Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 323 of 343
Found at i:104098817 original size:24 final size:24
Alignment explanation
Indices: 104098771--104098817 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
104098761 TGAATTAATT
* *
104098771 TTTTTCTTTTAAAAATTTTATCTA
1 TTTTTATTTTAAAAATTTGATCTA
104098795 TTTTTATTATTAAAAA-TTGATCT
1 TTTTTATT-TTAAAAATTTGATCT
104098818 TTGTGCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTTATTTTAAAAATTTGATCTA
Found at i:104099163 original size:10 final size:10
Alignment explanation
Indices: 104099148--104099189 Score: 57
Period size: 10 Copynumber: 3.9 Consensus size: 10
104099138 TTCATCTCTC
104099148 TATACATATA
1 TATACATATA
104099158 TATACATATA
1 TATACATATA
104099168 TATACATACATGA
1 TATACAT--AT-A
104099181 TATACATAT
1 TATACATAT
104099190 CACTATGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 17 0.59
11 2 0.07
12 2 0.07
13 8 0.28
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (10 bp):
TATACATATA
Found at i:104103704 original size:32 final size:30
Alignment explanation
Indices: 104103643--104103710 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 30
104103633 TGGGGTCTAA
*
104103643 TTAAAATTTTTGTGAGATCAATGAGAATTT
1 TTAAAATTTTTGTGAGATCAATGAAAATTT
* * *
104103673 TTAAAATTTTTAAGTGAGGTTAATTAAAATTT
1 TTAAAATTTTT--GTGAGATCAATGAAAATTT
*
104103705 TCAAAA
1 TTAAAA
104103711 AAAATAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 11 0.35
32 20 0.65
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (30 bp):
TTAAAATTTTTGTGAGATCAATGAAAATTT
Found at i:104106093 original size:15 final size:16
Alignment explanation
Indices: 104106058--104106094 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
104106048 TTGAAAAAAA
104106058 TATTTATATTATTTAT
1 TATTTATATTATTTAT
*
104106074 T-TTTATA-TATTTTT
1 TATTTATATTATTTAT
104106088 TATTTAT
1 TATTTAT
104106095 TTAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 11 0.58
16 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTATATTATTTAT
Found at i:104106102 original size:17 final size:17
Alignment explanation
Indices: 104106058--104106110 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
104106048 TTGAAAAAAA
*
104106058 TATTTATATTATTTATT
1 TATTTATATTTTTTATT
104106075 T-TTATATATTTTTTATT
1 TATT-TATATTTTTTATT
* *
104106092 TATTTAAATTTTATATT
1 TATTTATATTTTTTATT
104106109 TA
1 TA
104106111 AGCATATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 2 0.06
17 27 0.87
18 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTATATTTTTTATT
Found at i:104106108 original size:24 final size:26
Alignment explanation
Indices: 104106060--104106109 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
104106050 GAAAAAAATA
**
104106060 TTTATATTATTTATTTTTATATATTT
1 TTTATATTATTTAAATTTATATATTT
104106086 TTTAT-TTATTTAAATTT-TATATTT
1 TTTATATTATTTAAATTTATATATTT
104106110 AAGCATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 10 0.45
26 5 0.23
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTATATTATTTAAATTTATATATTT
Found at i:104109660 original size:30 final size:31
Alignment explanation
Indices: 104109582--104109669 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
104109572 CAGCTTAGTG
* *
104109582 ACTTAAATAAAAACTTTTAAATAGTTAAGTA
1 ACTTAAATGAAAACTTTTGAATAGTTAAGTA
* *
104109613 ATTTAAATGAAAACTTTTGAATTGTTCAA-TA
1 ACTTAAATGAAAACTTTTGAATAGTT-AAGTA
*
104109644 ACTTAAATG-GAACTTTTTGAATAGTT
1 ACTTAAATGAAAAC-TTTTGAATAGTT
104109670 TAGTGATCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 3 0.06
31 43 0.90
32 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTTGAATAGTTAAGTA
Found at i:104111296 original size:15 final size:15
Alignment explanation
Indices: 104111278--104111353 Score: 64
Period size: 15 Copynumber: 5.1 Consensus size: 15
104111268 TCGTTTGTTC
*
104111278 CCTTGTCATCTGTGT
1 CCTTGTCATTTGTGT
* * *
104111293 CCTTGCCGTTCAGT-T
1 CCTTGTCATT-TGTGT
*
104111308 CCTTCTCATTTGTGT
1 CCTTGTCATTTGTGT
* * *
104111323 CCTTGCCGTTTGTTT
1 CCTTGTCATTTGTGT
104111338 CCTTGTCATTTGTGT
1 CCTTGTCATTTGTGT
104111353 C
1 C
104111354 TTTCTGCTGG
Statistics
Matches: 44, Mismatches: 15, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
14 2 0.05
15 40 0.91
16 2 0.05
ACGTcount: A:0.05, C:0.28, G:0.18, T:0.49
Consensus pattern (15 bp):
CCTTGTCATTTGTGT
Found at i:104111322 original size:30 final size:30
Alignment explanation
Indices: 104111269--104111353 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
104111259 CCTTCAATGT
* * *
104111269 CGTTTGTTCCCTTGTCATCTGTGTCCTTGC
1 CGTTAGTTTCCTTGTCATTTGTGTCCTTGC
*
104111299 CGTTCAG-TTCCTTCTCATTTGTGTCCTTGC
1 CGTT-AGTTTCCTTGTCATTTGTGTCCTTGC
*
104111329 CGTTTGTTTCCTTGTCATTTGTGTC
1 CGTTAGTTTCCTTGTCATTTGTGTC
104111354 TTTCTGCTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 45 0.96
31 1 0.02
ACGTcount: A:0.05, C:0.27, G:0.19, T:0.49
Consensus pattern (30 bp):
CGTTAGTTTCCTTGTCATTTGTGTCCTTGC
Found at i:104113881 original size:19 final size:19
Alignment explanation
Indices: 104113845--104113883 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
104113835 AATATTTAGC
*
104113845 ATGTTAAAAAGTATTATTA
1 ATGTTAAAAAGTAGTATTA
**
104113864 ATGTTAAAATTTAGTATTA
1 ATGTTAAAAAGTAGTATTA
104113883 A
1 A
104113884 AATAAAATTC
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:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (19 bp):
ATGTTAAAAAGTAGTATTA
Found at i:104113996 original size:22 final size:19
Alignment explanation
Indices: 104113950--104113996 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
104113940 ATATTCGATT
*
104113950 TATTATATATTATTTTAAA
1 TATTAAATATTATTTTAAA
104113969 TA-TAAATATTTATTTTAATAA
1 TATTAAATA-TTATTTT-A-AA
104113990 TATTAAA
1 TATTAAA
104113997 AAAATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 1 0.04
21 4 0.17
22 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAAATATTATTTTAAA
Found at i:104129163 original size:5 final size:5
Alignment explanation
Indices: 104129153--104129177 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
104129143 CGGAAAAAGG
104129153 CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA
104129178 ATCGTTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:104134750 original size:11 final size:10
Alignment explanation
Indices: 104134736--104134787 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
104134726 AAAGAGAATG
104134736 GAAAATAAAGA
1 GAAAATAAA-A
*
104134747 GAAAAAAAAAA
1 G-AAAATAAAA
104134758 GAAAATTAAAA
1 GAAAA-TAAAA
*
104134769 GAACATAAAA
1 GAAAATAAAA
104134779 GAAAA-AAAA
1 GAAAATAAAA
104134788 TTAAATTGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 4 0.11
10 13 0.37
11 11 0.31
12 7 0.20
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.08
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:104134778 original size:22 final size:21
Alignment explanation
Indices: 104134736--104134783 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
104134726 AAAGAGAATG
104134736 GAAAATAAAGAGAAAAAAAAAA
1 GAAAATAAAGAG-AAAAAAAAA
* *
104134758 GAAAATTAAA-AGAACATAAAA
1 GAAAA-TAAAGAGAAAAAAAAA
104134779 GAAAA
1 GAAAA
104134784 AAAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.52
22 7 0.30
23 4 0.17
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (21 bp):
GAAAATAAAGAGAAAAAAAAA
Found at i:104136983 original size:27 final size:27
Alignment explanation
Indices: 104136930--104136983 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
104136920 ACGATTACTT
*
104136930 AATTATTTAAAATTTAAAAATTCAAAA
1 AATTATTTAAAATTTAAAAACTCAAAA
*
104136957 AATTGTTTAAAAATTTAAAAACT-AAAA
1 AATTATTT-AAAATTTAAAAACTCAAAA
104136984 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (27 bp):
AATTATTTAAAATTTAAAAACTCAAAA
Found at i:104142086 original size:111 final size:111
Alignment explanation
Indices: 104141892--104142115 Score: 403
Period size: 111 Copynumber: 2.0 Consensus size: 111
104141882 CCGTGATTCA
* *
104141892 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCTGAGTGACGTGGTCTGCATGCATAT
1 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGACGTAGTCTGCATGCATAT
104141957 CTTATTAAGTAGGCTTTCTTTAATTGGATATGAAATATTTCTCCTG
66 CTTATTAAGTAGGCTTTCTTTAATTGGATATGAAATATTTCTCCTG
* *
104142003 TTGGCTATTGAAATGTAAATAACGTGTTTGACATTGTTTCAGAGTGATGTAGTCTGCATGCATAT
1 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGACGTAGTCTGCATGCATAT
*
104142068 CTTATTAAGTAGGCTTTCTTTAATTTGATATGAAATATTTCTCCTG
66 CTTATTAAGTAGGCTTTCTTTAATTGGATATGAAATATTTCTCCTG
104142114 TT
1 TT
104142116 ATCTTGTTAA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 108 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (111 bp):
TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGACGTAGTCTGCATGCATAT
CTTATTAAGTAGGCTTTCTTTAATTGGATATGAAATATTTCTCCTG
Found at i:104144676 original size:22 final size:21
Alignment explanation
Indices: 104144650--104144701 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
104144640 TATTTCGGGA
* **
104144650 AATTAAATTAATATTTTTCTTT
1 AATTAAATTAA-AATTTTAATT
*
104144672 AATTAATTTAAAATTTTAATT
1 AATTAAATTAAAATTTTAATT
104144693 AATTAAATT
1 AATTAAATT
104144702 TATTTAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTAAATTAAAATTTTAATT
Found at i:104144689 original size:17 final size:15
Alignment explanation
Indices: 104144669--104144726 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
104144659 AATATTTTTC
104144669 TTTAATTAATTTAAAA
1 TTTAATTAA-TTAAAA
104144685 TTTTAATTAATT-AAA
1 -TTTAATTAATTAAAA
*
104144700 TTTATTTAATTAAAAA
1 TTTAATTAATT-AAAA
*
104144716 ATTAATTAATT
1 TTTAATTAATT
104144727 TACTTGGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.28
15 3 0.08
16 14 0.39
17 9 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAATTAATTAAAA
Found at i:104144708 original size:14 final size:14
Alignment explanation
Indices: 104144669--104144713 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
104144659 AATATTTTTC
104144669 TTTAATTAATTTAAAA
1 TTTAATTAA-TT-AAA
104144685 TTTTAATTAATTAAA
1 -TTTAATTAATTAAA
*
104144700 TTTATTTAATTAAA
1 TTTAATTAATTAAA
104144714 AAATTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.48
15 3 0.11
16 2 0.07
17 9 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:104144713 original size:30 final size:31
Alignment explanation
Indices: 104144669--104144726 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
104144659 AATATTTTTC
**
104144669 TTTAATTAATTTAAAATTTTAATTAATTAAA
1 TTTAATTAATTTAAAAAATTAATTAATTAAA
*
104144700 TTTATTTAA-TTAAAAAATTAATTAATT
1 TTTAATTAATTTAAAAAATTAATTAATT
104144727 TACTTGGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTAATTAATTTAAAAAATTAATTAATTAAA
Found at i:104153229 original size:17 final size:18
Alignment explanation
Indices: 104153209--104153245 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
104153199 CAAAATTCCT
104153209 TATTTAAAAAAATAA-AA
1 TATTTAAAAAAATAATAA
*
104153226 TATTTAAATAAATAATAA
1 TATTTAAAAAAATAATAA
104153244 TA
1 TA
104153246 ATTACTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TATTTAAAAAAATAATAA
Found at i:104154385 original size:7 final size:7
Alignment explanation
Indices: 104154355--104154386 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
104154345 GGGAAAGAGG
104154355 AAGAA-A
1 AAGAAGA
104154361 AAGAAGA
1 AAGAAGA
104154368 AAGAAGA
1 AAGAAGA
104154375 AAGAAGA
1 AAGAAGA
104154382 AAGAA
1 AAGAA
104154387 AACAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:104156918 original size:33 final size:34
Alignment explanation
Indices: 104156867--104156934 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
104156857 CATTATGCCA
104156867 AAATATATATTTTTTGTAATAATCTGAAGTAAAC
1 AAATATATATTTTTTGTAATAATCTGAAGTAAAC
*
104156901 AAATAT-TTTTTTTTGTAATAATCTGAAGTAAAC
1 AAATATATATTTTTTGTAATAATCTGAAGTAAAC
104156934 A
1 A
104156935 TTATAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (34 bp):
AAATATATATTTTTTGTAATAATCTGAAGTAAAC
Found at i:104158009 original size:31 final size:31
Alignment explanation
Indices: 104157973--104158041 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
104157963 TAACAGCCCA
*
104157973 AATGACTTAAATAAAAACTTTTGAAAAGTTG
1 AATGACTTAAATAAAAACTTTCGAAAAGTTG
* * *
104158004 AATGACTTAAATGAAAACTTTCGAATAGTTT
1 AATGACTTAAATAAAAACTTTCGAAAAGTTG
104158035 AATGACT
1 AATGACT
104158042 ATTTTGTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTCGAAAAGTTG
Found at i:104164635 original size:10 final size:10
Alignment explanation
Indices: 104164620--104164647 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
104164610 CATTTAACCG
104164620 AATTAATCAA
1 AATTAATCAA
104164630 AATTAATCAA
1 AATTAATCAA
104164640 AATTAATC
1 AATTAATC
104164648 GAATTGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (10 bp):
AATTAATCAA
Found at i:104172059 original size:23 final size:25
Alignment explanation
Indices: 104172033--104172079 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
104172023 TATCATTCAT
*
104172033 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
104172056 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
104172080 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:104172400 original size:46 final size:46
Alignment explanation
Indices: 104172350--104172647 Score: 371
Period size: 46 Copynumber: 6.7 Consensus size: 46
104172340 TGTCATAGTG
* * * * * *
104172350 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGTCATGATA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * *
104172396 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
104172442 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
104172488 TCTTCCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
104172534 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
104172580 TCTTTCAACTATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
***
104172618 TCTTTCAATGTTGGTCTTACACATTTCATA
1 TCTTTCAACCATGGTCTTACACATTTCATA
104172648 AGTCCAGGCT
Statistics
Matches: 225, Mismatches: 19, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
38 30 0.13
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 181 0.80
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:104172616 original size:38 final size:38
Alignment explanation
Indices: 104172565--104172640 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
104172555 CATTTCATAT
104172565 CAGGTTGCCATGGTATCTTTCAACT-ATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAA-TGATGGTCTTACACA
*
104172603 CAGGTTGCCATGGTATCTTTCAATGTTGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAATGATGGTCTTACACA
104172641 TTTCATAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAATGATGGTCTTACACA
Found at i:104204832 original size:20 final size:19
Alignment explanation
Indices: 104204807--104204863 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
104204797 AAAATTACAA
*
104204807 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAAT-ATTTAT
104204827 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
104204846 -AAAATTTAAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
104204863 A
1 A
104204864 TATATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.18
18 10 0.29
19 5 0.15
20 13 0.38
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:104204857 original size:19 final size:20
Alignment explanation
Indices: 104204807--104204858 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
104204797 AAAATTACAA
* *
104204807 AAAAATTCAAAATAATTTTT
1 AAAAATTAAAAATAATTTAT
*
104204827 AAAAATTCAAAAT-ATTTAT
1 AAAAATTAAAAATAATTTAT
*
104204846 AAAATTTAAAAAT
1 AAAAATTAAAAAT
104204859 TTATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTAAAAATAATTTAT
Found at i:104204865 original size:19 final size:18
Alignment explanation
Indices: 104204828--104204897 Score: 50
Period size: 19 Copynumber: 3.7 Consensus size: 18
104204818 ATAATTTTTA
* * *
104204828 AAAATTCAAAATATTTAT
1 AAAATTTAAAAAATATAT
*
104204846 AAAATTTAAAAATTTATAT
1 AAAATTTAAAAA-ATATAT
** *
104204865 ATATTTTTAAAAAATATAA
1 A-AAATTTAAAAAATATAT
104204884 AAAATTTTAAAAAA
1 AAAA-TTTAAAAAA
104204898 AATTCTAAAG
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
18 11 0.28
19 19 0.49
20 9 0.23
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTTAAAAAATATAT
Found at i:104206260 original size:11 final size:11
Alignment explanation
Indices: 104206244--104206279 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
104206234 TATTATTTAT
*
104206244 TATTTTGCTAC
1 TATTTTACTAC
104206255 TATTTTACTAC
1 TATTTTACTAC
*
104206266 TATGTTACTAC
1 TATTTTACTAC
104206277 TAT
1 TAT
104206280 ATTGTTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.53
Consensus pattern (11 bp):
TATTTTACTAC
Found at i:104207593 original size:47 final size:47
Alignment explanation
Indices: 104207484--104207595 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
104207474 CCGGGATAAG
*
104207484 CACATAGTGCTTCATCGAAACAAATCCAGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGAAACAAATCCAGAACTTTAACAGTATAGTA
* * * * *
104207531 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGAAACAAATCCAGAACTTTAACAGTA-TAGTA
104207578 CACATAGTG-TCTCATCGA
1 CACATAGTGCT-TCATCGA
104207596 CTCAATGTCG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGAAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:104209757 original size:25 final size:24
Alignment explanation
Indices: 104209723--104209789 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
104209713 GATTCTTTAG
*
104209723 TTAAAAAAAATATTATAAATAAAA
1 TTAACAAAAATATTATAAATAAAA
* * *
104209747 TTTAACTAAAAA-AGTAAAAATTAAA
1 -TTAAC-AAAAATATTATAAATAAAA
104209772 TTAACAAAAGATATTATA
1 TTAACAAAA-ATATTATA
104209790 TATTAAAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 4 0.12
24 6 0.18
25 18 0.55
26 5 0.15
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (24 bp):
TTAACAAAAATATTATAAATAAAA
Found at i:104211446 original size:17 final size:16
Alignment explanation
Indices: 104211418--104211470 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
104211408 TTTGGTTCGC
104211418 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
104211434 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
104211451 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
104211467 TGTA
1 TGTA
104211471 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:104211535 original size:44 final size:45
Alignment explanation
Indices: 104211451--104211541 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
104211441 GGATTAGAGG
* * *
104211451 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
104211496 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
104211540 TG
1 TG
104211542 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:104211793 original size:157 final size:157
Alignment explanation
Indices: 104211593--104211909 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
104211583 TAGAATACCC
*
104211593 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
104211658 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
104211723 ATATATAATTTAATAAAATTCTT-ATAA
130 ATATATAATTTAATAAAATTCTTAATAA
* *
104211750 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
104211815 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
104211880 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
104211907 TTA
1 TTA
104211910 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:104211880 original size:16 final size:16
Alignment explanation
Indices: 104211843--104211884 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
104211833 TTAATCATAT
*
104211843 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
104211859 TT-AAATATATTATAA
1 TTAAAATATATTATAA
104211874 TTAAAATATAT
1 TTAAAATATAT
104211885 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:104211891 original size:14 final size:15
Alignment explanation
Indices: 104211852--104211893 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
104211842 TTTAAACATA
*
104211852 ATTATTATTAAATAT
1 ATTATAATTAAATAT
104211867 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
104211881 A-TATAATTTAATA
1 ATTATAATTAAATA
104211894 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:104211980 original size:120 final size:121
Alignment explanation
Indices: 104211846--104212138 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 121
104211836 ATCATATTTA
104211846 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
104211911 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-GT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATGTG
104211966 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
104212031 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
* * *
104212087 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
104212139 TAAAATAATT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 3 0.02
120 160 0.97
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
Found at i:104212011 original size:14 final size:15
Alignment explanation
Indices: 104211972--104212013 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
104211962 AAGTAACATA
*
104211972 ATTATTATTAAATAT
1 ATTATAATTAAATAT
104211987 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
104212001 A-TATAATTTAATA
1 ATTATAATTAAATA
104212014 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:104215684 original size:6 final size:6
Alignment explanation
Indices: 104215675--104215703 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
104215665 TTGATGTTGG
104215675 GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
104215704 TGGGGAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:104216026 original size:20 final size:20
Alignment explanation
Indices: 104216001--104216039 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
104215991 AGCAGAATAC
104216001 AAAAGAAAACCAAAAAACAG
1 AAAAGAAAACCAAAAAACAG
* *
104216021 AAAAGAAAAGCAGAAAACA
1 AAAAGAAAACCAAAAAACA
104216040 AGCAGCTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.13, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAGAAAACCAAAAAACAG
Found at i:104218914 original size:3 final size:3
Alignment explanation
Indices: 104218906--104219052 Score: 62
Period size: 3 Copynumber: 49.3 Consensus size: 3
104218896 TTAATTGATC
* *
104218906 ATT ATT ATT ATT AAT ATT AGTGT ATA ATT -TT ATT ATAT ATGT ATGT
1 ATT ATT ATT ATT ATT ATT A-T-T ATT ATT ATT ATT AT-T AT-T AT-T
* * *
104218952 AGT ATT ATT -TT -TT ATT ACT -TT ATT -TT AGT ATT ATT A-T ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
104218994 ATTT ACTT ATT -TGT GTT -TC ATT ATT ATT -TCT AGT ATT ATT ATT ATT
1 A-TT A-TT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
*
104219040 ATT ATT AAT ATT A
1 ATT ATT ATT ATT A
104219053 GTGTATGTTT
Statistics
Matches: 111, Mismatches: 18, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
2 16 0.14
3 76 0.68
4 17 0.15
5 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:104218996 original size:29 final size:26
Alignment explanation
Indices: 104218951--104219005 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 26
104218941 TATATGTATG
104218951 TAGTATTATTTTTTA-TTACTTTATTT
1 TAGTATTATTTTTTATTTAC-TTATTT
104218977 TAGTATTATTATATTATATTTACTTATTT
1 TAGTATTATT-T-TT-TATTTACTTATTT
104219006 GTGTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 10 0.40
27 1 0.04
28 2 0.08
29 8 0.32
30 4 0.16
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (26 bp):
TAGTATTATTTTTTATTTACTTATTT
Found at i:104219439 original size:3 final size:3
Alignment explanation
Indices: 104219425--104219495 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
104219415 TTAATTTAAC
* * * *
104219425 TTA TTAA TTA TTA TTA TCA TTA TCA CTA TTG TTA -TA TTTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
104219471 TTA CTT- TTA TTA TAA TTA TTA TTA T
1 TTA -TTA TTA TTA TTA TTA TTA TTA T
104219496 AGCTTTTCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
2 4 0.08
3 42 0.79
4 7 0.13
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:104219502 original size:24 final size:24
Alignment explanation
Indices: 104219397--104219495 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 24
104219387 GTTTATTTAT
104219397 TTATTAC-TTTATTACTAATTA--A
1 TTATTACTTTTATTA-TAATTATTA
* * *
104219419 TT-TAACTTATTAATTATTATTATCA
1 TTATTACTT-TT-ATTATAATTATTA
* * * *
104219444 TTATCACTATTGTTATATTTATTA
1 TTATTACTTTTATTATAATTATTA
104219468 TTATTACTTTTATTATAATTATTA
1 TTATTACTTTTATTATAATTATTA
104219492 TTAT
1 TTAT
104219496 AGCTTTTCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.05
22 3 0.05
23 7 0.12
24 37 0.63
25 5 0.08
26 4 0.07
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (24 bp):
TTATTACTTTTATTATAATTATTA
Found at i:104221015 original size:2 final size:2
Alignment explanation
Indices: 104221008--104221036 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
104220998 TAGTCTTTGC
104221008 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 A
104221037 AAGCAACCAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104221722 original size:109 final size:109
Alignment explanation
Indices: 104221531--104221754 Score: 448
Period size: 109 Copynumber: 2.1 Consensus size: 109
104221521 CTCTGATAAG
104221531 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
1 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
104221596 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
66 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
104221640 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
1 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
104221705 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
66 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
104221749 GAGAGT
1 GAGAGT
104221755 CTACAATTGT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 115 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (109 bp):
GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
Found at i:104223904 original size:13 final size:13
Alignment explanation
Indices: 104223875--104223904 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
104223865 TTGGATATTT
*
104223875 AAAATCTTAAAAA
1 AAAATCTAAAAAA
104223888 AAAATCTAAAAAA
1 AAAATCTAAAAAA
104223901 AAAA
1 AAAA
104223905 GAAACATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATCTAAAAAA
Found at i:104223933 original size:7 final size:7
Alignment explanation
Indices: 104223916--104223956 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
104223906 AAACATTCGG
104223916 AAAAAGTA
1 AAAAAG-A
104223924 AAAAAGA
1 AAAAAGA
104223931 AAAAAGA
1 AAAAAGA
104223938 AAAAAGAA
1 AAAAAG-A
104223946 AAAAAGA
1 AAAAAGA
104223953 AAAA
1 AAAA
104223957 GAGAGCCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 19 0.59
8 13 0.41
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:104223950 original size:15 final size:14
Alignment explanation
Indices: 104223916--104223956 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
104223906 AAACATTCGG
104223916 AAAAAGTAAAAAAGA
1 AAAAAG-AAAAAAGA
104223931 AAAAAGAAAAAAGAA
1 AAAAAGAAAAAAG-A
104223946 AAAAAGAAAAA
1 AAAAAGAAAAA
104223957 GAGAGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAAAGA
Found at i:104224849 original size:21 final size:19
Alignment explanation
Indices: 104224824--104224906 Score: 50
Period size: 21 Copynumber: 4.4 Consensus size: 19
104224814 AGAAAATTTT
104224824 ATTATTTGATATATTAGGTTG
1 ATTATTT-ATATATT-GGTTG
* *
104224845 ATTATTTAAATATT--TTCA
1 ATTATTTATATATTGGTT-G
*
104224863 ACTA-TT-TAT-TTGGTTG
1 ATTATTTATATATTGGTTG
*
104224879 ATTATTTAATTTATTAGGTTG
1 ATTATTT-ATATATT-GGTTG
104224900 ATTATTT
1 ATTATTT
104224907 GATTATTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.04
16 5 0.11
17 8 0.17
18 3 0.06
19 2 0.04
20 8 0.17
21 19 0.40
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (19 bp):
ATTATTTATATATTGGTTG
Found at i:104224928 original size:55 final size:55
Alignment explanation
Indices: 104224824--104224964 Score: 135
Period size: 55 Copynumber: 2.6 Consensus size: 55
104224814 AGAAAATTTT
* * * * * **
104224824 ATTATTTGATATATTAGGTTGATTATTTAAATATTTTCAACTATTTATTTGGTTG
1 ATTATTTAATTTATTAGGTTGATTATTTGATTATTTTCAACAAAATATTTGGTTG
* *
104224879 ATTATTTAATTTATTAGGTTGATTATTTGATTATTTTTAGA-AAAATATTTTGTTG
1 ATTATTTAATTTATTAGGTTGATTATTTGATTATTTTCA-ACAAAATATTTGGTTG
* * *
104224934 ATT-GTTCATTTATTAGG-TGATTTAGTTGATT
1 ATTATTTAATTTATTAGGTTGA-TTATTTGATT
104224965 GTAATTATAT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
53 3 0.04
54 21 0.29
55 47 0.65
56 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.55
Consensus pattern (55 bp):
ATTATTTAATTTATTAGGTTGATTATTTGATTATTTTCAACAAAATATTTGGTTG
Found at i:104226332 original size:19 final size:20
Alignment explanation
Indices: 104226287--104226333 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
104226277 TTTTAACGTG
* *
104226287 AATATTTAGTATTTAAATTT
1 AATATTTATTATTCAAATTT
*
104226307 GAT-TTTATTATTCAAA-TT
1 AATATTTATTATTCAAATTT
104226325 AATATTTAT
1 AATATTTAT
104226334 AATTTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
AATATTTATTATTCAAATTT
Found at i:104228978 original size:21 final size:20
Alignment explanation
Indices: 104228953--104228996 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
104228943 CAGTTGTAAC
104228953 CTAAACCCTAAACCCTAAACT
1 CTAAACCCTAAACCCTAAA-T
* * *
104228974 CTAAATCTTAAACTCTAAAT
1 CTAAACCCTAAACCCTAAAT
104228994 CTA
1 CTA
104228997 CTTTATATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (20 bp):
CTAAACCCTAAACCCTAAAT
Found at i:104228993 original size:14 final size:14
Alignment explanation
Indices: 104228954--104228995 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
104228944 AGTTGTAACC
* * *
104228954 TAAACCCTAAACCC
1 TAAACTCTAAATCT
104228968 TAAACTCTAAATCT
1 TAAACTCTAAATCT
104228982 TAAACTCTAAATCT
1 TAAACTCTAAATCT
104228996 ACTTTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACTCTAAATCT
Found at i:104229036 original size:16 final size:16
Alignment explanation
Indices: 104229017--104229049 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
104229007 GAGATAAAGT
104229017 AGCATTCGGATATTAA
1 AGCATTCGGATATTAA
104229033 AGCATTCGGATATTAA
1 AGCATTCGGATATTAA
104229049 A
1 A
104229050 TTGGGTAAAT
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:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (16 bp):
AGCATTCGGATATTAA
Found at i:104230757 original size:51 final size:51
Alignment explanation
Indices: 104230650--104230762 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
104230640 CATCTGTAGG
* * * *
104230650 TTATCCTCAACCCCCGGTAGTGTCACCCGTGGTGGCATATCCGGATCCGCA
1 TTATCCACAAGCCCCGGTACTGTCACCCGTGGTGGCATATCCGGATCCACA
* * * *
104230701 CTATCCCCAAGCCCCGGTAACT-TCACCTGTGGTGGCATATCCGGATCCATA
1 TTATCCACAAGCCCCGGT-ACTGTCACCCGTGGTGGCATATCCGGATCCACA
104230752 TTATCCACAAG
1 TTATCCACAAG
104230763 TAAGCACCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 50 0.96
52 2 0.04
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (51 bp):
TTATCCACAAGCCCCGGTACTGTCACCCGTGGTGGCATATCCGGATCCACA
Found at i:104232823 original size:30 final size:30
Alignment explanation
Indices: 104232780--104232838 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
104232770 GGAGGTGGGA
104232780 TGGGAAGGAAGTAAAAATTTTAGGAGGAAAG
1 TGGGAAGGAAGTAAAAATTTTAGG-GGAAAG
* *
104232811 TGGG-AGGGAGTAAAAGTTTTAGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTAGGGGAAA
104232839 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 17 0.65
31 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTAGGGGAAAG
Found at i:104237540 original size:15 final size:15
Alignment explanation
Indices: 104237518--104237551 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
104237508 ATATAAATCG
104237518 TATA-GTAATAAAAA
1 TATATGTAATAAAAA
*
104237532 TATATGTAATAAATA
1 TATATGTAATAAAAA
104237547 TATAT
1 TATAT
104237552 AATAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
TATATGTAATAAAAA
Found at i:104237547 original size:13 final size:13
Alignment explanation
Indices: 104237529--104237562 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
104237519 ATAGTAATAA
104237529 AAATATATGTAAT
1 AAATATATGTAAT
*
104237542 AAATATATATAAT
1 AAATATATGTAAT
104237555 -AATATATG
1 AAATATATG
104237563 AGGAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (13 bp):
AAATATATGTAAT
Found at i:104237553 original size:25 final size:24
Alignment explanation
Indices: 104237525--104237578 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
104237515 TCGTATAGTA
*
104237525 ATAAAAATATATGTAATAAATATAT
1 ATAAAAATATATG-AAGAAATATAT
* *
104237550 ATAATAATATATGAGGAAATATAT
1 ATAAAAATATATGAAGAAATATAT
104237574 A-AAAA
1 ATAAAA
104237579 TAATGATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 3 0.12
24 10 0.40
25 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (24 bp):
ATAAAAATATATGAAGAAATATAT
Found at i:104237829 original size:15 final size:15
Alignment explanation
Indices: 104237790--104237831 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
104237780 AATAATAGAT
104237790 AAAATATAGTAAAATG
1 AAAATATA-TAAAATG
*
104237806 AATAATATATACAATG
1 AA-AATATATAAAATG
104237822 AAAATATATA
1 AAAATATATA
104237832 TGCAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 10 0.42
17 6 0.25
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (15 bp):
AAAATATATAAAATG
Found at i:104239581 original size:2 final size:2
Alignment explanation
Indices: 104239576--104239601 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104239566 GTTTGATTCA
104239576 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
104239602 GAGAAGGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104244763 original size:21 final size:21
Alignment explanation
Indices: 104244737--104244777 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104244727 ATCTGCTCAA
* *
104244737 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
104244758 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
104244778 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:104252590 original size:17 final size:20
Alignment explanation
Indices: 104252550--104252589 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
104252540 ATTTTATATG
104252550 AAATAACTATATTTAAATAA
1 AAATAACTATATTTAAATAA
104252570 AAATAA-TATATTTAAA-AA
1 AAATAACTATATTTAAATAA
104252588 AA
1 AA
104252590 TTCAGTGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAACTATATTTAAATAA
Found at i:104255669 original size:48 final size:49
Alignment explanation
Indices: 104255615--104255716 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 49
104255605 ATTTATGTTT
*
104255615 ATGAATACAAACTATATCTGAATCTTACT-AAAAATTAGTAAACTGAAA
1 ATGAATACAAACTATATCTGAATCTTACTAAAAAATTAGTAAAATGAAA
104255663 ATGAATACAAACTATATCTGAATCTTACTAAAAAATTAGTAAAATGAAA
1 ATGAATACAAACTATATCTGAATCTTACTAAAAAATTAGTAAAATGAAA
104255712 ATGAA
1 ATGAA
104255717 AAATTTCTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 29 0.56
49 23 0.44
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (49 bp):
ATGAATACAAACTATATCTGAATCTTACTAAAAAATTAGTAAAATGAAA
Found at i:104256069 original size:37 final size:37
Alignment explanation
Indices: 104256017--104256090 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
104256007 AACCCTTAAA
* *
104256017 AAATTATTCACTTACATGTACTCGAATCTATATTCTC
1 AAATTATTCACTTACAAGCACTCGAATCTATATTCTC
* * * *
104256054 AAATTATTTAGTTACAAGCATTTGAATCTATATTCTC
1 AAATTATTCACTTACAAGCACTCGAATCTATATTCTC
104256091 TAACCATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.42
Consensus pattern (37 bp):
AAATTATTCACTTACAAGCACTCGAATCTATATTCTC
Found at i:104256578 original size:51 final size:51
Alignment explanation
Indices: 104256480--104257194 Score: 538
Period size: 51 Copynumber: 14.2 Consensus size: 51
104256470 GAGCCAGCAG
* * * * * * *
104256480 CAGCATC-GACCTCCTCGAGAAAGTTATCAGAGCTCTGTTGATCTTCAACAA
1 CAGCATCAG-CCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
* * * *
104256531 TAGCATCGGCCTCCTCGGGAAACTTCTAAGAGTTCCGATCATATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
** * * * *
104256582 CAGCATCCA-CCTCCTCTAGATATTTATCAA-AGTTCCGATCATCTTCAACAA
1 CAGCAT-CAGCCTCCTCGGGAAACTTAT-AAGAGCTCCGATCATATTCAACAA
* *
104256633 CAGCATCGGCCTCCTCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
* * * * *
104256684 CAGCATCCA-CCTCCTCGAGATATTTATCAA-AGTTCCGATCATCTTCAACAA
1 CAGCAT-CAGCCTCCTCGGGAAACTTAT-AAGAGCTCCGATCATATTCAACAA
* * * **
104256735 CAGTATCTG---CCTCGAGAAACTTATAAGAGCTCAAATCATATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
* * * * * * *
104256783 GAGCTTC-GTCCTCCTCGAGAAAGTTATCAGAG-TCCAAATCATATTAAACAA
1 CAGCATCAG-CCTCCTCGGGAAACTTATAAGAGCTCC-GATCATATTCAACAA
* *
104256834 CAGCATCAG---CCTCGGGAAACTTCTAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
* *
104256882 CAGCATCAG---CCTCGGGAAACTTCTAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
*
104256930 CAGCATCAG---CCTCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
* * * * * *
104256978 CAGCATCAGCCTCATCGGGAGAGTTATCAGAGTTCCGATCATCTTCATCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCAT-AT--TCAACAA
* * * * *
104257032 CAGCGTCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
* ** ** * * * *
104257083 CAGCAAT-ATCAGCCTCAAGAAAGTTATCAGGAG-TCGGGA-CATCTTCAACAA
1 CAGC-ATCAGCCTCCTCGGGAAACTTAT-AAGAGCTC-CGATCATATTCAACAA
* * * * * * *
104257134 CTGCATCGGCCTCCTCTGGAAAGTTATAAGAGTTCCAATCATGTTCAACAA
1 CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
*
104257185 CAGCAACAGC
1 CAGCATCAGC
104257195 TTTCGGAAAG
Statistics
Matches: 544, Mismatches: 92, Indels: 56
0.79 0.13 0.08
Matches are distributed among these distances:
47 3 0.01
48 167 0.31
49 2 0.00
50 13 0.02
51 296 0.54
52 15 0.03
53 2 0.00
54 46 0.08
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (51 bp):
CAGCATCAGCCTCCTCGGGAAACTTATAAGAGCTCCGATCATATTCAACAA
Found at i:104256656 original size:102 final size:101
Alignment explanation
Indices: 104256480--104257277 Score: 673
Period size: 102 Copynumber: 7.9 Consensus size: 101
104256470 GAGCCAGCAG
* * * * * * *
104256480 CAGCATCGACCTCCTCGAGAAAGTTATCAGAGCTCTGTTGATCTTCAACAATAGCATCGGCCTCC
1 CAGCATC-ACCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGCCTCC
* * *
104256545 TCGGGAAACTTCTAAGAGTTCCGATCATATTCAACAA
65 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * * *
104256582 CAGCATCCACCTCCTCTAGATATTTATCAAAGTTCCGATCATCTTCAACAACAGCATCGGCCTCC
1 CAGCAT-CACCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGCCTCC
104256647 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
65 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * * *
104256684 CAGCATCCACCTCCTCGAGATATTTATCAAAGTTCCGATCATCTTCAACAACAGTATCTG---CC
1 CAGCAT-CACCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGCCTCC
* *
104256746 TCGAGAAACTTATAAGAGCTCAAATCATATTCAACAA
65 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * * * * * *
104256783 GAGCTTCGTCCTCCTCGAGAAAGTTATCAGAG-TCCAAATCATATTAAACAACAGCATCAG---C
1 CAGCATC-ACCTCCTCGAGAAAGTTATCAAAGTTCC-GATCATCTTCAACAACAGCATCAGCCTC
*
104256844 CTCGGGAAACTTCTAAGAGCTCAGATCATATTCAACAA
64 CTCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * * * * * *
104256882 CAGCATCA--GCCTCGGGAAACTTCT-AAGAGCTCAGATCATATTCAACAACAGCATCAG---CC
1 CAGCATCACCTCCTCGAGAAAGTTATCAA-AGTTCCGATCATCTTCAACAACAGCATCAGCCTCC
104256941 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
65 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * * * *
104256978 CAGCATCAGCCTCATCGGGAGAGTTATCAGAGTTCCGATCATCTTCATCAACAACAGCGTCAGCC
1 CAGCATCA-CCTCCTCGAGAAAGTTATCAAAGTTCCGATCATC-T--TCAACAACAGCATCAGCC
* * * * *
104257043 TCCTCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
62 TCCTCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
** * * * * *
104257083 CAGCAAT-ATCAGCCTCAAGAAAGTTATCAGGAG-TCGGGA-CATCTTCAACAACTGCATCGGCC
1 CAGC-ATCA-CCTCCTCGAGAAAGTTATCA-AAGTTC-CGATCATCTTCAACAACAGCATCAGCC
* * * *
104257145 TCCTCTGGAAAGTTATAAGAGTTCCA-ATCATGTTCAACAA
62 TCCTCGGGAAACTTATAAGAGCT-CAGATCATATTCAACAA
* * * * * * * *
104257185 CAGCAACAGCT-TTCG-GAAAGTTATCATCAGAGTTTCAATCATCTTCAACAGCAGCAGCATG-A
1 CAGCATCACCTCCTCGAGAAAGTTATCA--A-AGTTCCGATCATCTTCAACAACAGCATCA-GCC
* * * *
104257247 GCCTCGGGAAAGTTATCAGAGCTCCGATCAT
62 TCCTCGGGAAACTTATAAGAGCTCAGATCAT
104257278 CTTCCTCCTC
Statistics
Matches: 576, Mismatches: 94, Indels: 52
0.80 0.13 0.07
Matches are distributed among these distances:
95 1 0.00
96 82 0.14
97 2 0.00
98 4 0.01
99 153 0.27
100 4 0.01
101 5 0.01
102 255 0.44
103 3 0.01
104 1 0.00
105 59 0.10
106 7 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CAGCATCACCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGCCTCCT
CGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
Found at i:104257042 original size:54 final size:51
Alignment explanation
Indices: 104256480--104257277 Score: 446
Period size: 51 Copynumber: 15.8 Consensus size: 51
104256470 GAGCCAGCAG
* * * * * * *
104256480 CAGCATC-GACCTCCTCGAGAAAGTTATCAGAGCTCTGTTGATCTTCAACAA
1 CAGCATCAG-CCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * * *
104256531 TAGCATCGGCCTCCTCGGGAAACTTCTAAGAGTTCCGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* ** * * * *
104256582 CAGCATCCA-CCTCCTCTAGATATTTATCAAAGTTCCGATCATCTTCAACAA
1 CAGCAT-CAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * * *
104256633 CAGCATCGGCCTCCTCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * *
104256684 CAGCATCCA-CCTCCTCGAGATATTTATCAAAGTTCCGATCATCTTCAACAA
1 CAGCAT-CAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * * ** *
104256735 CAGTATCTG-C-C-TCGAGAAACTTATAAGAGCTCAAATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * * *
104256783 GAGCTTC-GTCCTCCTCGAGAAAGTTATCAGAG-TCCAAATCATATTAAACAA
1 CAGCATCAG-CCTCATCGGGAAAGTTATCAGAGTTCC-GATCATTTTCAACAA
* * * * * *
104256834 CAGCATCAG-C-C-TCGGGAAACTTCTAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * *
104256882 CAGCATCAG-C-C-TCGGGAAACTTCTAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * *
104256930 CAGCATCAG-C-C-TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
*
104256978 CAGCATCAGCCTCATCGGGAGAGTTATCAGAGTTCCGATCATCTTCATCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCAT-TT--TCAACAA
* *
104257032 CAGCGTCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * *
104257083 CAGCAATATCAGCCTCA---AGAAAGTTATCAGGAG-TCGGGA-CATCTTCAACAA
1 CAGC---ATCAGCCTCATCGGGAAAGTTATCA-GAGTTC-CGATCATTTTCAACAA
* * * * * * *
104257134 CTGCATCGGCCTCCTCTGGAAAGTTATAAGAGTTCCAATCATGTTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * *
104257185 CAGCAACAG-CT-TTC-GGAAAGTTATCATCAGAGTTTCAATCATCTTCAACAGCA
1 CAGCATCAGCCTCATCGGGAAAG-T-T-ATCAGAGTTCCGATCATTTTCAACA--A
* *
104257238 GCAGCATGAG-C-C-TCGGGAAAGTTATCAGAGCTCCGATCAT
1 -CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCAT
104257278 CTTCCTCCTC
Statistics
Matches: 611, Mismatches: 100, Indels: 72
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.00
48 178 0.29
49 9 0.01
50 15 0.02
51 323 0.53
52 11 0.02
53 6 0.01
54 68 0.11
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
Found at i:104257295 original size:36 final size:36
Alignment explanation
Indices: 104257248--104257317 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
104257238 GCAGCATGAG
* * *
104257248 CCTCGGGAAAGTTATCAGAGCTCCGATCATCTTCCT
1 CCTCGAGAAAGTTATCAAAACTCCGATCATCTTCCT
*
104257284 CCTCGAGAAAGTTATCAAAATTCCGATCATCTTC
1 CCTCGAGAAAGTTATCAAAACTCCGATCATCTTC
104257318 AGCAACAGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (36 bp):
CCTCGAGAAAGTTATCAAAACTCCGATCATCTTCCT
Found at i:104258261 original size:32 final size:32
Alignment explanation
Indices: 104258219--104258290 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
104258209 GAAGGATCAA
*
104258219 AAATAAAATTTAACTTTATTTGAATAAGTGTG
1 AAATATAATTTAACTTTATTTGAATAAGTGTG
104258251 AAATATAATTTAACTTTATTTGAATAAGTGTG
1 AAATATAATTTAACTTTATTTGAATAAGTGTG
104258283 AAATATAA
1 AAATATAA
104258291 GCTTCTCAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (32 bp):
AAATATAATTTAACTTTATTTGAATAAGTGTG
Found at i:104260244 original size:31 final size:31
Alignment explanation
Indices: 104260190--104260263 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
104260180 AATATAAATA
* **
104260190 AGGG-TATTTTA-GAAGTATAAAAAATTAAT
1 AGGGATATTTTAGGAAGAATAAAAAAGCAAT
*
104260219 AGGGATATTTTAGGTAGAATAAAAAAGCAAT
1 AGGGATATTTTAGGAAGAATAAAAAAGCAAT
* *
104260250 AGGAATAATTTAGG
1 AGGGATATTTTAGG
104260264 CATTAGAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 4 0.11
30 7 0.19
31 26 0.70
ACGTcount: A:0.47, C:0.01, G:0.22, T:0.30
Consensus pattern (31 bp):
AGGGATATTTTAGGAAGAATAAAAAAGCAAT
Found at i:104262362 original size:15 final size:16
Alignment explanation
Indices: 104262342--104262375 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
104262332 AAACTGTATA
104262342 AAATTA-TTAATATTT
1 AAATTATTTAATATTT
104262357 AAATTATTTTAATATTT
1 AAATTA-TTTAATATTT
104262374 AA
1 AA
104262376 TAACTATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTATTTAATATTT
Found at i:104262774 original size:13 final size:13
Alignment explanation
Indices: 104262758--104262783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104262748 ATAAAATGAT
104262758 AAAAAAAAAACTA
1 AAAAAAAAAACTA
104262771 AAAAAAAAAACTA
1 AAAAAAAAAACTA
104262784 TCGAATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAAAAACTA
Found at i:104280179 original size:6 final size:6
Alignment explanation
Indices: 104280168--104280219 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
104280158 TACCACTTTA
104280168 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
104280216 TATA
1 TATA
104280220 GTAACATCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:104285911 original size:18 final size:18
Alignment explanation
Indices: 104285890--104285927 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
104285880 ACGACAACCT
* *
104285890 CGACAGCCTCCACCGTTG
1 CGACAGCCACCACCGCTG
104285908 CGACAGCCACCACCGCTG
1 CGACAGCCACCACCGCTG
104285926 CG
1 CG
104285928 GTAATCGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (18 bp):
CGACAGCCACCACCGCTG
Found at i:104286587 original size:30 final size:30
Alignment explanation
Indices: 104286551--104286673 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
104286541 TTTTATTATG
104286551 CCAATATCTTGATA-CCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
104286581 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
104286611 CTAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
104286641 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
104286671 CCA
1 CCA
104286674 TAAATATGGA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 6 0.07
30 82 0.93
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.46
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:104286605 original size:15 final size:15
Alignment explanation
Indices: 104286554--104286667 Score: 67
Period size: 15 Copynumber: 7.7 Consensus size: 15
104286544 TATTATGCCA
104286554 ATATC-TTGATA-CC
1 ATATCTTTGATACCC
**
104286567 ATATCTTTGACTTTCC
1 ATATCTTTGA-TACCC
*
104286583 A-ATATTTGATACCC
1 ATATCTTTGATACCC
** *
104286597 ATATCTTTGACTTTCT
1 ATATCTTTGA-TACCC
*
104286613 A-ATATTTGATACCC
1 ATATCTTTGATACCC
** *
104286627 ATATCTTTGACTTTCT
1 ATATCTTTGA-TACCC
*
104286643 AT-TATTTGATACCC
1 ATATCTTTGATACCC
104286657 ATATCTTTGAT
1 ATATCTTTGAT
104286668 TTTCCATAAA
Statistics
Matches: 72, Mismatches: 21, Indels: 14
0.67 0.20 0.13
Matches are distributed among these distances:
13 5 0.07
14 15 0.21
15 42 0.58
16 10 0.14
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (15 bp):
ATATCTTTGATACCC
Found at i:104291288 original size:30 final size:30
Alignment explanation
Indices: 104291242--104291335 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
104291232 TTTTATTATG
*
104291242 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
104291273 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
104291303 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
104291333 CCA
1 CCA
104291336 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:104291297 original size:15 final size:15
Alignment explanation
Indices: 104291252--104291329 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
104291242 CCAATATCTC
104291252 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
104291267 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
104291282 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
104291297 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
104291312 GATACCCATATCTTT
1 GATACCCATATCTTT
104291327 GAT
1 GAT
104291330 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:104291949 original size:6 final size:6
Alignment explanation
Indices: 104291938--104291972 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
104291928 ACATGTCACA
*
104291938 GTATAT GTATAT TTATAT GTATAT GTATAT GTATA
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATA
104291973 GTAACATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
GTATAT
Found at i:104297586 original size:15 final size:15
Alignment explanation
Indices: 104297566--104297594 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
104297556 ACGCATAATA
104297566 ATACTAAATATATAC
1 ATACTAAATATATAC
104297581 ATACTAAATATATA
1 ATACTAAATATATA
104297595 TACATAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
ATACTAAATATATAC
Found at i:104298815 original size:3 final size:3
Alignment explanation
Indices: 104298807--104298967 Score: 75
Period size: 3 Copynumber: 53.7 Consensus size: 3
104298797 TATTATATGG
104298807 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAGA -AGA TAA -AA -AGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TA-A
* * * ** * ***
104298852 TAA TAA TAA T-A TAG TAG TAG TAA TAA CCA TAG TAA TAA TAA CGG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
104298899 TAA TGA TAAA TAG TAA TAA TAA CAA TAA T-A TAAA TGA TAA -CA TACA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A
*
104298945 T-G TGAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TA
104298968 GCAATAATTT
Statistics
Matches: 120, Mismatches: 26, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
2 9 0.08
3 101 0.84
4 10 0.08
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:104300286 original size:137 final size:137
Alignment explanation
Indices: 104300040--104300326 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
104300030 CATTGGGCCT
* * *
104300040 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTAGGCCTT
104300105 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
104300170 CATATGC
131 CATATAC
* *
104300177 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTAGGCCTT
* *
104300242 AGCCCCTTATTCAGATAATAGTATGGTCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
104300307 CATATAC
131 CATATAC
104300314 AAGCCCATTTAGG
1 AAGCCCATTTAGG
104300327 GAGACTACTC
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 141 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTAGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATAC
Found at i:104300611 original size:25 final size:27
Alignment explanation
Indices: 104300574--104300626 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
104300564 TCAAACATGC
104300574 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
104300600 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
104300626 A
1 A
104300627 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:104302142 original size:26 final size:26
Alignment explanation
Indices: 104302111--104302270 Score: 239
Period size: 26 Copynumber: 6.2 Consensus size: 26
104302101 TGAAATGCCC
*
104302111 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
104302137 ATCATGGAACATTTACCTAACCCACT
1 ATCATGGAACATTTACCTAACCCATT
* * *
104302163 ATTATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
104302189 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* **
104302215 ATCATGGAATATTTACCTAATTCATT
1 ATCATGGAACATTTACCTAACCCATT
104302241 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104302267 ATCA
1 ATCA
104302271 ATTTGTACCA
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 117 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104303307 original size:20 final size:20
Alignment explanation
Indices: 104303282--104303320 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
104303272 AAAATTTTGG
*
104303282 GTTTAATTTGTTGGGTTTTA
1 GTTTAATGTGTTGGGTTTTA
104303302 GTTTAATGTGTTGGGTTTT
1 GTTTAATGTGTTGGGTTTT
104303321 GGGGTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.28, T:0.59
Consensus pattern (20 bp):
GTTTAATGTGTTGGGTTTTA
Found at i:104305749 original size:18 final size:18
Alignment explanation
Indices: 104305726--104305764 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
104305716 ATGTGGGCTA
104305726 CCCGTGTGAGCCCACAC-G
1 CCCGTGTG-GCCCACACAG
*
104305744 CCCGTGTGGCTCACACAG
1 CCCGTGTGGCCCACACAG
104305762 CCC
1 CCC
104305765 AAATTGGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.15, C:0.46, G:0.26, T:0.13
Consensus pattern (18 bp):
CCCGTGTGGCCCACACAG
Found at i:104306866 original size:51 final size:51
Alignment explanation
Indices: 104306789--104306900 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
104306779 TTAAGGGAAA
* *
104306789 TTGGATCCCGGCTCCAAGAGAGGGATAAATTTACAAACAGTTGCAATTTAT
1 TTGGATCCCAGCTCCAAGAGAGGGATAAATTTACAAACAATTGCAATTTAT
* *
104306840 TTGGATCCCAGCTCCAAGAGATGGATAAATTTACAAACAATTTCAATTTAT
1 TTGGATCCCAGCTCCAAGAGAGGGATAAATTTACAAACAATTGCAATTTAT
104306891 TTGGATCCCA
1 TTGGATCCCA
104306901 AGATTGAGGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (51 bp):
TTGGATCCCAGCTCCAAGAGAGGGATAAATTTACAAACAATTGCAATTTAT
Found at i:104311475 original size:18 final size:18
Alignment explanation
Indices: 104311452--104311490 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
104311442 ATGTGGGCTA
104311452 CCCGTGTGAGCCCACAC-G
1 CCCGTGTG-GCCCACACAG
*
104311470 CCCGTGTGGCTCACACAG
1 CCCGTGTGGCCCACACAG
104311488 CCC
1 CCC
104311491 AAATTGGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.15, C:0.46, G:0.26, T:0.13
Consensus pattern (18 bp):
CCCGTGTGGCCCACACAG
Found at i:104314549 original size:17 final size:17
Alignment explanation
Indices: 104314515--104314563 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
104314505 ATCTAAAAAA
*
104314515 ATTTATATACATTGATTTT
1 ATTTATAT-CATTTA-TTT
104314534 ATTT-TATCATTTATTT
1 ATTTATATCATTTATTT
*
104314550 ATTTATATCCTTTA
1 ATTTATATCATTTA
104314564 ATATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.26
17 13 0.48
18 3 0.11
19 4 0.15
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTATATCATTTATTT
Found at i:104319312 original size:21 final size:21
Alignment explanation
Indices: 104319279--104319318 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104319269 AGCAACCACC
104319279 GCCGCAACAGCTGCCGCCGCT
1 GCCGCAACAGCTGCCGCCGCT
* *
104319300 GCCGCCACTGCTGCCGCCG
1 GCCGCAACAGCTGCCGCCG
104319319 TCACTACGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.50, G:0.30, T:0.10
Consensus pattern (21 bp):
GCCGCAACAGCTGCCGCCGCT
Found at i:104319387 original size:18 final size:18
Alignment explanation
Indices: 104319366--104319651 Score: 84
Period size: 18 Copynumber: 15.9 Consensus size: 18
104319356 GGCCCCCATT
*
104319366 GCGACAACCTCCACCGGC
1 GCGACAACCTCCACCGCC
104319384 GCGACAACCTCCACCGCC
1 GCGACAACCTCCACCGCC
* * *
104319402 GCGA-AAGCCTCTACTGCG
1 GCGACAA-CCTCCACCGCC
*
104319420 GCGAC-A-----GCCGCC
1 GCGACAACCTCCACCGCC
* * *
104319432 ACGACAACCTCCACTGCA
1 GCGACAACCTCCACCGCC
* * *
104319450 ACGACAACCTCGACCGCA
1 GCGACAACCTCCACCGCC
* * *
104319468 GCGACAGCCTCGACCGTC
1 GCGACAACCTCCACCGCC
* *
104319486 GCGACAGCCGCCACCGCTGCC
1 GCGACAACCTCCA-C-C-GCC
* * * * *
104319507 TCGACAGCCTCTACTGCA
1 GCGACAACCTCCACCGCC
* *
104319525 GCGACAACCTCAACCGCA
1 GCGACAACCTCCACCGCC
* * * *
104319543 GCAACAGCCTCGACCGCT
1 GCGACAACCTCCACCGCC
** *
104319561 GCGACAA-CTGAACTGCC
1 GCGACAACCTCCACCGCC
* * *
104319578 GGCTCGACAGCCTCCACTGCA
1 -G--CGACAACCTCCACCGCC
* *
104319599 GCGACAACCTCAACCGCA
1 GCGACAACCTCCACCGCC
** * *
104319617 GTAACAGCCTCAACCGCC
1 GCGACAACCTCCACCGCC
* *
104319635 GCGACAGCTTCCACCGC
1 GCGACAACCTCCACCGC
104319652 GACAGCCTCC
Statistics
Matches: 199, Mismatches: 54, Indels: 30
0.70 0.19 0.11
Matches are distributed among these distances:
12 7 0.04
13 1 0.01
17 8 0.04
18 155 0.78
19 1 0.01
20 8 0.04
21 19 0.10
ACGTcount: A:0.24, C:0.45, G:0.21, T:0.10
Consensus pattern (18 bp):
GCGACAACCTCCACCGCC
Found at i:104319472 original size:48 final size:48
Alignment explanation
Indices: 104319385--104319476 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
104319375 TCCACCGGCG
** * * *
104319385 CGACAACCTCCACCGCCGCGAAAGCCTCTACTGCGGCGACAGCCGCCA
1 CGACAACCTCCACCGCAACGAAAGCCTCGACCGCAGCGACAGCCGCCA
*
104319433 CGACAACCTCCACTGCAACGACAA-CCTCGACCGCAGCGACAGCC
1 CGACAACCTCCACCGCAACGA-AAGCCTCGACCGCAGCGACAGCC
104319477 TCGACCGTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
48 35 0.95
49 2 0.05
ACGTcount: A:0.26, C:0.46, G:0.21, T:0.08
Consensus pattern (48 bp):
CGACAACCTCCACCGCAACGAAAGCCTCGACCGCAGCGACAGCCGCCA
Found at i:104319477 original size:66 final size:66
Alignment explanation
Indices: 104319367--104319499 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 66
104319357 GCCCCCATTG
* * * *
104319367 CGACAACCTCCACCGGCGCGACAACCTCCACCGCCGCGAAAGCCTCTACTG-CGGCGACAGCCGC
1 CGACAACCTCCACCGGCACGACAACCTCCACCGCAGCGAAAGCCTCGACCGTC-GCGACAGCCGC
104319431 CA
65 CA
* * *
104319433 CGACAACCTCCA-CTGCAACGACAACCTCGACCGCAGCGACAGCCTCGACCGTCGCGACAGCCGC
1 CGACAACCTCCACCGGC-ACGACAACCTCCACCGCAGCGAAAGCCTCGACCGTCGCGACAGCCGC
104319497 CA
65 CA
104319499 C
1 C
104319500 CGCTGCCTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 3 0.05
66 54 0.93
67 1 0.02
ACGTcount: A:0.24, C:0.47, G:0.22, T:0.08
Consensus pattern (66 bp):
CGACAACCTCCACCGGCACGACAACCTCCACCGCAGCGAAAGCCTCGACCGTCGCGACAGCCGCC
A
Found at i:104319529 original size:57 final size:57
Alignment explanation
Indices: 104319451--104319562 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 57
104319441 TCCACTGCAA
* * *
104319451 CGACAACCTCGACCGCAGCGACAGCCTCGACCGTC-GCGACAGCCGCCACCGCTGCCT
1 CGACAACCTCGACCGCAGCGACAACCTCAACCG-CAGCAACAGCCGCCACCGCTGCCT
* * * * *
104319508 CGACAGCCTCTACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGC
1 CGACAACCTCGACCGCAGCGACAACCTCAACCGCAGCAACAGCCGCCACCGCTGC
104319563 GACAACTGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
56 1 0.02
57 45 0.98
ACGTcount: A:0.22, C:0.46, G:0.22, T:0.10
Consensus pattern (57 bp):
CGACAACCTCGACCGCAGCGACAACCTCAACCGCAGCAACAGCCGCCACCGCTGCCT
Found at i:104319610 original size:74 final size:75
Alignment explanation
Indices: 104319426--104319640 Score: 272
Period size: 74 Copynumber: 2.9 Consensus size: 75
104319416 TGCGGCGACA
* * * * *
104319426 GCCGCCACGACAACCTCCACTGCAACGACAACCTCGACCGCAGCGACAGCCTCGACCG-TCGCGA
1 GCCGCCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCT-GCGA
* *
104319490 CAGCCGCCACC
65 CAACCGCAACC
* *
104319501 GCTGCCTCGACAGCCTCTACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGCGAC
1 GCCGCCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGCGAC
* *
104319566 AACTG-AACT
66 AACCGCAACC
* * * *
104319575 GCCGGCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGTAACAGCCTCAACCGCCGCGAC
1 GCCGCCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGCGAC
104319640 A
66 A
104319641 GCTTCCACCG
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
74 62 0.51
75 59 0.48
76 1 0.01
ACGTcount: A:0.25, C:0.44, G:0.21, T:0.10
Consensus pattern (75 bp):
GCCGCCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGCGAC
AACCGCAACC
Found at i:104319653 original size:15 final size:15
Alignment explanation
Indices: 104319633--104319664 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104319623 GCCTCAACCG
*
104319633 CCGCGACAGCTTCCA
1 CCGCGACAGCCTCCA
104319648 CCGCGACAGCCTCCA
1 CCGCGACAGCCTCCA
104319663 CC
1 CC
104319665 AATGCGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.53, G:0.19, T:0.09
Consensus pattern (15 bp):
CCGCGACAGCCTCCA
Found at i:104320532 original size:14 final size:15
Alignment explanation
Indices: 104320509--104320539 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104320499 TTTTGAGCAA
104320509 TTTAA-TTTTTTTCT
1 TTTAACTTTTTTTCT
104320523 TTTAACTTTTTTTCT
1 TTTAACTTTTTTTCT
104320538 TT
1 TT
104320540 ATTTTCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTAACTTTTTTTCT
Found at i:104321573 original size:24 final size:24
Alignment explanation
Indices: 104321529--104321574 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
104321519 AGTCCCTTAC
*
104321529 AAGCCCAAAAACAACAAAAAACAG
1 AAGCCCAAAAACAAAAAAAAACAG
*
104321553 AAGCCC-AAATCAAAAATAAAAC
1 AAGCCCAAAAACAAAAA-AAAAC
104321575 CCTAAGACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.65, C:0.24, G:0.07, T:0.04
Consensus pattern (24 bp):
AAGCCCAAAAACAAAAAAAAACAG
Found at i:104322781 original size:18 final size:18
Alignment explanation
Indices: 104322754--104322792 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
104322744 TCTGTTATAT
104322754 TTTATCATTTTATT-TTA
1 TTTATCATTTTATTATTA
104322771 TTTATCTATTTTATTATTA
1 TTTATC-ATTTTATTATTA
104322790 TTT
1 TTT
104322793 CCTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 8 0.40
19 6 0.30
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATCATTTTATTATTA
Found at i:104325623 original size:25 final size:25
Alignment explanation
Indices: 104325593--104325648 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
104325583 AGAGTAACAG
*
104325593 ATAAAAAT-AATAAAGATGATGAA-A
1 ATAAAAATAAATAAAGATAAT-AAGA
*
104325617 ATAAAAATAAATAAGGATAATAAGA
1 ATAAAAATAAATAAAGATAATAAGA
104325642 ATAAAAA
1 ATAAAAA
104325649 AAGAAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (25 bp):
ATAAAAATAAATAAAGATAATAAGA
Found at i:104325692 original size:15 final size:15
Alignment explanation
Indices: 104325674--104325711 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
104325664 AAACCGATAA
104325674 ATAAATAAGTAAAAT
1 ATAAATAAGTAAAAT
104325689 ATAAA-ATAGTAAAAT
1 ATAAATA-AGTAAAAT
*
104325704 AAAAATAA
1 ATAAATAA
104325712 TAATGTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (15 bp):
ATAAATAAGTAAAAT
Found at i:104325975 original size:15 final size:16
Alignment explanation
Indices: 104325951--104325995 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
104325941 AGATATAAAG
104325951 AGAT-AAATAAAAT-T
1 AGATAAAATAAAATAT
104325965 AGATAAAAT-AAATAT
1 AGATAAAATAAAATAT
*
104325980 AGATTAAAATATAATA
1 AGA-TAAAATAAAATA
104325996 GCAATAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 8 0.31
15 8 0.31
16 6 0.23
17 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (16 bp):
AGATAAAATAAAATAT
Found at i:104326244 original size:15 final size:17
Alignment explanation
Indices: 104326202--104326244 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
104326192 TACAAGTAGG
104326202 TAAGAAAAATAAATATA
1 TAAGAAAAATAAATATA
104326219 TAAATGAAAAATAAATA-A
1 T-AA-GAAAAATAAATATA
104326237 TAAGAAAA
1 TAAGAAAA
104326245 CAAATATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 3 0.12
18 4 0.17
19 12 0.50
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (17 bp):
TAAGAAAAATAAATATA
Found at i:104326363 original size:3 final size:3
Alignment explanation
Indices: 104326355--104326389 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
104326345 CAGTAATTAA
104326355 AAT AAT AAT AAT AAT AAT AAT AGAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A
104326390 TATTAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:104326605 original size:3 final size:3
Alignment explanation
Indices: 104326597--104326683 Score: 54
Period size: 3 Copynumber: 29.0 Consensus size: 3
104326587 ATAGCAAAAC
* ** * * *
104326597 ATA ATA ATA ATA A-A ATA ATA ATA ATA ACA GCA AGA ATA AAA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
104326644 ATG ATA ATA GA-A GATA ATA ATA ATA CT- ATA ATAA ATA ATA
1 ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA AT-A ATA ATA
104326684 TATTAATTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
2 3 0.05
3 58 0.88
4 5 0.08
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:104326638 original size:27 final size:25
Alignment explanation
Indices: 104326608--104326677 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 25
104326598 TAATAATAAT
104326608 AAAATAATAATAATAACAGCAAGAATA
1 AAAATAATAATAATAACAG-AAG-ATA
* * *
104326635 AAAATAGTAATGATAATAGAAGATA
1 AAAATAATAATAATAACAGAAGATA
*
104326660 ATAATAATACTATAATAA
1 AAAATAATA--ATAATAA
104326678 ATAATATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 10 0.29
26 3 0.09
27 22 0.63
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (25 bp):
AAAATAATAATAATAACAGAAGATA
Found at i:104330073 original size:3 final size:3
Alignment explanation
Indices: 104330049--104330158 Score: 123
Period size: 3 Copynumber: 36.7 Consensus size: 3
104330039 AAAAGAAAAT
* * * *
104330049 ATA ATT ATA ATA GTA TTA ATA ATA ATA ATA GA-A ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * *
104330094 ATA ATA ATA ATG ATA ATA GTA ATA ATA ATA ATA ATA ATG ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
104330142 ATA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
104330159 TATATTATTA
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
2 1 0.01
3 86 0.98
4 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:104334672 original size:25 final size:26
Alignment explanation
Indices: 104334644--104334692 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
104334634 AAAAATAATA
* *
104334644 ATTTATTTAGGTTGTGG-ATTTTTCT
1 ATTTATTTAAGTGGTGGAATTTTTCT
*
104334669 ATTTTTTTAAGTGGTGGAATTTTT
1 ATTTATTTAAGTGGTGGAATTTTT
104334693 TTTGCCCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.18, C:0.02, G:0.20, T:0.59
Consensus pattern (26 bp):
ATTTATTTAAGTGGTGGAATTTTTCT
Found at i:104340461 original size:60 final size:59
Alignment explanation
Indices: 104340332--104340468 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
104340322 GATTTTTTTC
* * * *
104340332 CTTTTTTGGTCACCTAATTATGAAAAGTTATAAAATGGTCACCCAACTATTAGTATCTT
1 CTTTTTTGGTCACCCAATTATGAAAAGTTACAAAATGATCACCCAACTATTAATATCTT
* ** *
104340391 -TTTCTCTTGGTCACCCAATTATGAAAAGTTACAAAATGATTACTTAATTATTCAATAT-TGT
1 CTTT-T-TTGGTCACCCAATTATGAAAAGTTACAAAATGATCACCCAACTATT-AATATCT-T
104340452 CTTTTTTGGTCACCCAA
1 CTTTTTTGGTCACCCAA
104340469 CTAACTAGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
58 3 0.05
59 1 0.02
60 52 0.80
61 6 0.09
62 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (59 bp):
CTTTTTTGGTCACCCAATTATGAAAAGTTACAAAATGATCACCCAACTATTAATATCTT
Found at i:104340636 original size:6 final size:6
Alignment explanation
Indices: 104340627--104340668 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
104340617 TTCGAGTCGA
104340627 AGTCAG AGTCAG AGTCAG AGTCAG AGTCAG AGTCAG AGTCAG
1 AGTCAG AGTCAG AGTCAG AGTCAG AGTCAG AGTCAG AGTCAG
104340669 GTCTCCTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
AGTCAG
Found at i:104343386 original size:93 final size:93
Alignment explanation
Indices: 104343227--104343397 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
104343217 GCTCATAAGT
* * * *
104343227 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
104343292 CGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
* *
104343320 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
104343385 CGAGTTCGGATGC
66 CGAGTTCGGATGC
104343398 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:104343394 original size:46 final size:46
Alignment explanation
Indices: 104343220--104343394 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
104343210 GTAACCCGCT
* * * *
104343220 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
* * *
104343266 CATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC
*
104343316 TC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
*
104343359 CATAAGTAAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
104343395 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 61 0.56
47 29 0.27
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
Found at i:104343413 original size:46 final size:46
Alignment explanation
Indices: 104343228--104343413 Score: 129
Period size: 46 Copynumber: 4.0 Consensus size: 46
104343218 CTCATAAGTG
* ** * * *
104343228 AACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATGAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGTA
*
104343274 AACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCTCG--
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGTA
* * *
104343321 AACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--AAGTA
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCTAGTA
104343367 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTA
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTA
104343413 A
1 A
104343414 CATGTCACTT
Statistics
Matches: 111, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 59 0.53
47 30 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTA
Found at i:104348585 original size:23 final size:22
Alignment explanation
Indices: 104348532--104348604 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
104348522 ATTATAAAAA
* *
104348532 ATAATTTTAA-ATTCATTTTTT
1 ATAATTTAAATATTAATTTTTT
* *
104348553 ATACTATAAATATTAATTTTATT
1 ATAATTTAAATATTAATTTT-TT
104348576 ATAATTTAAATTTATTTAATTTTTT
1 ATAATTTAAA--TA-TTAATTTTTT
104348601 -TAAT
1 ATAAT
104348605 AATATAAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
21 7 0.17
22 8 0.20
23 10 0.24
24 4 0.10
25 4 0.10
26 8 0.20
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (22 bp):
ATAATTTAAATATTAATTTTTT
Found at i:104353660 original size:38 final size:38
Alignment explanation
Indices: 104353617--104353696 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
104353607 ATTATGGATA
*
104353617 GCTAAGATTATAAGATACCGTTAGGGTTTAGATCTAGG
1 GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
* * * *
104353655 GCTAAGATTATTAGTTATCTTTAGGGTTTAAATCTAGG
1 GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
104353693 GCTA
1 GCTA
104353697 TTAGAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (38 bp):
GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
Done.