCA
1 AAATGCCATGCAGCCA
*
23254179 AAATGTCATGCAGCCA
1 AAATGCCATGCAGCCA
23254195 AAA
1 AAA
23254198 CAAACACAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGCCA
Found at i:23255711 original size:23 final size:23
Alignment explanation
Indices: 23255683--23255727 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23255673 GTTCAAAATT
*
23255683 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
23255706 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
23255728 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:23255814 original size:24 final size:24
Alignment explanation
Indices: 23255776--23256027 Score: 134
Period size: 24 Copynumber: 10.8 Consensus size: 24
23255766 TGAATTGGAT
* *
23255776 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
23255801 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
** *
23255825 AATTTAAAA-AATTTTTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* *
23255848 AATTCT---ATAATCATATGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
23255870 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
23255894 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
23255915 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** ** *
23255939 AATTTAAAATAATGTTA-ACAATG
1 AATTTAAAATAATAATATATGATA
*
23255962 AATTTAAAATAATAATAT-TGACA
1 AATTTAAAATAATAATATATGATA
* *
23255985 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
*
23256009 AATCTAAAATAATAATATA
1 AATTTAAAATAATAATATA
23256028 CAATACACTT
Statistics
Matches: 169, Mismatches: 40, Indels: 37
0.69 0.16 0.15
Matches are distributed among these distances:
21 15 0.09
22 20 0.12
23 49 0.29
24 73 0.43
25 12 0.07
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:23256044 original size:70 final size:68
Alignment explanation
Indices: 23255865--23256052 Score: 164
Period size: 70 Copynumber: 2.7 Consensus size: 68
23255855 TAATCATATG
* * * * * * **
23255865 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATA
1 TGATAAATCTAAAATAATAATATACAAT-AATTTAATAATAATAATGACAAATTACAAATAGATA
*
23255930 TACA
65 AACA
* ** *
23255934 TGATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGACAAATTACAAATA-A
1 TGATAAATCTAAAATAATAATATACAAT-AATTT--AATAATAATAATGACAAATTACAAATAGA
23255997 TAAAACA
63 T-AAACA
* *
23256004 TGATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGA
1 TGATAAATCTAAAATAATAATATACAATA-ATTTA-ATAATAATAATGA
23256053 TTAATTTAAT
Statistics
Matches: 94, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
68 9 0.10
69 21 0.22
70 56 0.60
71 8 0.09
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (68 bp):
TGATAAATCTAAAATAATAATATACAATAATTTAATAATAATAATGACAAATTACAAATAGATAA
ACA
Found at i:23257880 original size:20 final size:20
Alignment explanation
Indices: 23257829--23257885 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
23257819 TTAATAATTT
* * *
23257829 ATAAGCCTAATGTATTATAG
1 ATAAGTCTAATATATTAGAG
*
23257849 AT-AGATCCAATATATTAGAG
1 ATAAG-TCTAATATATTAGAG
*
23257869 ATAAGTCTAATACATTA
1 ATAAGTCTAATATATTA
23257886 CATAAGCCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (20 bp):
ATAAGTCTAATATATTAGAG
Found at i:23258090 original size:21 final size:22
Alignment explanation
Indices: 23258044--23258090 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
23258034 AATGTAAGGT
*
23258044 TTGTTATTATGTTTTAATTTAG
1 TTGTTATTATGTGTTAATTTAG
23258066 -TGTTATTATTGTGTT-ATTT-G
1 TTGTTATTA-TGTGTTAATTTAG
23258086 TTGTT
1 TTGTT
23258091 TTAAATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (22 bp):
TTGTTATTATGTGTTAATTTAG
Found at i:23265045 original size:32 final size:32
Alignment explanation
Indices: 23265004--23265093 Score: 162
Period size: 32 Copynumber: 2.8 Consensus size: 32
23264994 CAATCATTTC
23265004 AATATCCAACAAGCTTAAAACATAATAAATTA
1 AATATCCAACAAGCTTAAAACATAATAAATTA
*
23265036 AATATCCAACAAGCTTAAAACATAATAAATTC
1 AATATCCAACAAGCTTAAAACATAATAAATTA
*
23265068 AATATCTAACAAGCTTAAAACATAAT
1 AATATCCAACAAGCTTAAAACATAAT
23265094 CAATATCTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (32 bp):
AATATCCAACAAGCTTAAAACATAATAAATTA
Found at i:23265100 original size:27 final size:30
Alignment explanation
Indices: 23265001--23265106 Score: 128
Period size: 32 Copynumber: 3.5 Consensus size: 30
23264991 TGTCAATCAT
23265001 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAAC--AATAAA
*
23265033 TTAAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAAC--AATAAA
*
23265065 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCCAACAAGCTTAAAACAATAAA
*
23265093 -TCAATATCTAACAA
1 TTCAATATCCAACAA
23265107 ATTCAAGACA
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
27 14 0.20
28 2 0.03
29 2 0.03
32 53 0.75
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (30 bp):
TTCAATATCCAACAAGCTTAAAACAATAAA
Found at i:23265117 original size:27 final size:27
Alignment explanation
Indices: 23265066--23265120 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
23265056 CATAATAAAT
*
23265066 TCAATATCTAACAAGCTTAAAACATAA
1 TCAATATCTAACAAGATTAAAACATAA
*
23265093 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
23265120 T
1 T
23265121 AATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:23265128 original size:59 final size:62
Alignment explanation
Indices: 23264999--23265138 Score: 162
Period size: 59 Copynumber: 2.3 Consensus size: 62
23264989 ATTGTCAATC
*
23264999 ATTTCAATATCCAACAAGCTTAAAACATAATAAATTAAATATCCAACAAGCTTAAAACATAATA
1 ATTTCAATATCCAACAAGCTTAAAAC--AATAAATTAAATATCCAACAAGATTAAAACATAATA
* * * * *
23265063 AATTCAATATCTAACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATTCAAGACATAATA
1 ATTTCAATATCCAACAAGCTTAAAACAATAAATTAAATATCCAACAAGATT-AAAACATAATA
*
23265122 ATTTCAAAATCCAACAA
1 ATTTCAATATCCAACAA
23265139 ACTAAAATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
58 2 0.03
59 36 0.55
60 2 0.03
61 2 0.03
64 24 0.36
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (62 bp):
ATTTCAATATCCAACAAGCTTAAAACAATAAATTAAATATCCAACAAGATTAAAACATAATA
Found at i:23268356 original size:17 final size:17
Alignment explanation
Indices: 23268334--23268386 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
23268324 TCTTCAACAG
23268334 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
*
23268351 ACAGAT--TAAA--CAA
1 ACAGATGCAAAATCCAA
* *
23268364 ATAGATGCAAAATCTAA
1 ACAGATGCAAAATCCAA
23268381 ACAGAT
1 ACAGAT
23268387 TCTTCAACAA
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 8 0.30
15 6 0.22
17 13 0.48
ACGTcount: A:0.55, C:0.17, G:0.11, T:0.17
Consensus pattern (17 bp):
ACAGATGCAAAATCCAA
Found at i:23268962 original size:55 final size:54
Alignment explanation
Indices: 23268888--23269015 Score: 161
Period size: 55 Copynumber: 2.3 Consensus size: 54
23268878 AAAATTTTAT
* *
23268888 AAAATATTAAAAATTATATAAACTTATAAAAAGATATAAAAATCCTAGAAAATA-A
1 AAAATATTAAAAATAATATAAACTTATAAAAAGATA-AAAAATCATA-AAAATATA
* * *
23268943 AAAATATTAGAGATAATATAAACTTATAAAAATATAAAAAATCATAAAAATATA
1 AAAATATTAAAAATAATATAAACTTATAAAAAGATAAAAAATCATAAAAATATA
23268997 AAAACT-TATAAAAATAATA
1 AAAA-TAT-TAAAAATAATA
23269016 AATTAAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
53 6 0.10
54 15 0.24
55 42 0.67
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (54 bp):
AAAATATTAAAAATAATATAAACTTATAAAAAGATAAAAAATCATAAAAATATA
Found at i:23268989 original size:10 final size:9
Alignment explanation
Indices: 23268970--23269031 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
23268960 ATAAACTTAT
23268970 AAAAATATA
1 AAAAATATA
23268979 AAAAATCAT-
1 AAAAAT-ATA
23268988 AAAAATATA
1 AAAAATATA
*
23268997 AAAACT-TA
1 AAAAATATA
*
23269005 TAAAA-ATA
1 AAAAATATA
*
23269013 ATAAAT-TA
1 AAAAATATA
23269021 AAAATATATA
1 AAAA-ATATA
23269031 A
1 A
23269032 TTACAAAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
8 17 0.41
9 19 0.46
10 5 0.12
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:23268991 original size:18 final size:18
Alignment explanation
Indices: 23268968--23269017 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
23268958 ATATAAACTT
23268968 ATAAAAATATAAAAAATC
1 ATAAAAATATAAAAAATC
* *
23268986 ATAAAAATATAAAAACTT
1 ATAAAAATATAAAAAATC
23269004 ATAAAAATAATAAA
1 ATAAAAAT-ATAAA
23269018 TTAAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAAATATAAAAAATC
Found at i:23269031 original size:18 final size:16
Alignment explanation
Indices: 23268969--23269028 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 16
23268959 TATAAACTTA
23268969 TAAAAATATAAAAAAT
1 TAAAAATATAAAAAAT
*
23268985 CATAAAAATATAAAAACT
1 --TAAAAATATAAAAAAT
*
23269003 TATAAAA-ATAATAAAT
1 TA-AAAATATAAAAAAT
23269019 TAAAAATATA
1 TAAAAATATA
23269029 TAATTACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 4 0.11
16 14 0.38
17 4 0.11
18 15 0.41
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAAATATAAAAAAT
Found at i:23273704 original size:21 final size:21
Alignment explanation
Indices: 23273680--23273729 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
23273670 TGTTTCTAAA
* *
23273680 CTCACCGCTATAGTATCCAAT
1 CTCACCGCTACAGTAACCAAT
** *
23273701 CTCATTGCTACAGTAACTAAT
1 CTCACCGCTACAGTAACCAAT
23273722 CTCACCGC
1 CTCACCGC
23273730 CACCACTGTT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.34, G:0.10, T:0.28
Consensus pattern (21 bp):
CTCACCGCTACAGTAACCAAT
Found at i:23274059 original size:19 final size:19
Alignment explanation
Indices: 23273982--23274087 Score: 76
Period size: 18 Copynumber: 5.5 Consensus size: 19
23273972 TATTGTACCA
**
23273982 TTTATAAGTTTTTATGGTT
1 TTTATAAGTTTTTATAATT
* *
23274001 TTATATAA-TTTTTAAAATA
1 TT-TATAAGTTTTTATAATT
* *
23274020 TTT-TGATTTTTTA-AATTAAT
1 TTTATAAGTTTTTATAA-T--T
23274040 TTTATAAGTTTTTATGAATTT
1 TTTATAAGTTTTTAT-AA-TT
23274061 TTTATAAG-TTTTATAATT
1 TTTATAAGTTTTTATAATT
23274079 TTTATAAGT
1 TTTATAAGT
23274088 ATACATAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.06
18 18 0.26
19 13 0.19
20 14 0.20
21 17 0.24
23 4 0.06
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (19 bp):
TTTATAAGTTTTTATAATT
Found at i:23274072 original size:9 final size:9
Alignment explanation
Indices: 23274039--23274087 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
23274029 TTTAAATTAA
23274039 TTTTATAAG
1 TTTTATAAG
*
23274048 TTTTTATGAATT
1 -TTTTAT-AA-G
23274060 TTTTATAAG
1 TTTTATAAG
*
23274069 TTTTATAAT
1 TTTTATAAG
23274078 TTTTATAAG
1 TTTTATAAG
23274087 T
1 T
23274088 ATACATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 17 0.52
10 8 0.24
11 8 0.24
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (9 bp):
TTTTATAAG
Found at i:23274075 original size:30 final size:28
Alignment explanation
Indices: 23273982--23274083 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 28
23273972 TATTGTACCA
* *
23273982 TTTATAAGTTTTTATGGTTTTATATAAT
1 TTTATAAGTTTTTATGATTTTTTATAAT
* *
23274010 TTT-TAAAATATTT-TGATTTTTTAAATTAAT
1 TTTAT-AAGTTTTTATGATTTTTT--A-TAAT
23274040 TTTATAAGTTTTTATGAATTTTTTATAAGT
1 TTTATAAGTTTTTATG-ATTTTTTATAA-T
23274070 TTTATAA-TTTTTAT
1 TTTATAAGTTTTTAT
23274084 AAGTATACAT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
27 8 0.13
28 9 0.15
29 11 0.18
30 22 0.37
31 3 0.05
32 7 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (28 bp):
TTTATAAGTTTTTATGATTTTTTATAAT
Found at i:23274119 original size:18 final size:19
Alignment explanation
Indices: 23274034--23274151 Score: 66
Period size: 18 Copynumber: 6.2 Consensus size: 19
23274024 GATTTTTTAA
23274034 ATTAATTTT-ATAAGTTTTT
1 ATTAATTTTAATAA-TTTTT
* * *
23274053 ATGAATTTTTTATAAGTTTT
1 ATTAA-TTTTAATAATTTTT
* * **
23274073 A-TAATTTTTATAAGTATAC
1 ATTAATTTTAATAA-TTTTT
*
23274092 ATAAAATTTTAAT-ATTTTT
1 AT-TAATTTTAATAATTTTT
23274111 ATTAATTTTAAATAATTTTT
1 ATTAATTTT-AATAATTTTT
* *
23274131 A-T-ATTTTAATGATTCTT
1 ATTAATTTTAATAATTTTT
23274148 ATTA
1 ATTA
23274152 GAAAATGAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
17 9 0.12
18 21 0.28
19 16 0.21
20 17 0.23
21 12 0.16
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTAATTTTAATAATTTTT
Found at i:23274130 original size:29 final size:29
Alignment explanation
Indices: 23273999--23274137 Score: 83
Period size: 29 Copynumber: 4.8 Consensus size: 29
23273989 GTTTTTATGG
* *
23273999 TTTTATATAATTTTTAAAATATTTTGATT--
1 TTTTAAATAATTTTT--AATATTTTTATTAA
* *
23274028 TTTTAAATTAATTTTATAA-GTTTTTATGAA
1 TTTTAAA-TAATTTT-TAATATTTTTATTAA
** *
23274058 TTTTTTATAAGTTTT-ATAATTTTTA-TAA
1 TTTTAAATAATTTTTAAT-ATTTTTATTAA
* * * *
23274086 GTATACATAAAATTTTAATATTTTTATTAA
1 TTTTAAAT-AATTTTTAATATTTTTATTAA
23274116 TTTTAAATAATTTTT-ATATTTT
1 TTTTAAATAATTTTTAATATTTT
23274138 AATGATTCTT
Statistics
Matches: 83, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
27 1 0.01
28 20 0.24
29 39 0.47
30 22 0.27
31 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.60
Consensus pattern (29 bp):
TTTTAAATAATTTTTAATATTTTTATTAA
Found at i:23292066 original size:19 final size:19
Alignment explanation
Indices: 23292023--23292066 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23292013 TTCATTTCTC
*
23292023 TCTTCCATTTCCTTCATTT
1 TCTTCCATTTCCTTCATCT
* **
23292042 TTTTCCATTTCCTTTGTCT
1 TCTTCCATTTCCTTCATCT
23292061 TCTTCC
1 TCTTCC
23292067 CTTATCGATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.32, G:0.02, T:0.59
Consensus pattern (19 bp):
TCTTCCATTTCCTTCATCT
Found at i:23292924 original size:13 final size:13
Alignment explanation
Indices: 23292908--23292932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23292898 TTTACTTTTT
23292908 CTTAGTTAATTTA
1 CTTAGTTAATTTA
23292921 CTTAGTTAATTT
1 CTTAGTTAATTT
23292933 TTAGTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
CTTAGTTAATTTA
Found at i:23297501 original size:25 final size:25
Alignment explanation
Indices: 23297467--23297516 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23297457 CTAACTTTGT
23297467 TATCTTAGACTTTGAAGTAGATAAA
1 TATCTTAGACTTTGAAGTAGATAAA
23297492 TATCTTAGACTTTGAAGTAGATAAA
1 TATCTTAGACTTTGAAGTAGATAAA
23297517 GAGGTACCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (25 bp):
TATCTTAGACTTTGAAGTAGATAAA
Found at i:23300241 original size:21 final size:20
Alignment explanation
Indices: 23300217--23300255 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23300207 GTTTTGATGA
23300217 AGGTATCAATACCTTAGGCCT
1 AGGTATCAATACC-TAGGCCT
*
23300238 AGGTATCGATACCTAGGC
1 AGGTATCAATACCTAGGC
23300256 TTATATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (20 bp):
AGGTATCAATACCTAGGCCT
Found at i:23301107 original size:28 final size:27
Alignment explanation
Indices: 23301053--23301165 Score: 99
Period size: 30 Copynumber: 4.2 Consensus size: 27
23301043 CATATATCAC
*
23301053 TAAGCA-CAAAGTGCAAA-TAAT--GA
1 TAAGCACCAAAGTGCAAATTAATACAA
23301076 TAAGCACCAAAGTGCAAATTAATAACAA
1 TAAGCACCAAAGTGCAAATTAAT-ACAA
* * *
23301104 TAAGCATCAAAGTGCAAATTTTTACAGCAA
1 TAAGCACCAAAGTGCAAA--TTAATA-CAA
* * *
23301134 TAAGCACCAATGTGCAAAATAATACGA
1 TAAGCACCAAAGTGCAAATTAATACAA
23301161 TAAGC
1 TAAGC
23301166 GCGCTAATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
23 6 0.08
24 11 0.15
25 4 0.06
27 7 0.10
28 21 0.29
29 1 0.01
30 22 0.31
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (27 bp):
TAAGCACCAAAGTGCAAATTAATACAA
Found at i:23301137 original size:30 final size:28
Alignment explanation
Indices: 23301053--23301165 Score: 103
Period size: 28 Copynumber: 4.2 Consensus size: 28
23301043 CATATATCAC
*
23301053 TAAGCA-CAAAGTGCAAA-TAAT---GA
1 TAAGCACCAAAGTGCAAATTAATAACAA
23301076 TAAGCACCAAAGTGCAAATTAATAACAA
1 TAAGCACCAAAGTGCAAATTAATAACAA
* **
23301104 TAAGCATCAAAGTGCAAATTTTTACAGCAA
1 TAAGCACCAAAGTGCAAATTAATA-A-CAA
* * *
23301134 TAAGCACCAATGTGCAAAATAAT-ACGA
1 TAAGCACCAAAGTGCAAATTAATAACAA
23301161 TAAGC
1 TAAGC
23301166 GCGCTAATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
23 6 0.08
24 11 0.15
25 4 0.05
27 7 0.10
28 23 0.32
29 1 0.01
30 21 0.29
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (28 bp):
TAAGCACCAAAGTGCAAATTAATAACAA
Found at i:23303902 original size:15 final size:16
Alignment explanation
Indices: 23303882--23303911 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23303872 TAACAACTAA
23303882 TATATAA-ATATATTT
1 TATATAATATATATTT
23303897 TATATAATATATATT
1 TATATAATATATATT
23303912 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:23306853 original size:4 final size:4
Alignment explanation
Indices: 23306836--23306872 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
23306826 ATATGCTCGA
*
23306836 AAAG AAAG AGAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
23306873 GCATATGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:23307555 original size:27 final size:28
Alignment explanation
Indices: 23307525--23307577 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
23307515 TGAAATTCAT
*
23307525 ACTTTAATTA-TAAAATAATTAATTTGC
1 ACTTAAATTATTAAAATAATTAATTTGC
* *
23307552 ACTTAAATTATTAACATATTTAATTT
1 ACTTAAATTATTAAAATAATTAATTT
23307578 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAATTAATTTGC
Found at i:23310646 original size:18 final size:18
Alignment explanation
Indices: 23310622--23310665 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23310612 TGTCATTCGT
23310622 TTTCAAAACATTATTC-A
1 TTTCAAAACATTATTCAA
* *
23310639 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTCAA
23310658 TTTCAAAA
1 TTTCAAAA
23310666 TGTTTTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (18 bp):
TTTCAAAACATTATTCAA
Found at i:23311224 original size:23 final size:24
Alignment explanation
Indices: 23311180--23311224 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
23311170 AAAATCCTGC
* *
23311180 CCATCCAGCCTCTACTCACCATCT
1 CCATCCAACCTCTACACACCATCT
*
23311204 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
23311225 GTGGGGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.24, C:0.51, G:0.02, T:0.22
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:23313219 original size:33 final size:33
Alignment explanation
Indices: 23313168--23313231 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
23313158 ACAAGCACTG
* * *
23313168 ACAGTCTGGGCCTGAGCCCTATTCAGTAACAGT
1 ACAGTCTGGACCTGAGCCCAATACAGTAACAGT
* *
23313201 ACAGTGTGGACCTTAGCCCAATACAGTAACA
1 ACAGTCTGGACCTGAGCCCAATACAGTAACA
23313232 ATGTGGGCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (33 bp):
ACAGTCTGGACCTGAGCCCAATACAGTAACAGT
Found at i:23313242 original size:28 final size:27
Alignment explanation
Indices: 23313196--23313253 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
23313186 CTATTCAGTA
*
23313196 ACAGTACAGTGTGGACCTTAGCCCAAT
1 ACAGTACAATGTGGACCTTAGCCCAAT
* *
23313223 ACAGTAACAATGTGGGCCTTAGCCCAGT
1 ACAGT-ACAATGTGGACCTTAGCCCAAT
23313251 ACA
1 ACA
23313254 ATATCAGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (27 bp):
ACAGTACAATGTGGACCTTAGCCCAAT
Found at i:23313614 original size:27 final size:26
Alignment explanation
Indices: 23313584--23313773 Score: 165
Period size: 27 Copynumber: 7.2 Consensus size: 26
23313574 TATAACAGTT
23313584 ATTTTACCCTATGAGGGTATTTAAGTC
1 ATTTTACCCTATGAGGGTATTT-AGTC
*
23313611 ATTTTATCCTAT-AGGGGTATTTTAGTC
1 ATTTTACCCTATGA-GGGTA-TTTAGTC
*
23313638 ATTTTACCCTAT-AGGGGTATTTTGATC
1 ATTTTACCCTATGA-GGGTATTTAG-TC
* * *
23313665 ATTTTACCCTATGAGGGTGTTTCAATT
1 ATTTTACCCTATGAGGGTATTT-AGTC
* * *
23313692 AATTTATCCTA-G-GGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTT-AGTC
*
23313717 ATTTTACCCTATGAGGGTATTTTGATC
1 ATTTTACCCTATGAGGGTATTTAG-TC
* *
23313744 A-TTTAACCTATGGGGGTATTTTAGTC
1 ATTTTACCCTATGAGGGTA-TTTAGTC
23313770 ATTT
1 ATTT
23313774 ATTAACCTCT
Statistics
Matches: 134, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
25 18 0.13
26 26 0.19
27 86 0.64
28 4 0.03
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTATGAGGGTATTTAGTC
Found at i:23313737 original size:79 final size:80
Alignment explanation
Indices: 23313584--23313775 Score: 250
Period size: 79 Copynumber: 2.4 Consensus size: 80
23313574 TATAACAGTT
* *
23313584 ATTTTACCCTATGAGGGTATTTAAGTCATTTTATCCTATAGGGGTATTTTAGTCATTTTACCCTA
1 ATTTTACCCTATGAGGGTATTTAAGTCAATTTATCC-ATAGGGGTATTTCAGTCATTTTACCCTA
23313649 TAGGGGTATTTTGATC
65 TAGGGGTATTTTGATC
* * *
23313665 ATTTTACCCTATGAGGGTGTTTCAA-TTAATTTATCC-TAGGGGTATTTCGGTCATTTTACCCTA
1 ATTTTACCCTATGAGGGTATTT-AAGTCAATTTATCCATAGGGGTATTTCAGTCATTTTACCCTA
23313728 T-GAGGGTATTTTGATC
65 TAG-GGGTATTTTGATC
* * *
23313744 A-TTTAACCTATGGGGGTATTTTAGTC-ATTTAT
1 ATTTTACCCTATGAGGGTATTTAAGTCAATTTAT
23313776 TAACCTCTTA
Statistics
Matches: 98, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
77 7 0.07
78 19 0.19
79 40 0.41
81 30 0.31
82 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (80 bp):
ATTTTACCCTATGAGGGTATTTAAGTCAATTTATCCATAGGGGTATTTCAGTCATTTTACCCTAT
AGGGGTATTTTGATC
Found at i:23323520 original size:30 final size:30
Alignment explanation
Indices: 23323486--23323545 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23323476 GAGACAGTTT
*
23323486 GAAAGAAGTTTCAGATCGACAGAAATCTTA
1 GAAAGAAGATTCAGATCGACAGAAATCTTA
23323516 GAAAGAAGATTCAGATCGACAGAAATCTTA
1 GAAAGAAGATTCAGATCGACAGAAATCTTA
23323546 TTGGGATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (30 bp):
GAAAGAAGATTCAGATCGACAGAAATCTTA
Found at i:23324920 original size:16 final size:16
Alignment explanation
Indices: 23324899--23324929 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23324889 TATTAGGGGA
23324899 AAAAGTGTAAATTTTC
1 AAAAGTGTAAATTTTC
*
23324915 AAAAGTGTGAATTTT
1 AAAAGTGTAAATTTT
23324930 GGATTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (16 bp):
AAAAGTGTAAATTTTC
Found at i:23329076 original size:42 final size:43
Alignment explanation
Indices: 23329006--23329120 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
23328996 TTGAGATTTT
* *
23329006 CATGTATGACCATGTCTGGGACATTGGCATCG-TATATGATTA
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGTTATATGATTA
* * * *
23329048 CGTGTAAGACCCTGTCTTGGACAGTGGCATCGTTATTTGATTA
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGTTATATGATTA
23329091 CATGTAAGACCATGTCTGGGAC-GTTGGCAT
1 CATGTAAGACCATGTCTGGGACAG-TGGCAT
23329121 TGAACGAGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATCGTTATATGATTA
Found at i:23335627 original size:27 final size:27
Alignment explanation
Indices: 23335500--23335671 Score: 186
Period size: 27 Copynumber: 6.4 Consensus size: 27
23335490 GGTATAACAG
* * * *
23335500 TCATTTTACCGTATAGGGGTATTTAGG
1 TCATTTTACCCTATAGGAGTATTTCGA
*
23335527 TCATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGAGTATTTCGA
* * *
23335554 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATAGGAGTATTTCGA
23335581 TCATTTTACCCTATAGGAGTATTTCGA
1 TCATTTTACCCTATAGGAGTATTTCGA
* *
23335608 TCATTTTACCATAT-GAGAGTATTTCGG
1 TCATTTTACCCTATAG-GAGTATTTCGA
* * * *
23335635 CCATTTTACCTTATGGGAGTATTTTTG-
1 TCATTTTACCCTATAGGAGTA-TTTCGA
23335662 TCATTTTACC
1 TCATTTTACC
23335672 TATTTTGGGA
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 122 0.95
28 5 0.04
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATAGGAGTATTTCGA
Found at i:23335666 original size:81 final size:81
Alignment explanation
Indices: 23335497--23335671 Score: 217
Period size: 81 Copynumber: 2.2 Consensus size: 81
23335487 AGGGGTATAA
* * * * * *
23335497 CAGTCATTTTACCGTATAGGGGTATTTAGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATAGGAGTATTTAGATCATTTTACCATATAGGAGTATTTCGACCATTTTA
*
23335562 CCCTATGGGGGTATTT
66 CCCTATGGGAGTATTT
* * *
23335578 CAATCATTTTACCCTATAGGAGTATTTCGATCATTTTACCATAT-GAGAGTATTTCGGCCATTTT
1 CAGTCATTTTACCCTATAGGAGTATTTAGATCATTTTACCATATAG-GAGTATTTCGACCATTTT
*
23335642 ACCTTATGGGAGTATTT
65 ACCCTATGGGAGTATTT
**
23335659 TTGTCATTTTACC
1 CAGTCATTTTACC
23335672 TATTTTGGGA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 78 0.99
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (81 bp):
CAGTCATTTTACCCTATAGGAGTATTTAGATCATTTTACCATATAGGAGTATTTCGACCATTTTA
CCCTATGGGAGTATTT
Found at i:23336817 original size:13 final size:14
Alignment explanation
Indices: 23336794--23336822 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23336784 CTCCTCAAAT
23336794 CTCTCCAAATATCC
1 CTCTCCAAATATCC
23336808 CTCT-CAAATATCC
1 CTCTCCAAATATCC
23336821 CT
1 CT
23336823 AAATCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.41, G:0.00, T:0.31
Consensus pattern (14 bp):
CTCTCCAAATATCC
Found at i:23338890 original size:27 final size:27
Alignment explanation
Indices: 23338718--23338889 Score: 247
Period size: 27 Copynumber: 6.4 Consensus size: 27
23338708 GGGTATAATA
23338718 GTCATTTTACCCTA-GGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
23338744 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
23338771 GTCATTTTACCCTATGGGGATATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
23338798 GTCATTTTACCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
23338825 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
23338852 GTCATTTTACCTTATGGGAGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
23338879 GTCATTTTACC
1 GTCATTTTACC
23338890 TATTTTGGGG
Statistics
Matches: 128, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
26 13 0.10
27 115 0.90
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:23344468 original size:41 final size:41
Alignment explanation
Indices: 23344411--23344550 Score: 219
Period size: 41 Copynumber: 3.4 Consensus size: 41
23344401 GAGATAATTT
*
23344411 AGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGTTTC
1 AGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAATGTTTC
*
23344452 AGACTTTACATCTAGCAAGCTTGATGCCGAG-GAAATGTTTC
1 AGACTTTACGTCTAGCAAGCTTGATGCCG-GTGAAATGTTTC
*
23344493 AGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAATATTTC
1 AGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAATGTTTC
* *
23344534 GGACTTTAGGTCTAGCA
1 AGACTTTACGTCTAGCA
23344551 GGCTAATTGT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 89 0.98
42 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
AGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAATGTTTC
Done.