Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 25 of 59
Found at i:9179013 original size:73 final size:73
Alignment explanation
Indices: 9178931--9179132 Score: 221
Period size: 73 Copynumber: 2.8 Consensus size: 73
9178921 GAGTTGGCAG
* * * * *
9178931 GTTCAAAAATAGAATCAACTTAATCGACTAAGA-GATATTGTTAGTCAACTAAGTGCTTACTGCC
1 GTTCAAAAATAGAACCAACTTAATCGACTAAGAGGA-ATCGTTAGTCAACTAAGAGCGTACTACC
*
9178995 -AAAAGTCGA
65 TAAAACT-GA
*
9179004 GTTCAAAAATAGAACCGACTTAATCGACTAAGAGGAATCGTTAGTCAACTAAGAGCGTACTACCT
1 GTTCAAAAATAGAACCAACTTAATCGACTAAGAGGAATCGTTAGTCAACTAAGAGCGTACTACCT
* *
9179069 GAAACTGG
66 AAAACTGA
* * * * **
9179077 GATCAGAAGATAGAACCAACTTAATCGACTAAGAAGTAT-GTTAGTTGACTAAGAGC
1 GTTCA-AAAATAGAACCAACTTAATCGACTAAGAGGAATCGTTAGTCAACTAAGAGC
9179133 TCTCTGTTTG
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
73 75 0.68
74 35 0.32
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (73 bp):
GTTCAAAAATAGAACCAACTTAATCGACTAAGAGGAATCGTTAGTCAACTAAGAGCGTACTACCT
AAAACTGA
Found at i:9180155 original size:2 final size:2
Alignment explanation
Indices: 9180148--9180176 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9180138 ATACATTTTG
9180148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9180177 TTTCAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9182101 original size:43 final size:43
Alignment explanation
Indices: 9182051--9182162 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
9182041 TATTGACTCG
* *
9182051 GCTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCTC
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCTA
* * * *
9182094 GTTATGTGCGAGTAAGGAGTGTGCATAACCCGGTGATGACCTA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCTA
* *
9182137 GCCATGTGCGAGTAGGGAGTTCGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
9182163 GAGCTGGGAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCTA
Found at i:9184256 original size:43 final size:43
Alignment explanation
Indices: 9184208--9184375 Score: 257
Period size: 43 Copynumber: 3.9 Consensus size: 43
9184198 ACTCTCCCTT
9184208 AGCTCATGTGCACTCCCACACCGCACATAGCTAGGTCATCATC
1 AGCTCATGTGCACTCCCACACCGCACATAGCTAGGTCATCATC
*
9184251 AGCTCATGTGCACTCCCACACTGCACATAGCT-GAGTCATCATC
1 AGCTCATGTGCACTCCCACACCGCACATAGCTAG-GTCATCATC
* * *
9184294 AGCTCATGTTCACTCCCACACCGCACATAGCTGGGTCATCATT
1 AGCTCATGTGCACTCCCACACCGCACATAGCTAGGTCATCATC
* * *
9184337 AGCTTATGTGCACTCCTACACCGCACATAGCTAAGTCAT
1 AGCTCATGTGCACTCCCACACCGCACATAGCTAGGTCAT
9184376 AATTATAACA
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 112 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.24
Consensus pattern (43 bp):
AGCTCATGTGCACTCCCACACCGCACATAGCTAGGTCATCATC
Found at i:9185566 original size:19 final size:20
Alignment explanation
Indices: 9185542--9185581 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9185532 TGGCAAGGTG
*
9185542 AAATGGCA-TGGGAGCATGA
1 AAATGGCATTGAGAGCATGA
9185561 AAATGGCATTGAGAGCATGA
1 AAATGGCATTGAGAGCATGA
9185581 A
1 A
9185582 GGTGGAGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.40, C:0.10, G:0.33, T:0.17
Consensus pattern (20 bp):
AAATGGCATTGAGAGCATGA
Found at i:9186940 original size:20 final size:20
Alignment explanation
Indices: 9186909--9186970 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
9186899 ATCCTATTCC
9186909 TATAAA-AACATAAAATAAA
1 TATAAATAACATAAAATAAA
9186928 TATAAATAACATAAAACT-AA
1 TATAAATAACATAAAA-TAAA
* *
9186948 TATTATTAA-ATTAAAATAAA
1 TATAAATAACA-TAAAATAAA
9186968 TAT
1 TAT
9186971 TTAAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 8 0.22
20 28 0.76
21 1 0.03
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
TATAAATAACATAAAATAAA
Found at i:9186981 original size:24 final size:23
Alignment explanation
Indices: 9186922--9187012 Score: 69
Period size: 24 Copynumber: 3.8 Consensus size: 23
9186912 AAAAACATAA
*
9186922 AATAAATATAAA-TAACATAAAACT
1 AATAAA-ATAAATTAAAAT-AAACT
* *
9186946 AATATTATTAAATTAAAATAAA-T
1 AATA-AAATAAATTAAAATAAACT
* *
9186969 ATTTAAATATAAATTAAACTAAACT
1 A-ATAAA-ATAAATTAAAATAAACT
*
9186994 AATAAAATAAATAAAAATA
1 AATAAAATAAATTAAAATA
9187013 CCTAAATTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
23 14 0.27
24 30 0.58
25 8 0.15
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAAATAAATTAAAATAAACT
Found at i:9189730 original size:81 final size:81
Alignment explanation
Indices: 9189631--9189955 Score: 546
Period size: 81 Copynumber: 4.0 Consensus size: 81
9189621 ATAGCCGGAG
* * *
9189631 TCATCGTGTGCACCCCCACATCGCACACAACTAATGCCATCATGTGCTTCCCCCACATCACGCAC
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
*
9189696 AT-GGCATATATCATCA
66 ATAGGCA-ATCTCATCA
** * *
9189712 TCATCGTGTGCAATCCCACATCGCGCATAACTAATGCCATCATGTGCTCCCCCCACATCGCACAC
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
9189777 ATAGGCAATCTCATCA
66 ATAGGCAATCTCATCA
9189793 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
9189858 ATAGGCAATCTCATCA
66 ATAGGCAATCTCATCA
*
9189874 TCATCGTGTGCACCCCCACATCGTGCACAACTAATGCCATCATGTGCT-CCCCCACATCGCGCAC
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
9189938 ATAGGCAATCTCATCA
66 ATAGGCAATCTCATCA
9189954 TC
1 TC
9189956 CACACTCCCT
Statistics
Matches: 230, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
80 34 0.15
81 192 0.83
82 4 0.02
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.22
Consensus pattern (81 bp):
TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
ATAGGCAATCTCATCA
Found at i:9189809 original size:45 final size:44
Alignment explanation
Indices: 9189761--9189955 Score: 192
Period size: 44 Copynumber: 4.8 Consensus size: 44
9189751 TCATGTGCTC
*
9189761 CCCCCACATCGCACACATAGGCAATCTCATCATCATCGTGTGCA
1 CCCCCACATCGCGCACATAGGCAATCTCATCATCATCGTGTGCA
*
9189805 CCCCCACATCGCGCACA-A--CTAAT-GC--CATCAT-GTGCT-C-
1 CCCCCACATCGCGCACATAGGC-AATCTCATCATCATCGTG-TGCA
9189842 CCCCCACATCGCGCACATAGGCAATCTCATCATCATCGTGTGCA
1 CCCCCACATCGCGCACATAGGCAATCTCATCATCATCGTGTGCA
* * *
9189886 CCCCCACATCGTGCACA-A--CTAAT-GC--CATCA---TGTGCT
1 CCCCCACATCGCGCACATAGGC-AATCTCATCATCATCGTGTGCA
9189922 CCCCCACATCGCGCACATAGGCAATCTCATCATC
1 CCCCCACATCGCGCACATAGGCAATCTCATCATC
9189956 CACACTCCCT
Statistics
Matches: 125, Mismatches: 8, Indels: 39
0.73 0.05 0.23
Matches are distributed among these distances:
36 21 0.17
37 18 0.14
38 8 0.06
39 17 0.14
40 2 0.02
41 8 0.06
42 13 0.10
43 6 0.05
44 32 0.26
ACGTcount: A:0.26, C:0.41, G:0.14, T:0.20
Consensus pattern (44 bp):
CCCCCACATCGCGCACATAGGCAATCTCATCATCATCGTGTGCA
Found at i:9189845 original size:36 final size:36
Alignment explanation
Indices: 9189794--9189938 Score: 148
Period size: 36 Copynumber: 3.8 Consensus size: 36
9189784 ATCTCATCAT
*
9189794 CATCGTGTGCACCCCCACATCGCGCACAACTAATGC
1 CATCATGTGCACCCCCACATCGCGCACAACTAATGC
* *
9189830 CATCATGTGCTCCCCCCACATCGCGCACATAGGC-AATCTC
1 CATCATGTGC-ACCCCCACATCGCGCACA-A--CTAAT-GC
*
9189870 ATCATCATCGTGTGCACCCCCACATCGTGCACAACTAATGC
1 --CATCA---TGTGCACCCCCACATCGCGCACAACTAATGC
*
9189911 CATCATGTGCTCCCCCACATCGCGCACA
1 CATCATGTGCACCCCCACATCGCGCACA
9189939 TAGGCAATCT
Statistics
Matches: 90, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
36 30 0.33
37 17 0.19
38 1 0.01
39 8 0.09
40 2 0.02
41 2 0.02
42 8 0.09
43 1 0.01
44 16 0.18
45 5 0.06
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.19
Consensus pattern (36 bp):
CATCATGTGCACCCCCACATCGCGCACAACTAATGC
Found at i:9193821 original size:5 final size:5
Alignment explanation
Indices: 9193799--9193847 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
9193789 TTNGCCCTAC
*
9193799 TTTCT TTTTT TTTCCT TTTCT TTTCT TTTC- TTTC- TTTC- TTTC- TTTCT
1 TTTCT TTTCT TTT-CT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
9193846 TT
1 TT
9193848 CACCGTCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 16 0.40
5 20 0.50
6 4 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:9193834 original size:4 final size:4
Alignment explanation
Indices: 9193798--9193848 Score: 52
Period size: 4 Copynumber: 12.2 Consensus size: 4
9193788 TTTNGCCCTA
9193798 CTTT CTTT -TTT -TTT CCTTTT CTTTT CTTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT -C-TTT C-TTT C-TTT CTTT CTTT CTTT CTTT
9193844 CTTT C
1 CTTT C
9193849 ACCGTCCAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.14
4 24 0.55
5 11 0.25
6 3 0.07
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:9194214 original size:35 final size:35
Alignment explanation
Indices: 9194108--9194214 Score: 115
Period size: 35 Copynumber: 3.1 Consensus size: 35
9194098 ATTAACAACC
* * *
9194108 AAACCGCACCTTTCAGCCTTCAAAATCAACAACTA
1 AAACCACACCTTTCAGCCTTCAAAATCAGCAACAA
* * * *
9194143 AAACCATACCGTTCAGCCTTCAAAATCAGTAGCAA
1 AAACCACACCTTTCAGCCTTCAAAATCAGCAACAA
** * *
9194178 AAATTACACTTTTCAACCTTCAAAATCAGCAACAA
1 AAACCACACCTTTCAGCCTTCAAAATCAGCAACAA
9194213 AA
1 AA
9194215 GCTGCTCCTC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (35 bp):
AAACCACACCTTTCAGCCTTCAAAATCAGCAACAA
Found at i:9206121 original size:81 final size:81
Alignment explanation
Indices: 9205986--9206170 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 81
9205976 GGCCTCATAG
* * * * **
9205986 CGCACAT-GGCATATATCATCATCATCATGTGCAATCTCACATCGTGCACAACTAATGCCATCAT
1 CGCACATAGGCA-ATCTCATCATCATCACGTACAACCTCACATCGCCCACAACTAATGCCATCAT
*
9206050 GTGCTCCCCCCACATCA
65 GTGCTCCCCCCAAATCA
* *
9206067 CGCACATAGGCAATCTCATTATCATCACGTACACCCTCACATCGCCCACAACTAATGCCATCATG
1 CGCACATAGGCAATCTCATCATCATCACGTACAACCTCACATCGCCCACAACTAATGCCATCATG
*
9206132 TGCTCCCCCCAAATCG
66 TGCTCCCCCCAAATCA
** *
9206148 CATACATAAGCAATCTCATCATC
1 CGCACATAGGCAATCTCATCATC
9206171 CACACTCCCT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 85 0.96
82 4 0.04
ACGTcount: A:0.30, C:0.36, G:0.11, T:0.23
Consensus pattern (81 bp):
CGCACATAGGCAATCTCATCATCATCACGTACAACCTCACATCGCCCACAACTAATGCCATCATG
TGCTCCCCCCAAATCA
Found at i:9207477 original size:23 final size:23
Alignment explanation
Indices: 9207447--9207493 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
9207437 AGTAGGTTTA
*
9207447 AAGTAT-AAATGAATGATGAAAAT
1 AAGTATAAAATG-ATGAAGAAAAT
9207470 AAGTATAAAATGATGAAGAAAAT
1 AAGTATAAAATGATGAAGAAAAT
9207493 A
1 A
9207494 GAAATAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (23 bp):
AAGTATAAAATGATGAAGAAAAT
Found at i:9208459 original size:2 final size:2
Alignment explanation
Indices: 9208446--9208480 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9208436 TATTGGTGTT
*
9208446 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9208481 TTATGTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9224502 original size:28 final size:28
Alignment explanation
Indices: 9224484--9224561 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
9224474 TTCGGAGCAT
9224484 AGGGGTAAAATGGTAATTTTACCAACTC
1 AGGGGTAAAATGGTAATTTTACCAACTC
* * *
9224512 AGGGGTAAAATGGTAATTTTGCCACCTT
1 AGGGGTAAAATGGTAATTTTACCAACTC
* *
9224540 AGGGGTAAAATTGTGATTTTAC
1 AGGGGTAAAATGGTAATTTTAC
9224562 ACACCCGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (28 bp):
AGGGGTAAAATGGTAATTTTACCAACTC
Found at i:9233190 original size:10 final size:10
Alignment explanation
Indices: 9233155--9233193 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
9233145 TTGTGGCTGA
9233155 ATTTGATGAT
1 ATTTGATGAT
*
9233165 ATTTCATGAT
1 ATTTGATGAT
*
9233175 ATTTTGGTGAT
1 A-TTTGATGAT
9233186 ATTTGATG
1 ATTTGATG
9233194 TTTGGTGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (10 bp):
ATTTGATGAT
Found at i:9237344 original size:18 final size:18
Alignment explanation
Indices: 9237314--9237356 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9237304 AAAGGTGAGT
9237314 AATAGAAAGCTTAAGGGA
1 AATAGAAAGCTTAAGGGA
9237332 AATAGGAAA-CTTAAGGGA
1 AATA-GAAAGCTTAAGGGA
*
9237350 AACAGAA
1 AATAGAA
9237357 GATAGGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 16 0.70
19 4 0.17
ACGTcount: A:0.53, C:0.07, G:0.26, T:0.14
Consensus pattern (18 bp):
AATAGAAAGCTTAAGGGA
Found at i:9238284 original size:73 final size:73
Alignment explanation
Indices: 9238188--9238326 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 73
9238178 TGGAGTTGGT
* * ** * *
9238188 GAGTTCAGAAACAAAATCAACTTAATCGACTAA-AAGATATTGTTAGTCGACTAAGTGCTTACTG
1 GAGTTCAAAAACAAAACCAACTTAATCGACTAAGAAGA-ATCATTAGTCGACTAAGAGCCTACTG
9238252 CCAAAAGCC
65 CCAAAAGCC
* * *
9238261 GAGTTCAAAAACAGAACCGACTTAATCGACTAAGAGGAATCATTAGTCGACTAAGAGCCTACTGC
1 GAGTTCAAAAACAAAACCAACTTAATCGACTAAGAAGAATCATTAGTCGACTAAGAGCCTACTGC
9238326 C
66 C
9238327 TGAAACTGGG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 53 0.95
74 3 0.05
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (73 bp):
GAGTTCAAAAACAAAACCAACTTAATCGACTAAGAAGAATCATTAGTCGACTAAGAGCCTACTGC
CAAAAGCC
Found at i:9238993 original size:19 final size:19
Alignment explanation
Indices: 9238955--9238993 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9238945 AAAATTTTGA
**
9238955 AATAAAATAATATTTTATT
1 AATAAAATAATATTAAATT
*
9238974 AATAAAATAGTATTAAATT
1 AATAAAATAATATTAAATT
9238993 A
1 A
9238994 TTAATATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AATAAAATAATATTAAATT
Found at i:9239558 original size:20 final size:21
Alignment explanation
Indices: 9239533--9239587 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
9239523 GATCAGTTGG
*
9239533 AAGAAAGGAGAAAG-GAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
9239553 AAGAAAGGAGAAAGAAAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
*
9239574 GAGAAAGGAAGAAA
1 AAGAAAGG-AGAAA
9239588 AAGCTTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 14 0.45
21 12 0.39
22 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGAAAGGAGAAAGAAAAAGA
Found at i:9251326 original size:21 final size:21
Alignment explanation
Indices: 9251295--9251348 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
9251285 TGACTATCTC
9251295 GCTGCAGCGAGATTCA-TTTT
1 GCTGCAGCGAGATTCATTTTT
*
9251315 GACTGTAGCGAGATTCATTTTT
1 G-CTGCAGCGAGATTCATTTTT
9251337 GCTGCAGCGAGA
1 GCTGCAGCGAGA
9251349 ACCAGTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 5 0.17
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (21 bp):
GCTGCAGCGAGATTCATTTTT
Found at i:9253126 original size:27 final size:28
Alignment explanation
Indices: 9253074--9253126 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
9253064 CAAGTGCTGG
*
9253074 GGTGAAAAATTTACCGATTTGCCCCCGA
1 GGTGAAAAATTTACCGATTTGACCCCGA
*
9253102 GGTGAAAAATTTA-CGATTTTACCCC
1 GGTGAAAAATTTACCGATTTGACCCC
9253127 TATACTCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (28 bp):
GGTGAAAAATTTACCGATTTGACCCCGA
Found at i:9258515 original size:768 final size:768
Alignment explanation
Indices: 9257036--9258568 Score: 2850
Period size: 768 Copynumber: 2.0 Consensus size: 768
9257026 GTGATGTTTG
* *
9257036 CAAACCTATCAAACATGATGGTGATGTTTTCACCAGGCTCCATTTTGAACATTTTATAACTATGT
1 CAAACCTATCAAACATGATGGTGATGTCTTCACCAGGCTCCATTTTAAACATTTTATAACTATGT
*
9257101 GTTAAGAAAGCAATTTTGGACTCTTTTACTTGAGAAGTCCCTTCATAGATTATTCTAAGTTTTTC
66 GTTAAGAAAGCAATTTTGGACTCCTTTACTTGAGAAGTCCCTTCATAGATTATTCTAAGTTTTTC
*
9257166 CCACACTTGTTTGGCTGTTGTACAGCTTAAGACTTTGTTAAATTTAGTGGGGGTTAATGCACGAT
131 CCACACTTGTTTGGCTGTTGTACAACTTAAGACTTTGTTAAATTTAGTGGGGGTTAATGCACGAT
9257231 GCAATATGTTGATAGCCTTAAAGTTTATTTGAACTTTCTTAGTTTCAGCCTCAGTCCAGTCAGAC
196 GCAATATGTTGATAGCCTTAAAGTTTATTTGAACTTTCTTAGTTTCAGCCTCAGTCCAGTCAGAC
9257296 TTTGGCTTGGGCATCAACTCATTTGTCACCACATTCACTGTTGAGGGCATAAAAGGTCTATCAGT
261 TTTGGCTTGGGCATCAACTCATTTGTCACCACATTCACTGTTGAGGGCATAAAAGGTCTATCAGT
* *** *
9257361 TATGACGTCTTGCATTTCATAGTCTATAGCTCTAATGTAAATTGACATTCTAGTGCTCCAATAAG
326 TATGACATCCCACATTTCATAGTCTATAGCTCTAATGTAAATTGACATTCTAGTGCTCCAATAAA
* *
9257426 GGTAATTAGAGCCATCAAACAGAGGTGGTCCATTTGTTGATTGTCCTTTAGCCACTACTAATTTT
391 GGTAATTAAAGCCATCAAACAGAGGTGGTCCATTTGTTGATTGTCCCTTAGCCACTACTAATTTT
9257491 TGGAAAGCCATATGGATCCTCCCTAAGGATGTTAAGCCTTAATAACAGGAAACTAGCTCTGATAC
456 TGGAAAGCCATATGGATCCTCCCTAAGGATGTTAAGCCTTAATAACAGGAAACTAGCTCTGATAC
9257556 CAATTGTTGGTCCCTATAATATGTGCTAGAGGGGGGTGAATAGCACAATTTGGCTCTTAACAATA
521 CAATTGTTGGTCCCTATAATATGTGCTAGAGGGGGGTGAATAGCACAATTTGGCTCTTAACAATA
9257621 TTGGAAACTAATTTCCAAAACTTATGAAAATAAAAACAAAGTATAAGATGCACAGCAATTTAGAG
586 TTGGAAACTAATTTCCAAAACTTATGAAAATAAAAACAAAGTATAAGATGCACAGCAATTTAGAG
*
9257686 TGGTTCGGTCCAAGACCTACATCCAATACCTTGATTATCCAACCAAGGATTTTCCCACAAATCCA
651 TGGTTCGGTCCAAGACCTACATCCAACACCTTGATTATCCAACCAAGGATTTTCCCACAAATCCA
*
9257751 CTAAGGACTGGTGAAATTCACAAGTTTTCACCAAGCTTTACAATGGCTTTCAC
716 CTAAGGACTGGTGAAATTCACAAGCTTTCACCAAGCTTTACAATGGCTTTCAC
* *
9257804 CAAACCTATCAAACATGCTGGTGATGTCTTCACCAGGTTCCATTTTAAACATTTTATAACTATGT
1 CAAACCTATCAAACATGATGGTGATGTCTTCACCAGGCTCCATTTTAAACATTTTATAACTATGT
*
9257869 GTTAAGAAAGCAATTTTGGACTCCTTTACTTGAGAAGTCCCTTCATAGATTATTCTAAGTTTTTT
66 GTTAAGAAAGCAATTTTGGACTCCTTTACTTGAGAAGTCCCTTCATAGATTATTCTAAGTTTTTC
*
9257934 CCACACTTGTTTGGTTGTTGTACAACTTAAGACTTTGTTAAATTTAGTGGGGGTTAATGCACGAT
131 CCACACTTGTTTGGCTGTTGTACAACTTAAGACTTTGTTAAATTTAGTGGGGGTTAATGCACGAT
*
9257999 GCAATATGTTGATAGCCTTAAAGTTTATTTGAACTTTCTTAGTTTCAGCCTCAGTCCATTCAGAC
196 GCAATATGTTGATAGCCTTAAAGTTTATTTGAACTTTCTTAGTTTCAGCCTCAGTCCAGTCAGAC
*
9258064 TTTGGCTTGGGCATCAACTCATTTGTCACCACATTCACTGTTGAGGGCATAAAGGGTCTATCAGT
261 TTTGGCTTGGGCATCAACTCATTTGTCACCACATTCACTGTTGAGGGCATAAAAGGTCTATCAGT
9258129 TATGACATCCCACATTTCATAGTCTATAGCTCTAATGTAAATTGACATTCTAGTGCTCCAATAAA
326 TATGACATCCCACATTTCATAGTCTATAGCTCTAATGTAAATTGACATTCTAGTGCTCCAATAAA
9258194 GGTAATTAAAGCCATCAAACAGAGGTGGTCCATTTGTTGATTGTCCCTTAGCCACTACTAATTTT
391 GGTAATTAAAGCCATCAAACAGAGGTGGTCCATTTGTTGATTGTCCCTTAGCCACTACTAATTTT
*
9258259 TGGAAAGCCATATGGATCCTCCCTAAGGATGTTAAGCCTTAATAACAGGGAACTAGCTCTGATAC
456 TGGAAAGCCATATGGATCCTCCCTAAGGATGTTAAGCCTTAATAACAGGAAACTAGCTCTGATAC
9258324 CAATTGTTGGTCCCTATAATATGTGCTAGAGGGGGGTGAATAGCACAATTTGGCTCTTAACAATA
521 CAATTGTTGGTCCCTATAATATGTGCTAGAGGGGGGTGAATAGCACAATTTGGCTCTTAACAATA
9258389 TTGGAAACTAATTTCCAAAACTTATGAAAATAAAAACAAAGTATAAGATGCACAGCAATTTAGAG
586 TTGGAAACTAATTTCCAAAACTTATGAAAATAAAAACAAAGTATAAGATGCACAGCAATTTAGAG
* * *
9258454 TGGTTCGGTCCAAGACGTACATCCAACACCTTGATTATCGAACCAAGGATTTTCTCACAAATCCA
651 TGGTTCGGTCCAAGACCTACATCCAACACCTTGATTATCCAACCAAGGATTTTCCCACAAATCCA
*
9258519 TTAAGGACTGGTGAAATTCACAAGCTTTCACCAAGCTTTACAATGGCTTT
716 CTAAGGACTGGTGAAATTCACAAGCTTTCACCAAGCTTTACAATGGCTTT
9258569 TACTCGGCTC
Statistics
Matches: 741, Mismatches: 24, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
768 741 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (768 bp):
CAAACCTATCAAACATGATGGTGATGTCTTCACCAGGCTCCATTTTAAACATTTTATAACTATGT
GTTAAGAAAGCAATTTTGGACTCCTTTACTTGAGAAGTCCCTTCATAGATTATTCTAAGTTTTTC
CCACACTTGTTTGGCTGTTGTACAACTTAAGACTTTGTTAAATTTAGTGGGGGTTAATGCACGAT
GCAATATGTTGATAGCCTTAAAGTTTATTTGAACTTTCTTAGTTTCAGCCTCAGTCCAGTCAGAC
TTTGGCTTGGGCATCAACTCATTTGTCACCACATTCACTGTTGAGGGCATAAAAGGTCTATCAGT
TATGACATCCCACATTTCATAGTCTATAGCTCTAATGTAAATTGACATTCTAGTGCTCCAATAAA
GGTAATTAAAGCCATCAAACAGAGGTGGTCCATTTGTTGATTGTCCCTTAGCCACTACTAATTTT
TGGAAAGCCATATGGATCCTCCCTAAGGATGTTAAGCCTTAATAACAGGAAACTAGCTCTGATAC
CAATTGTTGGTCCCTATAATATGTGCTAGAGGGGGGTGAATAGCACAATTTGGCTCTTAACAATA
TTGGAAACTAATTTCCAAAACTTATGAAAATAAAAACAAAGTATAAGATGCACAGCAATTTAGAG
TGGTTCGGTCCAAGACCTACATCCAACACCTTGATTATCCAACCAAGGATTTTCCCACAAATCCA
CTAAGGACTGGTGAAATTCACAAGCTTTCACCAAGCTTTACAATGGCTTTCAC
Found at i:9261109 original size:21 final size:20
Alignment explanation
Indices: 9261084--9261143 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
9261074 AGATGTCTAA
9261084 AATAATTATTTGAAATAAAAT
1 AATAATTATTTG-AATAAAAT
* *
9261105 TATAATTGTTTGAATAAAAT
1 AATAATTATTTGAATAAAAT
*
9261125 AATAA-TA-TTCAATAAAAT
1 AATAATTATTTGAATAAAAT
9261143 A
1 A
9261144 TTCTATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 11 0.32
19 1 0.03
20 12 0.35
21 10 0.29
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (20 bp):
AATAATTATTTGAATAAAAT
Found at i:9262083 original size:13 final size:13
Alignment explanation
Indices: 9262065--9262089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9262055 TTTCAGAAAA
9262065 TTTATAAAATCAT
1 TTTATAAAATCAT
9262078 TTTATAAAATCA
1 TTTATAAAATCA
9262090 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9263337 original size:19 final size:19
Alignment explanation
Indices: 9263313--9263350 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9263303 ACTTCTAAAC
9263313 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
9263332 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
9263351 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:9266014 original size:15 final size:15
Alignment explanation
Indices: 9265994--9266039 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
9265984 TTCTTAAAAC
9265994 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
9266009 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
* *
9266024 AGCTTTAAAACCAAA
1 AACTTTAAAATCAAA
9266039 A
1 A
9266040 TCTCTAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:9266437 original size:20 final size:21
Alignment explanation
Indices: 9266392--9266438 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
9266382 AGATGTCTAA
*
9266392 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
9266413 TATAATTGTTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
9266433 AATAAT
1 AATAAT
9266439 ATTCAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:9267401 original size:13 final size:13
Alignment explanation
Indices: 9267383--9267407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9267373 TTTCAGAAAA
9267383 TTTATAAAATCAT
1 TTTATAAAATCAT
9267396 TTTATAAAATCA
1 TTTATAAAATCA
9267408 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9270804 original size:21 final size:20
Alignment explanation
Indices: 9270779--9270822 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
9270769 TTAATTTAAG
9270779 TTATTTTAG-TTCAATATTACT
1 TTATTTT-GCTTCAAT-TTACT
*
9270800 TTATTTTGCTTTAATTTACT
1 TTATTTTGCTTCAATTTACT
9270820 TTA
1 TTA
9270823 AGATGAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (20 bp):
TTATTTTGCTTCAATTTACT
Found at i:9284766 original size:19 final size:20
Alignment explanation
Indices: 9284730--9284768 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
9284720 GTTTCAAACT
9284730 GATTACCATCATTTCTTAATC
1 GATTACCATCA-TTCTTAATC
9284751 GATTACCATC-TTCTTAAT
1 GATTACCATCATTCTTAAT
9284769 TGAAGCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
GATTACCATCATTCTTAATC
Found at i:9285977 original size:17 final size:18
Alignment explanation
Indices: 9285957--9285990 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9285947 TAAATTGCTT
9285957 TTGTT-TATTTTCTTCTC
1 TTGTTCTATTTTCTTCTC
*
9285974 TTGTTCTTTTTTCTTCT
1 TTGTTCTATTTTCTTCT
9285991 TTTTTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.03, C:0.18, G:0.06, T:0.74
Consensus pattern (18 bp):
TTGTTCTATTTTCTTCTC
Found at i:9286227 original size:10 final size:10
Alignment explanation
Indices: 9286212--9286244 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9286202 TGAAAGAGGG
9286212 AAAGAAAAAA
1 AAAGAAAAAA
9286222 AAAGAAAAAA
1 AAAGAAAAAA
*
9286232 AAA-ACAAAA
1 AAAGAAAAAA
9286241 AAAG
1 AAAG
9286245 GGAAAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:9287332 original size:29 final size:29
Alignment explanation
Indices: 9287271--9287334 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
9287261 AGTTAGTAAG
**
9287271 AGGGGTTTATTTGATCCAAAATAAAAGTTT
1 AGGGGTTTATTTGATCC-AAATAAAAGAAT
*
9287301 AGGGGTTTATTTGAATGC-AATAAAAGAAT
1 AGGGGTTTATTTG-ATCCAAATAAAAGAAT
9287330 AGGGG
1 AGGGG
9287335 CTAAATTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 14 0.47
30 13 0.43
31 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.31
Consensus pattern (29 bp):
AGGGGTTTATTTGATCCAAATAAAAGAAT
Found at i:9301482 original size:14 final size:15
Alignment explanation
Indices: 9301451--9301481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9301441 TTCTGTACAA
*
9301451 TTCAGAAAATAAATT
1 TTCAAAAAATAAATT
9301466 TTCAAAAAATAAATT
1 TTCAAAAAATAAATT
9301481 T
1 T
9301482 CCATTGCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (15 bp):
TTCAAAAAATAAATT
Found at i:9302401 original size:35 final size:35
Alignment explanation
Indices: 9302335--9302401 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
9302325 AACATGTTTT
* *
9302335 ATTTCTGTTTTTCTAAGAAAAAAATTGAAATAATG
1 ATTTCTGTTTTTCTAAGAAAAAAAATAAAATAATG
*
9302370 ATTT-TGTTTTTACTTAGAAAAAAAATAAAATA
1 ATTTCTGTTTTT-CTAAGAAAAAAAATAAAATA
9302402 GATTAGGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 7 0.25
35 21 0.75
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.40
Consensus pattern (35 bp):
ATTTCTGTTTTTCTAAGAAAAAAAATAAAATAATG
Found at i:9308701 original size:64 final size:64
Alignment explanation
Indices: 9308625--9308753 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
9308615 AATGGGAAAT
9308625 TTTCAAGATTCATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATG-TTATATA
1 TTTCAAGATTCATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTTTATATA
9308688 NTTTCAAGATTCATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTTTATATA
1 -TTTCAAGATTCATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTTTATATA
9308753 T
1 T
9308754 ACACATACAC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 57 0.89
65 7 0.11
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (64 bp):
TTTCAAGATTCATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTTTATATA
Found at i:9308775 original size:64 final size:63
Alignment explanation
Indices: 9308635--9308775 Score: 196
Period size: 64 Copynumber: 2.2 Consensus size: 63
9308625 TTTCAAGATT
* **
9308635 CATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTTATATANTTTCAAGATT
1 CATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTTATATA-TTACAAGAAC
*
9308699 CATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTT-TATATATACACATACA
1 CATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTTATATAT-TACA-AGA-A
9308763 C
63 C
9308764 CATCATG-CATAC
1 CATCATGCCATAC
9308776 CATCCTTCCA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
62 1 0.01
63 7 0.10
64 55 0.79
65 7 0.10
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.32
Consensus pattern (63 bp):
CATCATGCCATACAATCACAAACACTATCATAAACTTTCTATAATGTTATATATTACAAGAAC
Found at i:9308916 original size:42 final size:42
Alignment explanation
Indices: 9308789--9308917 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 42
9308779 CCTTCCATAC
* *
9308789 TCAGCTCATGTGCACTCTCTACTCGCACAT-GGTCGGGTCATCA
1 TCAGCTCATGTGCACTC-CTACACGCACATAGCT-GGGTCATCA
9308832 TCAGCTCATGTGCACTCCTACACTGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACAC-GCACATAGCTGGGTCATCA
* *
9308875 TCAGCTCATGTGCACTCCCACACACACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACGCACATAGCTGGGTCATCA
9308917 T
1 T
9308918 TATCACACAA
Statistics
Matches: 80, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
42 24 0.30
43 54 0.68
44 2 0.03
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (42 bp):
TCAGCTCATGTGCACTCCTACACGCACATAGCTGGGTCATCA
Found at i:9309772 original size:3 final size:3
Alignment explanation
Indices: 9309720--9309753 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
9309710 CATGAGAAAG
* *
9309720 GAA GAA GAA GAA GGA GAA GAA GAA AAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
9309754 TGTTGGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9316441 original size:42 final size:43
Alignment explanation
Indices: 9316363--9316444 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
9316353 CCATACTCAG
** *
9316363 CTCATGTACACTCCCTATTCGCACATGGCCGGGTCATCATCAA
1 CTCATGTACACTCCCTACACGCACATAGCCGGGTCATCATCAA
* *
9316406 CTCATGTGCACTCCC-ACACGCACATAGCTGGGTCATCAT
1 CTCATGTACACTCCCTACACGCACATAGCCGGGTCATCAT
9316445 TATCACACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 20 0.59
43 14 0.41
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.24
Consensus pattern (43 bp):
CTCATGTACACTCCCTACACGCACATAGCCGGGTCATCATCAA
Found at i:9321570 original size:35 final size:35
Alignment explanation
Indices: 9321383--9321569 Score: 218
Period size: 35 Copynumber: 5.3 Consensus size: 35
9321373 TATCAAGCAC
*
9321383 TTGATTAAAATTGTTTAATTAAG---TTGTGCCTAA
1 TTGATT-AAATTGTTTAATTAAGTCATTGGGCCTAA
*
9321416 TTGATTAAATTGTTTAATTAAATCATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTCATTGGGCCTAA
*
9321451 TTGATTATATTTGTTTTAATTAAGTCATTGGGCCTAA
1 TTGATTA-AATTG-TTTAATTAAGTCATTGGGCCTAA
* ** * *
9321488 TTGATTAAAATTGTTTAATTAAATTGTTGGGCTTTA
1 TTGATT-AAATTGTTTAATTAAGTCATTGGGCCTAA
* * *
9321524 TTAATTAAATTATTTAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTCATTGGGCCTAA
9321559 TTGATTAAATT
1 TTGATTAAATT
9321570 AAACAAATAA
Statistics
Matches: 131, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
32 15 0.11
33 6 0.05
35 50 0.38
36 27 0.21
37 32 0.24
38 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (35 bp):
TTGATTAAATTGTTTAATTAAGTCATTGGGCCTAA
Found at i:9326628 original size:21 final size:20
Alignment explanation
Indices: 9326604--9326651 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
9326594 ATCTTACCTT
*
9326604 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
9326625 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
9326646 TTTTTC
1 TTTTTC
9326652 CACCTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:9326651 original size:22 final size:22
Alignment explanation
Indices: 9326609--9326649 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9326599 ACCTTTTTTT
*
9326609 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
9326631 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
9326650 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:9326718 original size:11 final size:11
Alignment explanation
Indices: 9326662--9326718 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
9326652 CACCTAGGGT
9326662 TTTGTTCTTCC
1 TTTGTTCTTCC
9326673 -TT-TTCTTCC
1 TTTGTTCTTCC
* *
9326682 TTTCTTCTTAC
1 TTTGTTCTTCC
*
9326693 TTTCTTCTTCC
1 TTTGTTCTTCC
*
9326704 TTTGTTCTTGC
1 TTTGTTCTTCC
9326715 TTTG
1 TTTG
9326719 GCCGGCCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
9 7 0.17
10 4 0.10
11 29 0.73
ACGTcount: A:0.02, C:0.26, G:0.07, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:9345221 original size:82 final size:81
Alignment explanation
Indices: 9345079--9345241 Score: 299
Period size: 82 Copynumber: 2.0 Consensus size: 81
9345069 ACTTGTATGG
9345079 AAAGCAGCTTAATAAAAATTCCTTAACCAAATTGCATATTTTTCATCCAAAATATACACAATATT
1 AAAGCAGCTTAATAAAAATTCCTTAACCAAATTGCATATTTTTCATCCAAAATATACACAATATT
*
9345144 AAACCACCTATAAACC
66 AAACCACCCATAAACC
*
9345160 NAAAGCAGCTTAATAAAAATTCCTTAACCAAATTGCATATTTTTCATCCAAAATATGCACAATAT
1 -AAAGCAGCTTAATAAAAATTCCTTAACCAAATTGCATATTTTTCATCCAAAATATACACAATAT
9345225 TAAACCACCCATAAACC
65 TAAACCACCCATAAACC
9345242 TTAATATAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (81 bp):
AAAGCAGCTTAATAAAAATTCCTTAACCAAATTGCATATTTTTCATCCAAAATATACACAATATT
AAACCACCCATAAACC
Found at i:9345426 original size:68 final size:68
Alignment explanation
Indices: 9345351--9345479 Score: 172
Period size: 68 Copynumber: 1.9 Consensus size: 68
9345341 CTTTCACCCC
* * * * *
9345351 AAAAGCTG-TTACCTTTCCTCTCTCTT-CCTCACCCAAAGCCGACGGCATCTCTTCTCTCTCATT
1 AAAAGCTGCTT-CCTTTCCTCCCT-TTAACTCACCCAAAACCGACGGCACCTCTTCCCTCTCATT
9345414 ATCCT
64 ATCCT
*
9345419 AAAAGCTGCTTCCTTTCCTCCCTTTAACTCACCCAAAACCGGCGGCACCTCTTCCCTCTCA
1 AAAAGCTGCTTCCTTTCCTCCCTTTAACTCACCCAAAACCGACGGCACCTCTTCCCTCTCA
9345480 CTCACAACCG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 2 0.04
68 49 0.92
69 2 0.04
ACGTcount: A:0.20, C:0.40, G:0.09, T:0.30
Consensus pattern (68 bp):
AAAAGCTGCTTCCTTTCCTCCCTTTAACTCACCCAAAACCGACGGCACCTCTTCCCTCTCATTAT
CCT
Found at i:9347072 original size:35 final size:35
Alignment explanation
Indices: 9347025--9347101 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
9347015 TAAGATGCTC
*
9347025 AATTATATATGTAAGAACCGTAATGTAGGATGATT
1 AATTATAAATGTAAGAACCGTAATGTAGGATGATT
* * ***
9347060 GATTATAAATGTAGGAGTTGTAATGTAGGATGATT
1 AATTATAAATGTAAGAACCGTAATGTAGGATGATT
9347095 AATTATA
1 AATTATA
9347102 TTCCTAGTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (35 bp):
AATTATAAATGTAAGAACCGTAATGTAGGATGATT
Found at i:9347145 original size:36 final size:34
Alignment explanation
Indices: 9347085--9347173 Score: 117
Period size: 35 Copynumber: 2.6 Consensus size: 34
9347075 AGTTGTAATG
*
9347085 TAGGATGATTAATTATATTCCTAGTAGGTTTGATGA
1 TAGGATGATTAATTATATTCCTAGTAAGTTT-AT-A
*
9347121 -AGGATGATTAAATTATATTGCTAGTAAGTTTATA
1 TAGGATGATT-AATTATATTCCTAGTAAGTTTATA
*
9347155 TAGAATGATTAATTATATT
1 TAGGATGATTAATTATATT
9347174 AGGAGTAGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
34 10 0.21
35 19 0.40
36 19 0.40
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (34 bp):
TAGGATGATTAATTATATTCCTAGTAAGTTTATA
Found at i:9347188 original size:35 final size:34
Alignment explanation
Indices: 9347089--9347188 Score: 96
Period size: 35 Copynumber: 2.9 Consensus size: 34
9347079 GTAATGTAGG
* * *
9347089 ATGATTAATTATATTCCTAGTAGGTTTGATGAAGG
1 ATGATTAATTATATT-GTAGTAGGTTTTATGAAGA
*
9347124 ATGATTAAATTATATTGCTAGTAAG-TTTAT-ATAGA
1 ATGATT-AATTATATTG-TAGTAGGTTTTATGA-AGA
*
9347159 ATGATTAATTATATTAGGAGTAGGTTTTAT
1 ATGATTAATTATATT-GTAGTAGGTTTTAT
9347189 TATTTTGGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
34 15 0.28
35 24 0.44
36 15 0.28
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (34 bp):
ATGATTAATTATATTGTAGTAGGTTTTATGAAGA
Found at i:9368863 original size:43 final size:42
Alignment explanation
Indices: 9368778--9368906 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 42
9368768 TGGTGTGATA
* * * *
9368778 ATGATGACCCAGCTATGAGCATGTGGGAGTGCACATGTGCTG
1 ATGATGACCCAGCTATGTGGATGTAGGAGTGCACATGAGCTG
*
9368820 ATGATGACCTAGCTATGTGTGATGTAGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTG-GATGTAGGAGTGCACATGAGCTG
* *
9368863 ATGATGACCCGGCCATGTGCGA-GTAGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTG-GATGTA-GGAGTGCACATGAGCTG
9368906 A
1 A
9368907 GTGTGGAGGG
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
42 20 0.26
43 56 0.74
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGGATGTAGGAGTGCACATGAGCTG
Found at i:9369144 original size:39 final size:38
Alignment explanation
Indices: 9369100--9369231 Score: 149
Period size: 39 Copynumber: 3.4 Consensus size: 38
9369090 TTCTCGTTGT
*
9369100 AGCGAGAAACATTCTGTTTTACTACTTGAAACTTGCTGC
1 AGCGAGAAACATTCTGTTTTACT-CTTGAAACTCGCTGC
* *
9369139 AGCGAGAAACATTCT-ATTTAGTCGCTTGAAACTCGCTGC
1 AGCGAGAAACATTCTGTTTTA--CTCTTGAAACTCGCTGC
* * *
9369178 AGCGAGAAACTTTCTGTTTTGCCTCTTGAATCTCGCTGC
1 AGCGAGAAACATTCTGTTTT-ACTCTTGAAACTCGCTGC
* *
9369217 AGGGAGAAACTTTCT
1 AGCGAGAAACATTCT
9369232 ATCCTACATG
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
38 4 0.05
39 72 0.90
40 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (38 bp):
AGCGAGAAACATTCTGTTTTACTCTTGAAACTCGCTGC
Found at i:9373642 original size:23 final size:23
Alignment explanation
Indices: 9373612--9373660 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
9373602 ATATATATTA
* *
9373612 ATCATCATGTACACCATCCCGTC
1 ATCATCATGCACACCATCCCATC
*
9373635 ATCATCATGCACATCATCCCATC
1 ATCATCATGCACACCATCCCATC
9373658 ATC
1 ATC
9373661 CCCAACTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.39, G:0.06, T:0.27
Consensus pattern (23 bp):
ATCATCATGCACACCATCCCATC
Found at i:9373744 original size:43 final size:43
Alignment explanation
Indices: 9373669--9373778 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
9373659 TCCCCAACTC
** * *
9373669 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACC-AGGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCACCGA-CTT
* *
9373712 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCATCGACTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCACCGACTT
* * *
9373755 ATGCCCACTCCTTACTTGCACATA
1 ATGCGCACTCCCTACTCGCACATA
9373779 GCCGAGTCGA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 56 0.98
44 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCACCGACTT
Found at i:9375767 original size:20 final size:20
Alignment explanation
Indices: 9375734--9375778 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
9375724 AATCAATTTT
*
9375734 TTTTCATTTTCTTTTCTTTG
1 TTTTCATTTTCTTTCCTTTG
9375754 TTTTC-TTTTCCTTTCCTTTG
1 TTTTCATTTT-CTTTCCTTTG
9375774 TTTTC
1 TTTTC
9375779 GTACTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTCATTTTCTTTCCTTTG
Found at i:9376660 original size:55 final size:55
Alignment explanation
Indices: 9376575--9376764 Score: 259
Period size: 55 Copynumber: 3.6 Consensus size: 55
9376565 TGCATGTGCG
* *
9376575 GTGTGGGAGTGCACATGAGCTAATGGCCGGTGGGTGATGATTCTAGCTATATGCA
1 GTGTGGGAGTGCACATGAGCTGATGACCGGTGGGTGATGATTCTAGCTATATGCA
*
9376630 GTGTGGGAGTGCACATGAACTGATGACCGGTGGGTGATGATTCTAGCTATATG-A
1 GTGTGGGAGTGCACATGAGCTGATGACCGGTGGGTGATGATTCTAGCTATATGCA
* * * *
9376684 ------GAGTGCACATGAGTTGATGACCGGTGGATGATGATTCCAGCTATGTGCA
1 GTGTGGGAGTGCACATGAGCTGATGACCGGTGGGTGATGATTCTAGCTATATGCA
9376733 GTGTGGGAGTGCACATGAGCTGATGAGCCGGT
1 GTGTGGGAGTGCACATGAGCTGATGA-CCGGT
9376765 AGTTGTATAC
Statistics
Matches: 118, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
48 42 0.36
49 1 0.01
54 1 0.01
55 69 0.58
56 5 0.04
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (55 bp):
GTGTGGGAGTGCACATGAGCTGATGACCGGTGGGTGATGATTCTAGCTATATGCA
Found at i:9376707 original size:48 final size:48
Alignment explanation
Indices: 9376636--9376727 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
9376626 TGCAGTGTGG
* *
9376636 GAGTGCACATGAACTGATGACCGGTGGGTGATGATTCTAGCTATATGA
1 GAGTGCACATGAACTGATGACCGGTGGATGATGATTCCAGCTATATGA
**
9376684 GAGTGCACATGAGTTGATGACCGGTGGATGATGATTCCAGCTAT
1 GAGTGCACATGAACTGATGACCGGTGGATGATGATTCCAGCTAT
9376728 GTGCAGTGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (48 bp):
GAGTGCACATGAACTGATGACCGGTGGATGATGATTCCAGCTATATGA
Found at i:9379013 original size:44 final size:45
Alignment explanation
Indices: 9378965--9379080 Score: 189
Period size: 44 Copynumber: 2.6 Consensus size: 45
9378955 GATTTATGCC
* *
9378965 ATGTGCGGTGTGGGAGAGTACATGATGCTGATGATGATA-TTGTA
1 ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTTATA
*
9379009 ATGTGCGGTGTGGGGGAGCACATGATGCTGATGATGATATTTATA
1 ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTTATA
*
9379054 ATGTGCGGTGTGGGAGTGCACATGATG
1 ATGTGCGGTGTGGGAGAGCACATGATG
9379081 TGTCACAGCC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 37 0.56
45 29 0.44
ACGTcount: A:0.23, C:0.09, G:0.38, T:0.30
Consensus pattern (45 bp):
ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTTATA
Found at i:9379967 original size:35 final size:35
Alignment explanation
Indices: 9379921--9380022 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 35
9379911 ACTCAGCCAA
* *
9379921 TGTGCACTCCCTACATGTACA-A-GGCAATATCATCG
1 TGTGCACTCCCTAC-T-CACACACGGCAACATCATCG
**
9379956 TGTGCACTCCCTACTCACACACTTCAACATCATCG
1 TGTGCACTCCCTACTCACACACGGCAACATCATCG
* **
9379991 TGTGCACTCCCTACTCGCACACATCAACATCA
1 TGTGCACTCCCTACTCACACACGGCAACATCA
9380023 CTATCCACAC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
33 3 0.05
34 2 0.03
35 54 0.92
ACGTcount: A:0.27, C:0.36, G:0.12, T:0.25
Consensus pattern (35 bp):
TGTGCACTCCCTACTCACACACGGCAACATCATCG
Found at i:9386782 original size:35 final size:35
Alignment explanation
Indices: 9386743--9386851 Score: 182
Period size: 35 Copynumber: 3.1 Consensus size: 35
9386733 ACAAGGCAAT
*
9386743 ATCATCGTGTGCACTCCTTACTCGCACACATCAAC
1 ATCATCGTGTGCACTCCCTACTCGCACACATCAAC
*
9386778 ATCATCGTGTGCACTCCCTACTCTCACACATCAAC
1 ATCATCGTGTGCACTCCCTACTCGCACACATCAAC
* *
9386813 ATCATCATGTGCATTCCCTACTCGCACACATCAAC
1 ATCATCGTGTGCACTCCCTACTCGCACACATCAAC
9386848 ATCA
1 ATCA
9386852 CTATCCACAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.28, C:0.38, G:0.09, T:0.26
Consensus pattern (35 bp):
ATCATCGTGTGCACTCCCTACTCGCACACATCAAC
Found at i:9393237 original size:37 final size:39
Alignment explanation
Indices: 9393195--9393296 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 39
9393185 ATACTGCTTG
* *
9393195 TGTGCACGATGCGGGGGGATGCATACAATG-CAT-TAAC-
1 TGTGCACGATGTGGGGGGATGCACACAATGAC-TCTAACA
* * * *
9393232 TGTGCATGATGTGAGGGGATGCACACGATGACTCTAGCTA
1 TGTGCACGATGTGGGGGGATGCACACAATGACTCTAAC-A
9393272 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
9393297 TGAGCTGGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
37 26 0.49
38 4 0.08
40 23 0.43
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.23
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACACAATGACTCTAACA
Found at i:9393329 original size:54 final size:54
Alignment explanation
Indices: 9393264--9393473 Score: 323
Period size: 54 Copynumber: 3.9 Consensus size: 54
9393254 ACACGATGAC
9393264 TCTAGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGATG
1 TCTAGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGATG
* *
9393318 TCTAGTTATGTGCATGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGATG
1 TCTAGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGATG
** * *
9393372 TCCGGCTATGTGCACGATGTAGGGAGATGCACATGAGCTGGGTGAGATGGG-TG
1 TCTAGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGATG
* * * *
9393425 TCTGGCTATGTGCACGATGTGGGGGGATGCATATGAGCCGGATGAGATG
1 TCTAGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATG
9393474 TGGTGGTATA
Statistics
Matches: 142, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 45 0.32
54 97 0.68
ACGTcount: A:0.20, C:0.13, G:0.42, T:0.25
Consensus pattern (54 bp):
TCTAGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGATG
Found at i:9411067 original size:2 final size:2
Alignment explanation
Indices: 9411060--9411090 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9411050 CATAATGTTG
9411060 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9411091 GCATTATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9411434 original size:53 final size:53
Alignment explanation
Indices: 9411265--9411448 Score: 253
Period size: 54 Copynumber: 3.4 Consensus size: 53
9411255 TCCGGCTATG
* *
9411265 TGCACGATGAGCTGAGTGAGATGGGATGTCAGGCTATGTGCATGATGTGGAGGGA
1 TGCAC-ATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATGATGTGGA-GGA
* *
9411320 TGCACATGAGCTGGGTGAGATGGGATGTCCAGCTATGTGCATGATGTGGGGGAA
1 TGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATGATGTGGAGG-A
* *
9411374 TGCACATGAGCTGGGTGAGATGGG-TGTCCGGCTATGTGCACGATGTAGCAGGA
1 TGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATGATGT-GGAGGA
* *
9411427 TGTACATGAGCTGGATGAGATG
1 TGCACATGAGCTGGGTGAGATG
9411449 TGGTGGTATA
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
53 43 0.37
54 69 0.59
55 5 0.04
ACGTcount: A:0.23, C:0.13, G:0.40, T:0.24
Consensus pattern (53 bp):
TGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATGATGTGGAGGA
Found at i:9421087 original size:51 final size:50
Alignment explanation
Indices: 9421010--9421111 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 50
9421000 TTAGTAGGCT
*
9421010 ATGCCCATTGGGTCTATGTGCCGATCATGGCCCGAAAATTGGGCTATGAC
1 ATGCCCATTGGGTCTATGCGCCGATCATGGCCCGAAAATTGGGCTATGAC
9421060 ANTGCCCATTGGGTCTATGCGCCGATCATGGCCCGAAAATTGGGCTATGAC
1 A-TGCCCATTGGGTCTATGCGCCGATCATGGCCCGAAAATTGGGCTATGAC
9421111 A
1 A
9421112 GTAACCAAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (50 bp):
ATGCCCATTGGGTCTATGCGCCGATCATGGCCCGAAAATTGGGCTATGAC
Found at i:9422307 original size:2 final size:2
Alignment explanation
Indices: 9422300--9422340 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9422290 AATATGTGGT
9422300 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9422341 AAAGGAACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9422843 original size:22 final size:22
Alignment explanation
Indices: 9422815--9422856 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9422805 TTTTTGTTTT
9422815 AATTTTTTTTGAAATTTTTTAA
1 AATTTTTTTTGAAATTTTTTAA
* *
9422837 AATTTTTTTTTAATTTTTTT
1 AATTTTTTTTGAAATTTTTT
9422857 TGAAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
AATTTTTTTTGAAATTTTTTAA
Found at i:9422853 original size:10 final size:10
Alignment explanation
Indices: 9422806--9422857 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
9422796 ACTTTGACTT
9422806 TTTTGTTTTAA
1 TTTT-TTTTAA
9422817 TTTTTTTTGAAA
1 TTTTTTTT--AA
**
9422829 TTTTTTAAAA
1 TTTTTTTTAA
9422839 TTTTTTTTTAA
1 -TTTTTTTTAA
9422850 TTTTTTTT
1 TTTTTTTT
9422858 GAAACCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 14 0.41
11 12 0.35
12 8 0.24
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:9431398 original size:19 final size:21
Alignment explanation
Indices: 9431374--9431413 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9431364 ATTGAGAAAA
*
9431374 CTTGA-TTATTGT-CAATGTG
1 CTTGATTTAATGTACAATGTG
9431393 CTTGATTTAATGTACAATGTG
1 CTTGATTTAATGTACAATGTG
9431414 GCATGAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (21 bp):
CTTGATTTAATGTACAATGTG
Found at i:9432819 original size:38 final size:37
Alignment explanation
Indices: 9432777--9432870 Score: 108
Period size: 35 Copynumber: 2.6 Consensus size: 37
9432767 CATAGCTAGA
9432777 ATCATC-TTGTGCACTCTCACAC-CGCACAAGGCA-AT
1 ATCATCATTGTGCACTC-CACACTCGCACAAGGCATAT
*
9432812 ATCATCA-TGTGCACTCC-CACTCGCACATGGCATAT
1 ATCATCATTGTGCACTCCACACTCGCACAAGGCATAT
9432847 ATCATCAATGTGTGCACTCACACA
1 ATCATC-AT-TGTGCACTC-CACA
9432871 TCACACCACT
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
33 3 0.06
34 11 0.22
35 23 0.46
36 1 0.02
38 9 0.18
39 1 0.02
40 2 0.04
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (37 bp):
ATCATCATTGTGCACTCCACACTCGCACAAGGCATAT
Found at i:9432895 original size:52 final size:52
Alignment explanation
Indices: 9432833--9432936 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
9432823 CACTCCCACT
* *
9432833 CGCACATGGCATATATCATCAATGTGTGCACTCACACATCACACCACTATCA
1 CGCACATGGCATATATCATCAACGTGTGCACTCACACAGCACACCACTATCA
* *
9432885 CGCACATGGCATATATCATCAGCGTGTGCACTCACATAGCACACCACTATCA
1 CGCACATGGCATATATCATCAACGTGTGCACTCACACAGCACACCACTATCA
9432937 TCGTCATGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (52 bp):
CGCACATGGCATATATCATCAACGTGTGCACTCACACAGCACACCACTATCA
Found at i:9434466 original size:17 final size:16
Alignment explanation
Indices: 9434446--9434481 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9434436 CAATATTACT
9434446 TATCCATACATATCATA
1 TATCCATACATAT-ATA
*
9434463 TATCCATATATATATA
1 TATCCATACATATATA
9434479 TAT
1 TAT
9434482 ATCAACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (16 bp):
TATCCATACATATATA
Found at i:9436255 original size:21 final size:22
Alignment explanation
Indices: 9436230--9436270 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9436220 CCTAGGTGGA
9436230 AAAATTCAA-GAAAAAAGTGTG
1 AAAATTCAAGGAAAAAAGTGTG
*
9436251 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAAAAAGTG
9436271 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.56, C:0.07, G:0.20, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAAAAAGTGTG
Found at i:9436275 original size:21 final size:20
Alignment explanation
Indices: 9436228--9436275 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
9436218 ACCCTAGGTG
9436228 GAAAAATTCAAGAAAAAAGT
1 GAAAAATTCAAGAAAAAAGT
* *
9436248 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAA-GAAAAAAGT
9436270 GAAAAA
1 GAAAAA
9436276 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 9 0.39
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGAAAAAAGT
Found at i:9436276 original size:22 final size:21
Alignment explanation
Indices: 9436229--9436276 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
9436219 CCCTAGGTGG
*
9436229 AAAAATTCAAGAAAAAAGTGT
1 AAAAATTCAAGAAAAAAGTGA
* *
9436250 GAAAATTCAAGGAAACAAGTGA
1 AAAAATTCAA-GAAAAAAGTGA
9436272 AAAAA
1 AAAAA
9436277 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.62, C:0.06, G:0.17, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGAAAAAAGTGA
Found at i:9443281 original size:21 final size:20
Alignment explanation
Indices: 9443257--9443310 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
9443247 TTAATGAGAG
9443257 AAATAA-AATGAACATATAGTA
1 AAATAATAAT-AACATATA-TA
*
9443278 AAATAATAATAATATATATA
1 AAATAATAATAACATATATA
*
9443298 AAAAAATAGATAA
1 AAATAATA-ATAA
9443311 AGATAGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.31
21 17 0.59
22 3 0.10
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (20 bp):
AAATAATAATAACATATATA
Found at i:9443812 original size:35 final size:35
Alignment explanation
Indices: 9443749--9443819 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
9443739 CTTTAGCTAT
*
9443749 TGATTTTGAAGGCTGGAAAGTGAAGTTTTGGTTGC
1 TGATTTTGAAGGCTGGAAAGTGAAGTTTTAGTTGC
* **
9443784 TGATTTTGAAGG-TTGAAAGGTGCGGTTTTAGTTGC
1 TGATTTTGAAGGCTGGAAA-GTGAAGTTTTAGTTGC
9443819 T
1 T
9443820 AATCTTTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 5 0.16
35 26 0.84
ACGTcount: A:0.21, C:0.06, G:0.34, T:0.39
Consensus pattern (35 bp):
TGATTTTGAAGGCTGGAAAGTGAAGTTTTAGTTGC
Found at i:9443909 original size:33 final size:34
Alignment explanation
Indices: 9443838--9443915 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
9443828 TAGTTTTGGT
* *
9443838 TGCTGATTTTTGAAGGGAAAGTAGAGCAGCTTAGC
1 TGCTGA-TTTTGAAGGGAAAGTAAAGCAGCTTAAC
9443873 TGCTGATTTTG-AGGAGAAA-TAAAGCAGCTTAAC
1 TGCTGATTTTGAAGG-GAAAGTAAAGCAGCTTAAC
*
9443906 TGCTAATTTT
1 TGCTGATTTT
9443916 TGTGTGGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
33 24 0.62
34 9 0.23
35 6 0.15
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.32
Consensus pattern (34 bp):
TGCTGATTTTGAAGGGAAAGTAAAGCAGCTTAAC
Found at i:9444185 original size:25 final size:25
Alignment explanation
Indices: 9444131--9444187 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
9444121 ATATGCATAT
9444131 AAATGGGCATGGCCCAATAAGGAAAG
1 AAATGGGCATGGCCCAATAA-GAAAG
9444157 -AATGGGCATGGCCCAATTAA-AAAG
1 AAATGGGCATGGCCCAA-TAAGAAAG
9444181 AAATGGG
1 AAATGGG
9444188 AGAAGTCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.14
25 22 0.76
26 3 0.10
ACGTcount: A:0.42, C:0.14, G:0.30, T:0.14
Consensus pattern (25 bp):
AAATGGGCATGGCCCAATAAGAAAG
Found at i:9455484 original size:67 final size:67
Alignment explanation
Indices: 9455402--9455529 Score: 186
Period size: 67 Copynumber: 1.9 Consensus size: 67
9455392 AAAGTTAGTG
* *
9455402 TTGGGTTTTGGTTGATCCCATGAAAAACCATTGTTAAAGGTTGTGGTGGAGCCTT-TGAAAAACC
1 TTGGGTTTTGATTGATCCCATGAAAAACCATTGTGAAAGGTTGTGGTGGAG-CTTGTGAAAAACC
9455466 ATT
65 ATT
* * * *
9455469 TTGGGTTTTGATTGATCCCGTGAAGAATCATTGTGAAAGGTTGTGGTTGAGCTTGTGAAAA
1 TTGGGTTTTGATTGATCCCATGAAAAACCATTGTGAAAGGTTGTGGTGGAGCTTGTGAAAA
9455530 GCTGTAATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 3 0.06
67 51 0.94
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (67 bp):
TTGGGTTTTGATTGATCCCATGAAAAACCATTGTGAAAGGTTGTGGTGGAGCTTGTGAAAAACCA
TT
Found at i:9455808 original size:18 final size:19
Alignment explanation
Indices: 9455785--9455824 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9455775 ACAAGAGAAA
*
9455785 ATTTTA-GAATAAAATAGT
1 ATTTTATGAATAAAATAAT
*
9455803 ATTTTATTAATAAAATAAT
1 ATTTTATGAATAAAATAAT
9455822 ATT
1 ATT
9455825 AAAATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATTTTATGAATAAAATAAT
Found at i:9456443 original size:18 final size:18
Alignment explanation
Indices: 9456417--9456453 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9456407 TAAACCCTAG
9456417 GAGAAGAAGAAAGAAAAA
1 GAGAAGAAGAAAGAAAAA
* *
9456435 GAGAGGAAGGAAGAAAAA
1 GAGAAGAAGAAAGAAAAA
9456453 G
1 G
9456454 CTTGGTTTTA
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
GAGAAGAAGAAAGAAAAA
Found at i:9456882 original size:22 final size:22
Alignment explanation
Indices: 9456854--9456897 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9456844 CTTGGTGGCA
9456854 ACATGTAAA-TGAGAATAGTGTT
1 ACATGTAAACTGAGAA-AGTGTT
*
9456876 ACATGTAAACTTAGAAAGTGTT
1 ACATGTAAACTGAGAAAGTGTT
9456898 TGATAGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (22 bp):
ACATGTAAACTGAGAAAGTGTT
Found at i:9457643 original size:38 final size:38
Alignment explanation
Indices: 9457594--9457701 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
9457584 GTGGGCGATA
* *
9457594 ATATTATTTGTGCACAATGTGGGGGGATGCACATAATG
1 ATATTAGTTGTGCACAATGTGGGGGGATGCACACAATG
* * *
9457632 ATATT-GCTTGTGCACGATGTGGGGGGATACACACGATG
1 ATATTAG-TTGTGCACAATGTGGGGGGATGCACACAATG
* *
9457670 GTATTAGATGTGCACAATGTGGGGGGATGCAC
1 ATATTAGTTGTGCACAATGTGGGGGGATGCAC
9457702 TCGATGACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 58 0.98
39 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (38 bp):
ATATTAGTTGTGCACAATGTGGGGGGATGCACACAATG
Found at i:9459413 original size:38 final size:40
Alignment explanation
Indices: 9459365--9459465 Score: 143
Period size: 38 Copynumber: 2.6 Consensus size: 40
9459355 AGTGTCCGTG
* *
9459365 TGCACGATGTGGGGGGATGTACACGATGGCACTGA-T-TA
1 TGCACGATGTGGGGGGATGCACACGATGGCACCGACTATA
* * *
9459403 TGCATGATGTGGGGGGATGCACACGATGGCGCCGACTATG
1 TGCACGATGTGGGGGGATGCACACGATGGCACCGACTATA
9459443 TGCACGATGTGGGGGGATGCACA
1 TGCACGATGTGGGGGGATGCACA
9459466 TGAGCCGTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 31 0.56
39 1 0.02
40 23 0.42
ACGTcount: A:0.22, C:0.18, G:0.40, T:0.21
Consensus pattern (40 bp):
TGCACGATGTGGGGGGATGCACACGATGGCACCGACTATA
Found at i:9459510 original size:18 final size:18
Alignment explanation
Indices: 9459489--9459542 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
9459479 ATTATGATGA
9459489 TATTAATGTTTATCTATG
1 TATTAATGTTTATCTATG
*
9459507 TATTGATGTTTATCTATG
1 TATTAATGTTTATCTATG
* **
9459525 TATTTATGCATATCTATG
1 TATTAATGTTTATCTATG
9459543 CTTATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (18 bp):
TATTAATGTTTATCTATG
Found at i:9461576 original size:26 final size:26
Alignment explanation
Indices: 9461524--9461576 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
9461514 CCCCAACTTC
*
9461524 TTTCTATTGGGCCATGCCCATTATTT
1 TTTCTATTGGGCCATGCCCACTATTT
9461550 TTTCTTATTGGGCCATGCCCACT-TTT
1 TTTC-TATTGGGCCATGCCCACTATTT
9461576 T
1 T
9461577 CATTTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.13, C:0.25, G:0.15, T:0.47
Consensus pattern (26 bp):
TTTCTATTGGGCCATGCCCACTATTT
Found at i:9461599 original size:5 final size:5
Alignment explanation
Indices: 9461573--9461636 Score: 69
Period size: 5 Copynumber: 12.6 Consensus size: 5
9461563 CATGCCCACT
*
9461573 TTTTC ATTTTC ATTTTC TTTTTC TTTTC TTTTC TTTTC TTTTC TCTTC
1 TTTTC -TTTTC -TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
*
9461621 TCTT- TTTTC -TTTC TTT
1 TTTTC TTTTC TTTTC TTT
9461637 CACTGTTCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
4 7 0.13
5 30 0.57
6 16 0.30
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:9461631 original size:12 final size:11
Alignment explanation
Indices: 9461586--9461636 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
9461576 TCATTTTCAT
9461586 TTTC-TTTTTC
1 TTTCTTTTTTC
*
9461596 TTT-TCTTTTC
1 TTTCTTTTTTC
*
9461606 TTTTCTTTTCTC
1 -TTTCTTTTTTC
9461618 TTCTCTTTTTTC
1 TT-TCTTTTTTC
9461630 TTTCTTT
1 TTTCTTT
9461637 CACTGTTCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 8 0.24
11 10 0.30
12 15 0.45
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:9461831 original size:34 final size:34
Alignment explanation
Indices: 9461793--9461872 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
9461783 TATTGACTTC
*
9461793 AAAATTAGCAGC-TAAGCTGCTCTATT-TCTCCTAA
1 AAAATTAGCAGCTTAA-CTGCACTATTCTC-CCTAA
*
9461827 AAAATTAGCAGCTTAACTGCACTATTCTCCCTCA
1 AAAATTAGCAGCTTAACTGCACTATTCTCCCTAA
*
9461861 AAAATCAGCAGC
1 AAAATTAGCAGC
9461873 CAAAGCCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
34 36 0.88
35 5 0.12
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (34 bp):
AAAATTAGCAGCTTAACTGCACTATTCTCCCTAA
Found at i:9464975 original size:46 final size:46
Alignment explanation
Indices: 9464916--9465048 Score: 191
Period size: 43 Copynumber: 3.0 Consensus size: 46
9464906 TCATTCATCG
* *
9464916 TCATGTGCACTCCCTACTCGCACATAGCCTGGTCATCATCATCAGC
1 TCATGTGCACTCCCTACTCACACATAGCCAGGTCATCATCATCAGC
*
9464962 TCATGTGCACTCCCTACTCACACATAGCCAGG---TCATCATCGGC
1 TCATGTGCACTCCCTACTCACACATAGCCAGGTCATCATCATCAGC
* * *
9465005 TTATGCGCACTCCCTACTCACACATAGCCGGGTCATCATCATCA
1 TCATGTGCACTCCCTACTCACACATAGCCAGGTCATCATCATCA
9465049 CACAACATTA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
43 39 0.51
46 38 0.49
ACGTcount: A:0.23, C:0.37, G:0.15, T:0.25
Consensus pattern (46 bp):
TCATGTGCACTCCCTACTCACACATAGCCAGGTCATCATCATCAGC
Found at i:9465065 original size:20 final size:21
Alignment explanation
Indices: 9465040--9465084 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9465030 AGCCGGGTCA
9465040 TCATC-ATCACACAACAT-TAT
1 TCATCAAT-ACACAACATATAT
*
9465060 TCATCAATGCACAACATATAT
1 TCATCAATACACAACATATAT
9465081 TCAT
1 TCAT
9465085 GTATATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (21 bp):
TCATCAATACACAACATATAT
Found at i:9466114 original size:134 final size:133
Alignment explanation
Indices: 9465874--9466130 Score: 487
Period size: 134 Copynumber: 1.9 Consensus size: 133
9465864 CTTAACTTCA
9465874 CTTGAGCACTATTCATCAATTTCATATTTTTTTCTTTACTTTAGTCTTATGAGAAATCATAAAAG
1 CTTGAGCACTATTCATCAATTTCATATTTTTTTCTTTACTTTAGTCTTATGAGAAATCATAAAAG
* *
9465939 AATTTTTTAACTATTGTATTAAAGTAATTTAAATTTAATTCATATCACTAATAACCAANCTTCCG
66 AATTTTTTAAATATTATATTAAAGTAATTTAAATTTAATTCATATCACTAATAACCAA-CTTCCG
9466004 ATCT
130 ATCT
9466008 CTTGAGCACTATTCATCAATTTCATATTTTTTTCTTTACTTTAGTCTTATGAGAAATCATAAAAG
1 CTTGAGCACTATTCATCAATTTCATATTTTTTTCTTTACTTTAGTCTTATGAGAAATCATAAAAG
9466073 AATTTTTTAAATATTATATTAAAGTAATTTAAATTTAATTCATATCACTAATAACCAA
66 AATTTTTTAAATATTATATTAAAGTAATTTAAATTTAATTCATATCACTAATAACCAA
9466131 AATTTAACTA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 121 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (133 bp):
CTTGAGCACTATTCATCAATTTCATATTTTTTTCTTTACTTTAGTCTTATGAGAAATCATAAAAG
AATTTTTTAAATATTATATTAAAGTAATTTAAATTTAATTCATATCACTAATAACCAACTTCCGA
TCT
Found at i:9466554 original size:92 final size:92
Alignment explanation
Indices: 9466414--9466707 Score: 374
Period size: 92 Copynumber: 3.2 Consensus size: 92
9466404 TTTCTATCCC
* * * * * * * *
9466414 TTTCAACCTT-AAAAATCAGCAACTTAAGCTACTCATTTCACCCGTAAAATTGACAGCCAAAACC
1 TTTCAGCCTTCAAAAATCAGCAGCTAAAGCTGCTCATCTCACCCTTAAAACTGGCAGCCAAAACC
*
9466478 TCAAAAATCAGCAGCCAAAGTTACTCA
66 TCAAAAATCAGCAGCCAAAGTTACTCT
* * *
9466505 TTTCAGCTTTCAAAAATCAGCAGGTAAAGCTGCTAATCTCACCCTTAAAACTGGCAGCCAAAACC
1 TTTCAGCCTTCAAAAATCAGCAGCTAAAGCTGCTCATCTCACCCTTAAAACTGGCAGCCAAAACC
* * *
9466570 TCAAAAATCAACAGCCATAGCTACTCTT
66 TCAAAAATCAGCAGCCAAAGTTACTC-T
* * * *
9466598 TTTCAGCCTTCAAAAATTAGTAGCTAAAGCTGCTCATCTCACCCTCAAAACTGGCAACCAAAACC
1 TTTCAGCCTTCAAAAATCAGCAGCTAAAGCTGCTCATCTCACCCTTAAAACTGGCAGCCAAAACC
* *
9466663 TCAAAAATCAGTAGCCAAAGTTGCTCT
66 TCAAAAATCAGCAGCCAAAGTTACTCT
*
9466690 TTTCAGCCTTCCAAAATC
1 TTTCAGCCTTCAAAAATC
9466708 GACCTTTTCT
Statistics
Matches: 172, Mismatches: 29, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
91 8 0.05
92 85 0.49
93 79 0.46
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (92 bp):
TTTCAGCCTTCAAAAATCAGCAGCTAAAGCTGCTCATCTCACCCTTAAAACTGGCAGCCAAAACC
TCAAAAATCAGCAGCCAAAGTTACTCT
Found at i:9471790 original size:43 final size:43
Alignment explanation
Indices: 9471693--9471862 Score: 223
Period size: 43 Copynumber: 3.9 Consensus size: 43
9471683 ATTCATCGTC
* * *
9471693 ATGTGCACTCCCTACTCGCACATAGCCCGGTCATCATCATCCGCTC
1 ATGTGCACTCCCTACTCGCACATAG-CCGG--GTCATCATCGGCTT
*
9471739 ATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCGGCTT
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGCTT
* * * *
9471782 ATGCGCACTCCCTACTCGTACATAGCCAGGTCATCATCGGTTT
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGCTT
* *
9471825 ATGTGCACTCCCTACTTGTACATAGCCGGGTCATCATC
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATC
9471863 ATCATTCAAC
Statistics
Matches: 112, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
43 84 0.75
45 3 0.03
46 25 0.22
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGCTT
Found at i:9473254 original size:91 final size:91
Alignment explanation
Indices: 9473110--9473389 Score: 276
Period size: 91 Copynumber: 3.1 Consensus size: 91
9473100 TTTCAACCTA
* * * * * * * *
9473110 AAAAATCAGCAACCT-AAGCTGCTTATTTCACCCTCAAAATTGGCTGCCAAAACCTTAAAAATCA
1 AAAAATCAGC-AGCTAAAGCTGCTCATCTCACACTCAAAATCGACAGCCAAAACCTAAAAAATCA
* ** *
9473174 GCAACCAAAGTTGTTTCTTTCAGCCTTC
65 GCAACCAAAGCTACTCCTTTC-GCCTTC
* * * *
9473202 AAAAATCAGTAGCTAAAGCTGCTCATCTC-CCCTCAAAATCGATAGCCAAAACCTCAAAAATCAG
1 AAAAATCAGCAGCTAAAGCTGCTCATCTCACACTCAAAATCGACAGCCAAAACCTAAAAAATCAG
* * *
9473266 TAGCGAAAGCTACTCCTTTCGCCTTC
66 CAACCAAAGCTACTCCTTTCGCCTTC
* * * *
9473292 AAAAATCAGCAGCTAAAGCTGCTCATCTCACATTCAAAATTGACAGCTAAAACCTAAAAAATAAG
1 AAAAATCAGCAGCTAAAGCTGCTCATCTCACACTCAAAATCGACAGCCAAAACCTAAAAAATCAG
* * * *
9473357 TAGCCAAAGCTACTCTTTTCAGCCTTA
66 CAACCAAAGCTACTCCTTTC-GCCTTC
9473384 AAAAAT
1 AAAAAT
9473390 TGGCCCTTTC
Statistics
Matches: 158, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
90 34 0.22
91 92 0.58
92 32 0.20
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.24
Consensus pattern (91 bp):
AAAAATCAGCAGCTAAAGCTGCTCATCTCACACTCAAAATCGACAGCCAAAACCTAAAAAATCAG
CAACCAAAGCTACTCCTTTCGCCTTC
Found at i:9473328 original size:35 final size:35
Alignment explanation
Indices: 9473255--9473330 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
9473245 AGCCAAAACC
* * * * *
9473255 TCAAAAATCAGTAGCGAAAGCTACTCCTTTCGCCT
1 TCAAAAATCAGCAGCGAAAGCTACTCATCTCACAT
* *
9473290 TCAAAAATCAGCAGCTAAAGCTGCTCATCTCACAT
1 TCAAAAATCAGCAGCGAAAGCTACTCATCTCACAT
9473325 TCAAAA
1 TCAAAA
9473331 TTGACAGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.24
Consensus pattern (35 bp):
TCAAAAATCAGCAGCGAAAGCTACTCATCTCACAT
Found at i:9476493 original size:38 final size:40
Alignment explanation
Indices: 9476395--9476500 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 40
9476385 CACACCCAGC
* * *
9476395 TCATGTGCATCCCCCCACATCATGCACATAGCCGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCA
* * *
9476435 TCGTGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCA
1 TCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCA
*
9476473 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
9476501 CGGGCACTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 31 0.53
39 1 0.02
40 26 0.45
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.21
Consensus pattern (40 bp):
TCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCA
Found at i:9477415 original size:19 final size:19
Alignment explanation
Indices: 9477367--9477416 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
9477357 GATGGAAGGA
9477367 GGAAGAAGAAGAAGCTGCT
1 GGAAGAAGAAGAAGCTGCT
9477386 -GAA-AATTGAAGAAGCTGCT
1 GGAAGAA--GAAGAAGCTGCT
*
9477405 GGAAGGAGAAGA
1 GGAAGAAGAAGA
9477417 TATTTATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 2 0.08
18 3 0.12
19 17 0.65
20 3 0.12
21 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.36, T:0.12
Consensus pattern (19 bp):
GGAAGAAGAAGAAGCTGCT
Found at i:9479092 original size:39 final size:39
Alignment explanation
Indices: 9478969--9479102 Score: 128
Period size: 39 Copynumber: 3.5 Consensus size: 39
9478959 AAGGGAGCAT
*
9478969 GCAAGACAGAAAGTTTCTCGCTGCAGCGA-TATTCAAGAA
1 GCAAAACAGAAAGTTTCTCGCTGCAGCGAGT-TTCAAGAA
* * * * **
9479008 GCAAAACA-AAAGTTTCTCGCTGCAACAAGTTTTAGGTG
1 GCAAAACAGAAAGTTTCTCGCTGCAGCGAGTTTCAAGAA
* * * *
9479046 GCCAAACAGAATGTTTCTCGCTGTAGCGAGTTTCAAGCA
1 GCAAAACAGAAAGTTTCTCGCTGCAGCGAGTTTCAAGAA
* *
9479085 GTAAAACAGAATGTTTCT
1 GCAAAACAGAAAGTTTCT
9479103 TGCTACAGTG
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
38 29 0.39
39 46 0.61
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (39 bp):
GCAAAACAGAAAGTTTCTCGCTGCAGCGAGTTTCAAGAA
Found at i:9479377 original size:43 final size:42
Alignment explanation
Indices: 9479305--9479433 Score: 179
Period size: 43 Copynumber: 3.0 Consensus size: 42
9479295 CCCTCCACAC
* * *
9479305 TCAGCTCATGTGCACTCCCTACTCACACATGGCAGGGTCATCA
1 TCAGCTCATGTGCACT-CCTACACTCACATAGCAGGGTCATCA
*
9479348 TCAGCTCATGTCCACTCCTACACTGCACATAGCTA-GGTCATCA
1 TCAGCTCATGTGCACTCCTACACT-CACATAGC-AGGGTCATCA
*
9479391 TCAGCTCATGTGCACTCCTACACTCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACTCACATAGCAGGGTCATCA
9479433 T
1 T
9479434 TATCACACAA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
42 23 0.30
43 53 0.69
44 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (42 bp):
TCAGCTCATGTGCACTCCTACACTCACATAGCAGGGTCATCA
Found at i:9484148 original size:22 final size:22
Alignment explanation
Indices: 9484120--9484163 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9484110 CTTGGTGGCA
9484120 ACATGTAAA-TGAGAAAAGTGTT
1 ACATGTAAACTGAG-AAAGTGTT
*
9484142 ACATGTAAACTTAGAAAGTGTT
1 ACATGTAAACTGAGAAAGTGTT
9484164 TGATGGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (22 bp):
ACATGTAAACTGAGAAAGTGTT
Found at i:9484899 original size:38 final size:37
Alignment explanation
Indices: 9484857--9484974 Score: 155
Period size: 38 Copynumber: 3.1 Consensus size: 37
9484847 AGTGTGGGCA
* * * *
9484857 ATGATATTGTTTGTTCATGATGTGGAGGGATGTACACG
1 ATGATATTG-TTGTGCACGATGTGGGGGGATGCACACG
9484895 ATGATATTGCTTGTGCACGATGTGGGGGGATGCACACG
1 ATGATATTG-TTGTGCACGATGTGGGGGGATGCACACG
* *
9484933 ATGGTATTAGCTGTGCACGATGTGGGGGGATGCACACG
1 ATGATATT-GTTGTGCACGATGTGGGGGGATGCACACG
9484971 ATGA
1 ATGA
9484975 ATTCGACTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 70 0.99
39 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.29
Consensus pattern (37 bp):
ATGATATTGTTGTGCACGATGTGGGGGGATGCACACG
Found at i:9484995 original size:38 final size:35
Alignment explanation
Indices: 9484875--9484996 Score: 111
Period size: 38 Copynumber: 3.2 Consensus size: 35
9484865 GTTTGTTCAT
* *
9484875 GATGTGGAGGGATGTACACGATGATATTGCTTGTGCAC
1 GATGTGGGGGGATGCACACGATGA-ATTGCTTGTG--C
*
9484913 GATGTGGGGGGATGCACACGATGGTATTAGC-TGTGCAC
1 GATGTGGGGGGATGCACACGAT-GAATT-GCTTGTG--C
9484951 GATGTGGGGGGATGCACACGATGAATTCGACTATGTGC
1 GATGTGGGGGGATGCACACGATGAATT-G-CT-TGTGC
*
9484989 GGTGTGGG
1 GATGTGGG
9484997 AGTGCACATG
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
37 5 0.07
38 61 0.84
39 3 0.04
40 4 0.05
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.25
Consensus pattern (35 bp):
GATGTGGGGGGATGCACACGATGAATTGCTTGTGC
Found at i:9487915 original size:42 final size:42
Alignment explanation
Indices: 9487856--9487975 Score: 186
Period size: 42 Copynumber: 2.9 Consensus size: 42
9487846 ATCTCATATG
* *
9487856 CAACGACTTATGCGCACTCCCACTCGCACATAGCCGGGTCAA
1 CAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAA
* *
9487898 CAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTTAG
1 CAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAA
* *
9487940 CAATGGCTTATGTGCACTCCTACTCGCACATAGCCG
1 CAACGGCTTATGTGCACTCCCACTCGCACATAGCCG
9487976 AGTCCATATC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAA
Found at i:9497397 original size:43 final size:43
Alignment explanation
Indices: 9497350--9497442 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
9497340 TGCAATATCA
* *
9497350 TCATCATCAACTCAT-TGGCATTCCCACACTGCACATAGCTGGG
1 TCATCATCAACTCATGT-GCACTCCCACACCGCACATAGCTGGG
* *
9497393 TCATCATCAGCTCATGTGCACTCCCGCACCGCACATAGCTGGG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
9497436 TCATCAT
1 TCATCAT
9497443 TTTCACACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (43 bp):
TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
Found at i:9500061 original size:19 final size:19
Alignment explanation
Indices: 9500037--9500074 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9500027 CCATTTGACT
9500037 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
9500056 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
9500075 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:9501311 original size:13 final size:13
Alignment explanation
Indices: 9501293--9501317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9501283 GGAGAAATTG
9501293 TGATTTTATAAAA
1 TGATTTTATAAAA
9501306 TGATTTTATAAA
1 TGATTTTATAAA
9501318 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:9526455 original size:2 final size:2
Alignment explanation
Indices: 9526448--9526476 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9526438 TACCTCTAAC
9526448 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9526477 CCTTATTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9533389 original size:43 final size:43
Alignment explanation
Indices: 9533336--9533471 Score: 191
Period size: 43 Copynumber: 3.2 Consensus size: 43
9533326 TGCAATATCA
* * *
9533336 TCATCATCAACTCATGTGCATTCCCACACCGCACATAGTTGGG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGAG
* * **
9533379 TCATTATCAACTCATGTGCACTCCCGCATTGCACATAGCTGAG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGAG
* *
9533422 TCATCATCAGCTCATGTGCACTCCCACACCACACATAGCTGAG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGAG
9533465 TCATCAT
1 TCATCAT
9533472 TTTCACACAA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (43 bp):
TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGAG
Found at i:9553641 original size:38 final size:40
Alignment explanation
Indices: 9553546--9553648 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
9553536 ACCCGGCTCA
* *
9553546 TGTACATCCCCCCACATCGTGCACATAGTCGGCACCATTG
1 TGTACATCCCCCCACATCGTGCACATAGTCAGCACCATCG
* * **
9553586 TGTGCATCCCCCCACATCATGCACA-A-TCAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGTCAGCACCATCG
9553624 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
9553649 CGGGCACTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 31 0.56
39 1 0.02
40 23 0.42
ACGTcount: A:0.23, C:0.40, G:0.16, T:0.21
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGTCAGCACCATCG
Found at i:9573171 original size:2 final size:2
Alignment explanation
Indices: 9573164--9573191 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9573154 AAATCACTCA
9573164 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9573192 ACTACCTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9573207 original size:51 final size:49
Alignment explanation
Indices: 9573152--9573248 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 49
9573142 AGCTAATAAG
9573152 GGAAATCACTCACTCTCTCTCTCTCTCTCTCTCTCTCTCTACTACCTACC
1 GGAAATCACTCACTCTCTCTCTCTCTCTCTCTCTCTCTCTAC-ACCTACC
9573202 NGGAAATCACTCACTCTCTCTCTCTCTCTCTCTCTCTCTCTACACCT
1 -GGAAATCACTCACTCTCTCTCTCTCTCTCTCTCTCTCTCTACACCT
9573249 CCAGCTAGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 4 0.09
51 42 0.91
ACGTcount: A:0.15, C:0.43, G:0.04, T:0.36
Consensus pattern (49 bp):
GGAAATCACTCACTCTCTCTCTCTCTCTCTCTCTCTCTCTACACCTACC
Found at i:9573222 original size:2 final size:2
Alignment explanation
Indices: 9573215--9573242 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9573205 AAATCACTCA
9573215 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9573243 ACACCTCCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9583145 original size:26 final size:26
Alignment explanation
Indices: 9583116--9583174 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9583106 ATTTTCTAGT
* *
9583116 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
9583142 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
9583168 TTTCCTT
1 TTTCCTT
9583175 ATAGCCGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:9587594 original size:15 final size:14
Alignment explanation
Indices: 9587570--9587599 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
9587560 TTCTTAGAAA
9587570 ATTTTTTTTTTCTT
1 ATTTTTTTTTTCTT
9587584 ATTTTTATTTTTCTT
1 ATTTTT-TTTTTCTT
9587599 A
1 A
9587600 GAAGAGACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (14 bp):
ATTTTTTTTTTCTT
Found at i:9588299 original size:21 final size:20
Alignment explanation
Indices: 9588262--9588302 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
9588252 AACATAAATG
* *
9588262 ATTATTAGTCATTAACACAA
1 ATTATTAATCATAAACACAA
9588282 ATTATATAATCATAAACACAA
1 ATTAT-TAATCATAAACACAA
9588303 GGTTTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (20 bp):
ATTATTAATCATAAACACAA
Found at i:9589772 original size:86 final size:86
Alignment explanation
Indices: 9589669--9589834 Score: 296
Period size: 86 Copynumber: 1.9 Consensus size: 86
9589659 TTGTGTGATA
* *
9589669 ATGATGACCCAGCTATGTGCAGTGTAGGAGTGCACATGAGTTGATGATGACCCGGCTATGTGCGA
1 ATGATGACCCAGCTATGTGCAGTGTAGGAGGGCACATGAGCTGATGATGACCCGGCTATGTGCGA
9589734 GTAGGGAGTGCACATAAGTCG
66 GTAGGGAGTGCACATAAGTCG
* *
9589755 ATGATGACCCATCTATGTGCAGTGTGGGAGGGCACATGAGCTGATGATGACCCGGCTATGTGCGA
1 ATGATGACCCAGCTATGTGCAGTGTAGGAGGGCACATGAGCTGATGATGACCCGGCTATGTGCGA
9589820 GTAGGGAGTGCACAT
66 GTAGGGAGTGCACAT
9589835 GAGCTGAGTG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (86 bp):
ATGATGACCCAGCTATGTGCAGTGTAGGAGGGCACATGAGCTGATGATGACCCGGCTATGTGCGA
GTAGGGAGTGCACATAAGTCG
Done.