Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 124 of 206
Found at i:37157086 original size:23 final size:23
Alignment explanation
Indices: 37157034--37157086 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
37157024 TAGTTTTGAT
37157034 ATTATTACAAATTTAATCCATAC
1 ATTATTACAAATTTAATCCATAC
* *
37157057 ATGATTA-AACATTTAA-GCATAC
1 ATTATTACAA-ATTTAATCCATAC
37157079 AATTATTA
1 -ATTATTA
37157087 TGTTGATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (23 bp):
ATTATTACAAATTTAATCCATAC
Found at i:37180764 original size:15 final size:15
Alignment explanation
Indices: 37180744--37180773 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37180734 CACAGTTTCA
37180744 CTATAGCTTTATAAT
1 CTATAGCTTTATAAT
*
37180759 CTATAGTTTTATAAT
1 CTATAGCTTTATAAT
37180774 ATAAAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (15 bp):
CTATAGCTTTATAAT
Found at i:37180805 original size:15 final size:15
Alignment explanation
Indices: 37180787--37180821 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37180777 AAGTTTTGCT
*
37180787 GTCTATTGTTTCACA
1 GTCTATAGTTTCACA
37180802 GTCTATAGTTTCACA
1 GTCTATAGTTTCACA
*
37180817 ATCTA
1 GTCTA
37180822 GATTTTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (15 bp):
GTCTATAGTTTCACA
Found at i:37182240 original size:42 final size:42
Alignment explanation
Indices: 37182194--37182283 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 42
37182184 CTAAGATCAA
* *
37182194 CATAGTC-AGCATGCTTAACATGCT-AATCAAATCTCAATTTAT
1 CATAGTCGA-CATGCTTAACATG-TAAATCAAATATCAATTAAT
37182236 CATAGTCGACATGCTTAACATGTAAATCAAATATCAATTAAT
1 CATAGTCGACATGCTTAACATGTAAATCAAATATCAATTAAT
*
37182278 AATAGT
1 CATAGT
37182284 GGCATGATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
41 1 0.02
42 41 0.95
43 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (42 bp):
CATAGTCGACATGCTTAACATGTAAATCAAATATCAATTAAT
Found at i:37184736 original size:46 final size:46
Alignment explanation
Indices: 37184682--37184775 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
37184672 ATAGTGTGGC
*
37184682 GTTCATCATATACCAAGGTTCCTATCGTCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
37184728 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
37184774 GT
1 GT
37184776 ATTTTCTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:37185204 original size:62 final size:64
Alignment explanation
Indices: 37185109--37185252 Score: 222
Period size: 62 Copynumber: 2.2 Consensus size: 64
37185099 AAAAAAATGT
* *
37185109 AAAAAAAGAATTTAGTTTCCATTCAAAATTCAAGAGTGGATATCAAGTTGT-AAAAAAAATTTTG
1 AAAAAAA-AAGTTAG-TTCCATTCAAAATTCAAGAGTGGATATCAAGTTGTAAAAAAAAATTCT-
37185173 TG
63 TG
37185175 AAAAAAAAA-TTAGTTCCATTC-AAATTCAAGAGTGGATATCAAGTTGTAAAAAAAAATTCTTG
1 AAAAAAAAAGTTAGTTCCATTCAAAATTCAAGAGTGGATATCAAGTTGTAAAAAAAAATTCTTG
37185237 AAAAAAAAAGTTAGTT
1 AAAAAAAAAGTTAGTT
37185253 TTGAACATAC
Statistics
Matches: 75, Mismatches: 1, Indels: 7
0.90 0.01 0.08
Matches are distributed among these distances:
62 37 0.49
63 25 0.33
64 4 0.05
65 2 0.03
66 7 0.09
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.30
Consensus pattern (64 bp):
AAAAAAAAAGTTAGTTCCATTCAAAATTCAAGAGTGGATATCAAGTTGTAAAAAAAAATTCTTG
Found at i:37186215 original size:19 final size:19
Alignment explanation
Indices: 37186170--37186223 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
37186160 CCAAAATGAA
**
37186170 ATTGAGAAAAGAAAAAAATG
1 ATTGA-AAAAGAAAAAAAAC
**
37186190 AGAGAAAAAGAAAAAAAAC
1 ATTGAAAAAGAAAAAAAAC
37186209 ATTGAAAAAGAAAAA
1 ATTGAAAAAGAAAAA
37186224 GAGAGTGAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 25 0.89
20 3 0.11
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (19 bp):
ATTGAAAAAGAAAAAAAAC
Found at i:37188452 original size:46 final size:46
Alignment explanation
Indices: 37188401--37188492 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
37188391 AGTGTGGCGC
37188401 TCATCATATACCAAGGTTCCTATCACCCTTGATAGTGGGTCGAGGT
1 TCATCATATACCAAGGTTCCTATCACCCTTGATAGTGGGTCGAGGT
**
37188447 TCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGT
1 TCATCATATACCAAGGTTCCTATCACCCTTGATAGTGGGTCGAGGT
37188493 CTTTTATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (46 bp):
TCATCATATACCAAGGTTCCTATCACCCTTGATAGTGGGTCGAGGT
Found at i:37190759 original size:10 final size:10
Alignment explanation
Indices: 37190740--37190800 Score: 70
Period size: 11 Copynumber: 5.7 Consensus size: 10
37190730 GTAGGTTCGG
37190740 AAAAAGAATTC
1 AAAAA-AATTC
37190751 AAAAAAATTC
1 AAAAAAATTC
37190761 AAACAAAAAATTC
1 --A-AAAAAATTC
37190774 GAAAAAAATTC
1 -AAAAAAATTC
37190785 -AAAAAATTC
1 AAAAAAATTC
37190794 AAAAAAA
1 AAAAAAA
37190801 AAGATATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
9 9 0.20
10 11 0.24
11 14 0.31
12 2 0.04
13 9 0.20
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.16
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:37190768 original size:13 final size:12
Alignment explanation
Indices: 37190751--37190802 Score: 58
Period size: 9 Copynumber: 4.6 Consensus size: 12
37190741 AAAAGAATTC
37190751 AAAAAAATTCAA
1 AAAAAAATTCAA
*
37190763 ACAAAAAATTC-G
1 A-AAAAAATTCAA
37190775 AAAAAAATTC--
1 AAAAAAATTCAA
37190785 -AAAAAATTCAA
1 AAAAAAATTCAA
37190796 AAAAAAA
1 AAAAAAA
37190803 GATATATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 9 0.26
11 9 0.26
12 8 0.23
13 9 0.26
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:37190778 original size:24 final size:24
Alignment explanation
Indices: 37190741--37190787 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37190731 TAGGTTCGGA
37190741 AAAAGAATTCAAAAAAATTCAAAC
1 AAAAGAATTCAAAAAAATTCAAAC
37190765 AAAA-AATTCGAAAAAAATTCAAA
1 AAAAGAATTC-AAAAAAATTCAAA
37190788 AAATTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.68, C:0.11, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAGAATTCAAAAAAATTCAAAC
Found at i:37190785 original size:34 final size:33
Alignment explanation
Indices: 37190739--37190802 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
37190729 AGTAGGTTCG
37190739 GAAAAAGAATTCAAAAAAATTCAAACAAAAAATTC
1 GAAAAAGAATTC-AAAAAATTCAAA-AAAAAATTC
37190774 GAAAAA-AATTCAAAAAATTCAAAAAAAAA
1 GAAAAAGAATTCAAAAAATTCAAAAAAAAA
37190803 GATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 6 0.21
33 12 0.41
34 5 0.17
35 6 0.21
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (33 bp):
GAAAAAGAATTCAAAAAATTCAAAAAAAAATTC
Found at i:37190789 original size:20 final size:19
Alignment explanation
Indices: 37190741--37190800 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 19
37190731 TAGGTTCGGA
37190741 AAAAGAATTCAAAAAAATTCAAAC
1 AAAA-AATTCAAAAAAATT----C
37190765 AAAAAATTCGAAAAAAATTC
1 AAAAAATTC-AAAAAAATTC
37190785 AAAAAATTCAAAAAAA
1 AAAAAATTCAAAAAAA
37190801 AAGATATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.20
20 10 0.29
23 5 0.14
24 13 0.37
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAAATTCAAAAAAATTC
Found at i:37190801 original size:20 final size:20
Alignment explanation
Indices: 37190764--37190801 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
37190754 AAAATTCAAA
*
37190764 CAAAAAATTCGAAAAAAATT
1 CAAAAAATTCAAAAAAAATT
37190784 CAAAAAATTCAAAAAAAA
1 CAAAAAATTCAAAAAAAA
37190802 AGATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (20 bp):
CAAAAAATTCAAAAAAAATT
Found at i:37191763 original size:15 final size:15
Alignment explanation
Indices: 37191743--37191771 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37191733 ATGTTGTAAT
37191743 GAAAAAGAAAAAGAG
1 GAAAAAGAAAAAGAG
37191758 GAAAAAGAAAAAGA
1 GAAAAAGAAAAAGA
37191772 AGTTGAAAAA
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAGAG
Found at i:37191781 original size:18 final size:18
Alignment explanation
Indices: 37191742--37191802 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
37191732 CATGTTGTAA
37191742 TGAAAAAGAAAAAG-AG-
1 TGAAAAAGAAAAAGAAGT
37191758 -GAAAAAGAAAAAGAAGT
1 TGAAAAAGAAAAAGAAGT
* * *
37191775 TGAAAAAGAGACAGAATT
1 TGAAAAAGAAAAAGAAGT
*
37191793 TGAGAAAGAA
1 TGAAAAAGAA
37191803 CATAAGAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 13 0.35
16 2 0.05
18 22 0.59
ACGTcount: A:0.64, C:0.02, G:0.25, T:0.10
Consensus pattern (18 bp):
TGAAAAAGAAAAAGAAGT
Found at i:37191913 original size:34 final size:32
Alignment explanation
Indices: 37191850--37191922 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
37191840 AATGAAAGTG
*
37191850 TGAGGAAAAAGAGAAAATTGAAAAGGAAAAAAA
1 TGAGGAAAAAGAGAAAAGTGAAAAGG-AAAAAA
**
37191883 TGAGAGAAAAAGAGGCAAGTGAATAA-GAAAAAA
1 TGAG-GAAAAAGAGAAAAGTGAA-AAGGAAAAAA
37191916 TGAGGAA
1 TGAGGAA
37191923 TCTGTTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 3 0.09
33 14 0.40
34 16 0.46
35 2 0.06
ACGTcount: A:0.62, C:0.01, G:0.27, T:0.10
Consensus pattern (32 bp):
TGAGGAAAAAGAGAAAAGTGAAAAGGAAAAAA
Found at i:37197199 original size:39 final size:39
Alignment explanation
Indices: 37197143--37197438 Score: 324
Period size: 39 Copynumber: 7.4 Consensus size: 39
37197133 AATGAAATAT
* * * *
37197143 TGATTATACTAAATGCTTGTTTAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
*
37197182 TAATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* *
37197221 TGATTATATTGAATGATTGCTCAAACGAGCATTATTCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* *
37197260 TAATTATACTAAATGGTTGAATGCTTTCTCAAACGAAGCATTATCCAC
1 TGA-T-TA-T--A---TTGAATGCTTGCTCAAACG-AGCATTATCCAC
*
37197308 TGATTATATTGACTGCTTGCTCAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* ** *
37197347 TGATTATACTGAATGCTTGCTCAAGTGAGCATTATCCAT
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* * * *
37197386 TGATTATACTT-AATGCTTACTCAAATGAGCATTACCCAT
1 TGATTATA-TTGAATGCTTGCTCAAACGAGCATTATCCAC
*
37197425 TGATTATACTGAAT
1 TGATTATATTGAAT
37197439 AAGATTTTTT
Statistics
Matches: 221, Mismatches: 25, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
38 1 0.00
39 162 0.73
40 19 0.09
41 2 0.01
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 2 0.01
47 18 0.08
48 13 0.06
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (39 bp):
TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
Found at i:37197302 original size:87 final size:86
Alignment explanation
Indices: 37197190--37197434 Score: 283
Period size: 87 Copynumber: 2.9 Consensus size: 86
37197180 ACTAATTATA
37197190 TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATTA
1 TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATTA
*
37197255 TTCACTAATTATACTAAATGG
66 TCCACTAATTATACTAAATGG
* * *
37197276 TTGAATGCTTTCTCAAACGAAGCATTATCCACTGATTATATTGACTGCTTGCTCAAACGAGCATT
1 TTGAATGCTTGCTCAAACG-AGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATT
*
37197341 ATCCACTGATTATAC-------
65 ATCCACTAATTATACTAAATGG
** * * * *
37197356 -TGAATGCTTGCTCAAGTGAGCATTATCCATTGATTATACTT-AATGCTTACTCAAATGAGCATT
1 TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATA-TTGAATGATTGCTCAAACGAGCATT
* * *
37197419 ACCCATTGATTATACT
65 ATCCACTAATTATACT
37197435 GAATAAGATT
Statistics
Matches: 142, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
78 51 0.36
79 17 0.12
86 18 0.13
87 56 0.39
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (86 bp):
TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATTA
TCCACTAATTATACTAAATGG
Found at i:37197395 original size:126 final size:125
Alignment explanation
Indices: 37197165--37197400 Score: 373
Period size: 126 Copynumber: 1.9 Consensus size: 125
37197155 ATGCTTGTTT
*
37197165 AAACGAGCATTATCCACTAATTATATTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATAT
1 AAACGAGCATTATCCACTAATTATATTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATAC
*
37197230 TGAATGATTGCTCAAACGAGCATTATTCACTAATTATACTAAATGGTTGAATGCTTTCTC
66 TGAATGATTGCTCAAACGAGCATTATCCACTAATTATACTAAATGGTTGAATGCTTTCTC
* *
37197290 AAACGAAGCATTATCCACTGATTATATTGACTGCTTGCTCAAACGAGCATTATCCACTGATTATA
1 AAACG-AGCATTATCCACTAATTATATTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATA
* ** * * *
37197355 CTGAATGCTTGCTCAAGTGAGCATTATCCATTGATTATACTTAATG
65 CTGAATGATTGCTCAAACGAGCATTATCCACTAATTATACTAAATG
37197401 CTTACTCAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
125 5 0.05
126 95 0.95
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (125 bp):
AAACGAGCATTATCCACTAATTATATTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATAC
TGAATGATTGCTCAAACGAGCATTATCCACTAATTATACTAAATGGTTGAATGCTTTCTC
Found at i:37199491 original size:14 final size:15
Alignment explanation
Indices: 37199457--37199497 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
37199447 TAGCCCCAAC
*
37199457 AATATAATATCTCAT
1 AATATAATATTTCAT
37199472 AA-ATAATATTTC-T
1 AATATAATATTTCAT
37199485 AATATAA-ATTTCA
1 AATATAATATTTCA
37199498 CGTGAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 13 0.57
15 2 0.09
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATAATATTTCAT
Found at i:37205829 original size:45 final size:44
Alignment explanation
Indices: 37205757--37205841 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
37205747 GAGTTATGGA
*
37205757 AATTGATAAACCATTTTCATCAGGCAATTCAGGGTGACAAGAATG
1 AATTGATAAACCATTTTCATCAAGCAATTCAGGGTG-CAAGAATG
* *
37205802 AATTGATAAACCATTATT-GTCAAGCAATTCAGTGTGCAAG
1 AATTGATAAACCATT-TTCATCAAGCAATTCAGGGTGCAAG
37205842 TCATCGTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 4 0.11
45 30 0.83
46 2 0.06
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (44 bp):
AATTGATAAACCATTTTCATCAAGCAATTCAGGGTGCAAGAATG
Found at i:37209584 original size:20 final size:20
Alignment explanation
Indices: 37209559--37209598 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37209549 CCAGTGACTG
37209559 TATCGCCACATCGAAGGCAA
1 TATCGCCACATCGAAGGCAA
37209579 TATCGCCACATCGAAGGCAA
1 TATCGCCACATCGAAGGCAA
37209599 GACACCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.20, T:0.15
Consensus pattern (20 bp):
TATCGCCACATCGAAGGCAA
Found at i:37211704 original size:18 final size:18
Alignment explanation
Indices: 37211681--37211719 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
37211671 CTCACAATAC
37211681 ACAGTTTGACAAATTAAT
1 ACAGTTTGACAAATTAAT
* *
37211699 ACAGTTTGCCATATTAAT
1 ACAGTTTGACAAATTAAT
37211717 ACA
1 ACA
37211720 AATCACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
ACAGTTTGACAAATTAAT
Found at i:37211731 original size:36 final size:36
Alignment explanation
Indices: 37211690--37211771 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
37211680 CACAGTTTGA
* * * *
37211690 CAAATTAATACAGTTTGCCATATTAATACAAATCAC
1 CAAATTAACACAATTCGCCATAATAATACAAATCAC
* * *
37211726 CAAATTAACACAATTCGTCATAATAATATAATTCAC
1 CAAATTAACACAATTCGCCATAATAATACAAATCAC
*
37211762 CAAGTTAACA
1 CAAATTAACA
37211772 TGGTTCACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (36 bp):
CAAATTAACACAATTCGCCATAATAATACAAATCAC
Found at i:37224000 original size:23 final size:22
Alignment explanation
Indices: 37223957--37224000 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
37223947 TTCTAAGCTG
37223957 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
37223980 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
37224001 TTAGTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:37224219 original size:51 final size:50
Alignment explanation
Indices: 37224143--37224329 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 50
37224133 TCGGTTCACA
* * *
37224143 TAGTAGCCTGCACATACTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATACACG
* * ** * * * *
37224194 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAATTGTTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATCATCCGATACACG
* * *
37224245 TAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCC-AGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGA-TACACG
*
37224295 TAGTAGCCTGCACATAGTACTACACACGTGCCCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
37224330 CACGTTCACT
Statistics
Matches: 106, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
49 2 0.02
50 36 0.34
51 66 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATACACG
Found at i:37224324 original size:101 final size:101
Alignment explanation
Indices: 37224130--37224324 Score: 295
Period size: 102 Copynumber: 1.9 Consensus size: 101
37224120 TAATCAATGA
* * *
37224130 TGTTCGGTTCACATAGTAGCCTGCACATACTACTACACATGTGACCATTACCATCCGATACACGT
1 TGTTCGGTACACATAGTAGCCTACACATACTACTACACATGCGACCA-TACCATCCGATACACGT
37224195 AGTAGCCTGCACATAGTACTACACACGTGATCGAAAT
65 AGTAGCCTGCACATAGTACTACACACGTGATCGAAAT
* * *
37224232 TGTTCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCC-AGTACACG
1 TGTTCGGTACACATAGTAGCCTACACATACTACTACACATGCGACCATACCA-TCCGA-TACACG
37224295 TAGTAGCCTGCACATAGTACTACACACGTG
64 TAGTAGCCTGCACATAGTACTACACACGTG
37224325 CCCATCACGT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
100 5 0.06
101 39 0.46
102 41 0.48
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
TGTTCGGTACACATAGTAGCCTACACATACTACTACACATGCGACCATACCATCCGATACACGTA
GTAGCCTGCACATAGTACTACACACGTGATCGAAAT
Found at i:37224359 original size:101 final size:101
Alignment explanation
Indices: 37224139--37224328 Score: 251
Period size: 101 Copynumber: 1.9 Consensus size: 101
37224129 ATGTTCGGTT
* *
37224139 CACATAGTAGCCTGCACATACTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTG
1 CACATAGTAGCCTACACATACTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTG
* * * *
37224204 CACATAGTACTACACACGTGATCGAAATTGTTCGGTA
65 CACATAGTACTACACACGTGACCCAAATCGTTCCGTA
* * *
37224241 CGCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCC-AGTACACGTAGTAGCCT
1 CACATAGTAGCCTACACATACTACTACACATGCGACCATACCA-TCCGA-TACACGTAGTAGCCT
37224304 GCACATAGTACTACACACGTG-CCCA
64 GCACATAGTACTACACACGTGACCCA
37224329 TCACGTTCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
100 7 0.09
101 39 0.49
102 33 0.42
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (101 bp):
CACATAGTAGCCTACACATACTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGC
ACATAGTACTACACACGTGACCCAAATCGTTCCGTA
Found at i:37226979 original size:99 final size:104
Alignment explanation
Indices: 37226855--37227088 Score: 255
Period size: 99 Copynumber: 2.3 Consensus size: 104
37226845 ACTGCCAATT
* * * ** * **
37226855 CCATATCCCAGATATGGTCTAACATGGGAGTTCTCATAT-AGGTGCCCATGCCATGTCCCAGACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCA-GTGCCAACACCATGTCCCAGACA
* *
37226919 TGGTCTTACGGGGGACCTC-TCATCTC-A-G-TGCCAACG
65 TGGTCTTACAGGGGACCTCTTAATCTCAATGATGCCAACG
* *
37226955 CCATGTCCCAGACAT-GTCTTACATGGAACCTCTCATCTCAGTGCCAACACCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACACCATGTCCCAGACAT
* *
37227019 GGTCTTACATGGGACCTCTTATAATCTCAATGATGCCAATG
66 GGTCTTACAGGGGACCTC-T-TAATCTCAATGATGCCAACG
* *
37227060 TCATGTCCCAGAGATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
37227089 TCTCATCCTC
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
99 55 0.50
100 14 0.13
102 6 0.06
103 1 0.01
104 1 0.01
105 20 0.18
106 12 0.11
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (104 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACACCATGTCCCAGACAT
GGTCTTACAGGGGACCTCTTAATCTCAATGATGCCAACG
Found at i:37227065 original size:56 final size:50
Alignment explanation
Indices: 37226798--37227095 Score: 255
Period size: 49 Copynumber: 5.9 Consensus size: 50
37226788 GAATATAACA
* * * ** * * * *
37226798 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
** * * * ** *
37226847 TGCCAATTCCATATCCCAGATATGGTCTAACATGGGAGTTCTCATAT-AGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
* * **
37226897 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
*
37226947 TGCCAACGCCATGTCCCAGACAT-GTCTTACATGGAACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
37226996 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATAATCTCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTC---TCATCTC-A-G
* * *
37227051 ATGCCAATGTCATGTCCCAGAGATGGTCTTACATGGGA--TCTCATC
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
37227096 CTCTTAATGT
Statistics
Matches: 204, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
49 81 0.40
50 75 0.37
51 5 0.02
53 6 0.03
54 3 0.01
55 1 0.00
56 33 0.16
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:37237052 original size:22 final size:22
Alignment explanation
Indices: 37237027--37237118 Score: 64
Period size: 22 Copynumber: 4.0 Consensus size: 22
37237017 AACACACCAT
37237027 TTGTAGATAAGCCACCACATAA
1 TTGTAGATAAGCCACCACATAA
* *
37237049 TTGTCGAT-AGACGACCACATAACACA
1 TTGTAGATAAG-CCACCACAT---A-A
* *
37237075 TTGTGGACAAGCCACCACATAA
1 TTGTAGATAAGCCACCACATAA
*
37237097 TTGCTA-ATAA-CGACCACATAA
1 TTG-TAGATAAGCCACCACATAA
37237118 T
1 T
37237119 CCATATAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
21 13 0.24
22 22 0.40
23 2 0.04
25 1 0.02
26 15 0.27
27 2 0.04
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (22 bp):
TTGTAGATAAGCCACCACATAA
Found at i:37242269 original size:22 final size:21
Alignment explanation
Indices: 37242244--37242289 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
37242234 TGATAAACTT
37242244 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
37242266 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
37242287 TAA
1 TAA
37242290 ACTTAGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:37248585 original size:42 final size:42
Alignment explanation
Indices: 37248528--37248610 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
37248518 AATATGTGTG
*
37248528 AAACATTTGGAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
* *
37248570 AAACGTTTGAAATTCAAATATTTGAACTCTTGTTCTTATCC
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
37248611 CTTTGAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (42 bp):
AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:37254377 original size:10 final size:9
Alignment explanation
Indices: 37254362--37254403 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
37254352 TATTTTTCTA
37254362 TTTTGTTTGT
1 TTTTGTTT-T
37254372 TTTTGTTTT
1 TTTTGTTTT
*
37254381 TTGTGTTTT
1 TTTTGTTTT
*
37254390 TTTTGCTTT
1 TTTTGTTTT
37254399 TTTTG
1 TTTTG
37254404 GTGCAGAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:37254399 original size:19 final size:19
Alignment explanation
Indices: 37254365--37254401 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37254355 TTTTCTATTT
37254365 TGTTTGTTTTTGTTTTTTG
1 TGTTTGTTTTTGTTTTTTG
37254384 TGTTT-TTTTTGCTTTTTT
1 TGTTTGTTTTTG-TTTTTT
37254402 TGGTGCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (19 bp):
TGTTTGTTTTTGTTTTTTG
Found at i:37256053 original size:22 final size:22
Alignment explanation
Indices: 37256025--37256067 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
37256015 TTTATTGTTC
37256025 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
37256047 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
37256068 TAGCCCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:37257236 original size:20 final size:20
Alignment explanation
Indices: 37257177--37257238 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
37257167 AATTATTTAA
*
37257177 TGATTGCACTTACGTGCCCC
1 TGATTGTACTTACGTGCCCC
* * *
37257197 TGTTTGTAC-TCCAGTACCCC
1 TGATTGTACTTAC-GTGCCCC
37257217 TGATTGTACTTACGTGCCCC
1 TGATTGTACTTACGTGCCCC
37257237 TG
1 TG
37257239 TTTTCACTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.15, C:0.32, G:0.19, T:0.34
Consensus pattern (20 bp):
TGATTGTACTTACGTGCCCC
Found at i:37257247 original size:20 final size:19
Alignment explanation
Indices: 37257184--37257247 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
37257174 TAATGATTGC
37257184 ACTTACGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTT-T
* * *
37257204 AC-TCCAGTACCCCTGATTGT
1 ACTTAC-GTGCCCCTG-TTTT
37257224 ACTTACGTGCCCCTGTTTT
1 ACTTACGTGCCCCTGTTTT
37257243 CACTT
1 -ACTT
37257248 TAGTGCCCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 5 0.15
20 25 0.74
21 4 0.12
ACGTcount: A:0.14, C:0.33, G:0.16, T:0.38
Consensus pattern (19 bp):
ACTTACGTGCCCCTGTTTT
Found at i:37261449 original size:22 final size:20
Alignment explanation
Indices: 37261424--37261469 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
37261414 TTTTTTATGT
37261424 ATAAAGGTTATAATAATTAAA
1 ATAAAGG-TATAATAATTAAA
*
37261445 A-ATAA-GTATTATAATTAAA
1 ATA-AAGGTATAATAATTAAA
37261464 ATAAAG
1 ATAAAG
37261470 ATGAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
19 15 0.71
20 3 0.14
21 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (20 bp):
ATAAAGGTATAATAATTAAA
Found at i:37265282 original size:17 final size:18
Alignment explanation
Indices: 37265246--37265283 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
37265236 AGAAAATTGA
*
37265246 AAACGAGATTGAAGAAAG
1 AAACGAGAGTGAAGAAAG
37265264 AAACGAGAGTGAA-AAAG
1 AAACGAGAGTGAAGAAAG
37265281 AAA
1 AAA
37265284 TGAGTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.61, C:0.05, G:0.26, T:0.08
Consensus pattern (18 bp):
AAACGAGAGTGAAGAAAG
Found at i:37267067 original size:20 final size:20
Alignment explanation
Indices: 37267022--37267069 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37267012 TTCAACTCAA
* *
37267022 TTTTAGCTCAATGAGCTCGT
1 TTTTAGCTCAATGAGATCAT
* *
37267042 TCTTAGCTCGATGAGATCAT
1 TTTTAGCTCAATGAGATCAT
37267062 TTTTAGCT
1 TTTTAGCT
37267070 GACTTTAGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (20 bp):
TTTTAGCTCAATGAGATCAT
Found at i:37284926 original size:26 final size:25
Alignment explanation
Indices: 37284880--37284956 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 25
37284870 TTTCTTAACT
37284880 CAATTTTACCCCAGTAAAATTTTGA
1 CAATTTTACCCCAGTAAAATTTTGA
*
37284905 CGATTTTACTCCC-GATAAAATTTTGA
1 CAATTTTAC-CCCAG-TAAAATTTTGA
*
37284931 CAATTTTACCCCTAGTAAAAATTTGA
1 CAATTTTACCCC-AGTAAAATTTTGA
37284957 GAAAATTCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
25 12 0.27
26 32 0.71
27 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (25 bp):
CAATTTTACCCCAGTAAAATTTTGA
Found at i:37288306 original size:45 final size:45
Alignment explanation
Indices: 37288200--37288328 Score: 131
Period size: 45 Copynumber: 2.9 Consensus size: 45
37288190 ACCGTTACAT
* * *
37288200 GGTGG-ATCAGCACATAGC-ACCATCCT-TATAATCAATCATATT-T
1 GGTGGAATCAACACATAGCAACCA-CCTATATAATCAATGAT-TTCC
* * **
37288243 GGTGGAATCAGCATATAGCAACCACCTATATTTTCAATGATTTCC
1 GGTGGAATCAACACATAGCAACCACCTATATAATCAATGATTTCC
* *
37288288 GGTGGAGTCAACACATAGCAACCACCTTTATAATCAATGAT
1 GGTGGAATCAACACATAGCAACCACCTATATAATCAATGAT
37288329 ACTCAGTACA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
43 5 0.07
44 17 0.24
45 49 0.69
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (45 bp):
GGTGGAATCAACACATAGCAACCACCTATATAATCAATGATTTCC
Found at i:37293596 original size:44 final size:45
Alignment explanation
Indices: 37293446--37293646 Score: 208
Period size: 45 Copynumber: 4.5 Consensus size: 45
37293436 CAGTACATTG
* * ** * *
37293446 CCACCCTTATAATCAATTATATTCGGTGGAATCAACATATAGCAA
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGAAA
** ** * * *
37293491 CCACCTTTATTTTCAATGATTTCTGGTGCAGTCAACACATAGAAA
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGAAA
*
37293536 CCACCTTTATAATCAATGGTACCCGGTGGAATCAACACATAG-AA
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGAAA
* * * *
37293580 CCACCTTTATAATCAATGGTACCCGGTAGAACCAGCACATA-ACAA
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGA-AA
*
37293625 CCACTTTTATAATCAATGATAC
1 CCACCTTTATAATCAATGATAC
37293647 TCAGTACACG
Statistics
Matches: 130, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
44 40 0.31
45 90 0.69
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (45 bp):
CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGAAA
Found at i:37293628 original size:89 final size:90
Alignment explanation
Indices: 37293446--37293646 Score: 219
Period size: 89 Copynumber: 2.2 Consensus size: 90
37293436 CAGTACATTG
* * ** * **
37293446 CCACCCTTATAATCAATTATATTCGGTGGAATCAACATATAGCAACCACCTTTATTTTCAATGAT
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGAT
** * **
37293511 TTCTGGTGCAGTCAACACATAGAAA
66 ACCCGGTGCAACCAACACATAGAAA
* *
37293536 CCACCTTTATAATCAATGGTACCCGGTGGAATCAACACATAG-AACCACCTTTATAATCAATGGT
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGAT
*
37293600 ACCCGGTAG-AACCAGCACATA-ACAA
66 ACCCGGT-GCAACCAACACATAGA-AA
*
37293625 CCACTTTTATAATCAATGATAC
1 CCACCTTTATAATCAATGATAC
37293647 TCAGTACACG
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.01
89 54 0.59
90 37 0.40
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (90 bp):
CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGAT
ACCCGGTGCAACCAACACATAGAAA
Found at i:37309175 original size:31 final size:34
Alignment explanation
Indices: 37309114--37309175 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
37309104 TAATCATATA
* *
37309114 TTGTTATTATATTGTTTTTTTTATAGTTAAATTG
1 TTGTTATTATAATGTTTTTTTTACAGTTAAATTG
37309148 TTGTT-TTATAATG-TTTTTTTACA-TTAAA
1 TTGTTATTATAATGTTTTTTTTACAGTTAAA
37309176 AGGATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 5 0.19
32 9 0.35
33 7 0.27
34 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.63
Consensus pattern (34 bp):
TTGTTATTATAATGTTTTTTTTACAGTTAAATTG
Found at i:37310039 original size:31 final size:31
Alignment explanation
Indices: 37309972--37310050 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
37309962 AATTGATAAA
* *
37309972 CCATCGTCATCGGGCAATCTGTGGTGGTAAG
1 CCATCGTCATCGGGCAAACTGTGGTGGCAAG
*
37310003 CCATCGTCATCGGGCAAACTAG-GGTGGCATG
1 CCATCGTCATCGGGCAAACT-GTGGTGGCAAG
* * *
37310034 TCATCGTCCTTGGGCAA
1 CCATCGTCATCGGGCAA
37310051 TCCGGGATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.24
Consensus pattern (31 bp):
CCATCGTCATCGGGCAAACTGTGGTGGCAAG
Found at i:37316002 original size:5 final size:5
Alignment explanation
Indices: 37315988--37316031 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
37315978 ATTGACTTTT
* * * *
37315988 TACCC AACCC TACCC TATCC TATCC TACCC TACCT TACCC TACC
1 TACCC TACCC TACCC TACCC TACCC TACCC TACCC TACCC TACC
37316032 ATTACTTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.23, C:0.52, G:0.00, T:0.25
Consensus pattern (5 bp):
TACCC
Found at i:37322867 original size:22 final size:22
Alignment explanation
Indices: 37322839--37322919 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
37322829 TGTCATGAAA
37322839 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
37322861 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * * **
37322883 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAGC
37322905 CATGAGAGCTTAGTA
1 CATGAGAGCTTAGTA
37322920 TTACATATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:37325123 original size:51 final size:49
Alignment explanation
Indices: 37324989--37325180 Score: 179
Period size: 51 Copynumber: 3.8 Consensus size: 49
37324979 ATTATTATCA
* * * * *
37324989 TTCGATACACGTAGTAGCCCT-CACATAGTACTACACACGTGATCAAACTT
1 TTCGGTACACATAGTAG-CCTGCACATAGTACTACACACGTAACCAAAC-C
* * * *
37325039 TTCGGTTCACGTAGTAGCTTGCACATGGTACTACACACGTAACCAAAGCC
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTAACCAAA-CC
* * * * *
37325089 TTCCGGTACACATAATAGCCTGCACATATTACTACACATGTAACCATTATC
1 TT-CGGTACACATAGTAGCCTGCACATAGTACTACACACGTAACCA-AACC
* *
37325140 TATCGATACACATAGTAGCCTGCACTTAGTACTACACACGT
1 T-TCGGTACACATAGTAGCCTGCACATAGTACTACACACGT
37325181 GTTTATAGGC
Statistics
Matches: 116, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 40 0.34
51 72 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (49 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTAACCAAACC
Found at i:37331752 original size:27 final size:27
Alignment explanation
Indices: 37331720--37331797 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
37331710 TTTCATCTCC
**
37331720 TAGGGGTATAACAGTTATTTTACCCTA
1 TAGGGGTATTTCAGTTATTTTACCCTA
* * * *
37331747 TGGGGGTATTTCGGTCATTTTAACCTA
1 TAGGGGTATTTCAGTTATTTTACCCTA
*
37331774 TAGGGGTATTTCAATTATTTTACC
1 TAGGGGTATTTCAGTTATTTTACC
37331798 TATTTTGGGG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTCAGTTATTTTACCCTA
Found at i:37341436 original size:22 final size:22
Alignment explanation
Indices: 37341408--37341511 Score: 145
Period size: 22 Copynumber: 4.7 Consensus size: 22
37341398 CATCAGTGTT
*
37341408 ATCAGTGGCAGTTTATCTAAAA
1 ATCAGTGGCAGTTTATCTACAA
37341430 ATCAGTGGCAGTTTATCTACAA
1 ATCAGTGGCAGTTTATCTACAA
*
37341452 ATCAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCTACAA
* * *
37341474 TTCAGTGGTAGTTTATCTGCAA
1 ATCAGTGGCAGTTTATCTACAA
* *
37341496 ATTAGTGGCAGCTTAT
1 ATCAGTGGCAGTTTAT
37341512 TTGTAAATCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 72 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTACAA
Found at i:37343119 original size:135 final size:134
Alignment explanation
Indices: 37342865--37343126 Score: 470
Period size: 135 Copynumber: 1.9 Consensus size: 134
37342855 TGGTGTTAGA
* * * *
37342865 TTTTGTCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCATATAAGGAACGACTTTGAGAT
1 TTTTGCCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGAC
37342930 CCATAAGAAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
66 CCATAAGAAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
37342995 TAAC
131 TAAC
37342999 TTTTGCCGCACTATTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGA
1 TTTTGCCGCACT-TTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGA
*
37343064 CCCATAAGGAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTG
65 CCCATAAGAAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTG
37343127 TACACTCAAA
Statistics
Matches: 122, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
134 11 0.09
135 111 0.91
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.35
Consensus pattern (134 bp):
TTTTGCCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGAC
CCATAAGAAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
TAAC
Found at i:37374226 original size:25 final size:25
Alignment explanation
Indices: 37374163--37374236 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
37374153 TTACCGATTG
*
37374163 CAGCTCGTGAGAGCTTACTGATTCT
1 CAGCTCGTGAGAGCTTATTGATTCT
37374188 CAGCTCGT-ATGAGCTTATTGATT-T
1 CAGCTCGTGA-GAGCTTATTGATTCT
* * * *
37374212 GTAGCTCATGAGAGCATATCGATTC
1 -CAGCTCGTGAGAGCTTATTGATTC
37374237 ATAGTTCGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
24 2 0.05
25 37 0.93
26 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTATTGATTCT
Found at i:37378420 original size:37 final size:37
Alignment explanation
Indices: 37378370--37378457 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
37378360 GTGTCGAGGT
* *
37378370 GTGTTATTGGTTGGATTAGCTCTCATGAGCGTTTGGC
1 GTGTTATTGGTTGGATTAGCACTCATGAGCGCTTGGC
*
37378407 GTGTTATTGGTTGGATTAGCACTTATGAGCGCTTGGC
1 GTGTTATTGGTTGGATTAGCACTCATGAGCGCTTGGC
* *
37378444 ATGTT-TCGGTTGGA
1 GTGTTATTGGTTGGA
37378458 CTACTTATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 8 0.17
37 38 0.83
ACGTcount: A:0.15, C:0.12, G:0.33, T:0.40
Consensus pattern (37 bp):
GTGTTATTGGTTGGATTAGCACTCATGAGCGCTTGGC
Found at i:37382907 original size:45 final size:44
Alignment explanation
Indices: 37382785--37382945 Score: 139
Period size: 45 Copynumber: 3.5 Consensus size: 44
37382775 GTGATTGTTG
* * *
37382785 TGTACTGATTCTACCGGGTATCATTGATTATAAAGGTGGTGCTATGTGCTA
1 TGTACTGATTCCACCGAGTATCATTGACTAT-AAGGT-G-GC----TGCTA
* * *
37382836 TGTGCTGATTCCATCAAGTA-CTATTGACTATGAAGGTGGCTGCTA
1 TGTACTGATTCCACCGAGTATC-ATTGACTAT-AAGGTGGCTGCTA
37382881 TGTACTGATTCCACCGAGTATCATTGACTATAAGGGTGG-TGCTA
1 TGTACTGATTCCACCGAGTATCATTGACTATAA-GGTGGCTGCTA
* *
37382925 TGTGCTGA-TCCACCGTGTATC
1 TGTACTGATTCCACCGAGTATC
37382946 TGTTATTATT
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
43 12 0.13
44 14 0.15
45 36 0.38
46 1 0.01
49 2 0.02
50 2 0.02
51 28 0.29
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTACTGATTCCACCGAGTATCATTGACTATAAGGTGGCTGCTA
Found at i:37396760 original size:21 final size:21
Alignment explanation
Indices: 37396729--37396779 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
37396719 TTGAATGAAA
*
37396729 GTTTCGTTAAGAAATTTTAAC
1 GTTTCGATAAGAAATTTTAAC
* *
37396750 GTTTTGATAAGAAATTTTAAT
1 GTTTCGATAAGAAATTTTAAC
37396771 GTTTCGATA
1 GTTTCGATA
37396780 GTTAATTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (21 bp):
GTTTCGATAAGAAATTTTAAC
Found at i:37401431 original size:24 final size:23
Alignment explanation
Indices: 37401374--37401464 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 23
37401364 TTTCATCATG
* *
37401374 TATTATGTATTCATATTTTTGAAAT
1 TATTATGTATT-AT-TATTTAAAAT
* *
37401399 CATTGTGTATTATTATTCTAAAAT
1 TATTATGTATTATTATT-TAAAAT
*
37401423 TATTATGTATTATTACTTAAAAGT
1 TATTATGTATTATTATTTAAAA-T
*
37401447 TA-TACTATATTATTATTT
1 TATTA-TGTATTATTATTT
37401465 TTTTCATTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
23 10 0.19
24 35 0.65
25 9 0.17
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (23 bp):
TATTATGTATTATTATTTAAAAT
Found at i:37407118 original size:7 final size:7
Alignment explanation
Indices: 37407106--37407152 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
37407096 CTGAGTCAAA
37407106 AAAAATG
1 AAAAATG
37407113 AAAAATG
1 AAAAATG
37407120 AAAAATG
1 AAAAATG
37407127 AAAAATG
1 AAAAATG
*
37407134 -AGAATG
1 AAAAATG
37407140 AAAAATG
1 AAAAATG
37407147 AAAAAT
1 AAAAAT
37407153 AGAGAGGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:37407130 original size:13 final size:13
Alignment explanation
Indices: 37407107--37407150 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
37407097 TGAGTCAAAA
37407107 AAAATGAAAAATG
1 AAAATGAAAAATG
37407120 AAAAATGAAAAATG
1 -AAAATGAAAAATG
*
37407134 AGAATGAAAAATG
1 AAAATGAAAAATG
37407147 AAAA
1 AAAA
37407151 ATAGAGAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:37407139 original size:20 final size:20
Alignment explanation
Indices: 37407106--37407157 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
37407096 CTGAGTCAAA
*
37407106 AAAAATGAAAAATGAAAAATG
1 AAAAATG-AGAATGAAAAATG
37407127 AAAAATGAGAATGAAAAATG
1 AAAAATGAGAATGAAAAATG
37407147 AAAAATAGAGA
1 AAAAAT-GAGA
37407158 GGCTAAGGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAAATGAGAATGAAAAATG
Found at i:37408557 original size:44 final size:44
Alignment explanation
Indices: 37408502--37408850 Score: 157
Period size: 44 Copynumber: 7.5 Consensus size: 44
37408492 TAAAGAAGCA
*
37408502 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCGAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
* * ** * **
37408546 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATT-GAAGCAAGT
* * * * *
37408590 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTGAAGCAAGT
* * *
37408644 AATCTTATCTCCCTGAGATTACAGCGGAATAGATGGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
* ** * **
37408688 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATT-GAAGCAAGT
* * * * *
37408732 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTGAAGCAAGT
* * * * *
37408786 AATCTTATCTCTCTGAGATTATAGCGGAGCAGATGGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
*
37408830 AATCCTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTA
37408851 TAGTGGAGCG
Statistics
Matches: 225, Mismatches: 52, Indels: 56
0.68 0.16 0.17
Matches are distributed among these distances:
43 2 0.01
44 137 0.61
45 9 0.04
47 7 0.03
49 8 0.04
51 8 0.04
53 8 0.04
54 44 0.20
55 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
Found at i:37408757 original size:142 final size:142
Alignment explanation
Indices: 37408501--37408915 Score: 749
Period size: 142 Copynumber: 2.9 Consensus size: 142
37408491 CTAAAGAAGC
* *
37408501 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCGAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
37408566 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
37408631 GATTGAAGCCAG
131 GATTGAAGCCAG
* *
37408643 AAATCTTATCTCCCTGAGATTACAGCGGAATAGATGGAAGCTAGTAATCTTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
37408708 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
37408773 GATTGAAGCCAG
131 GATTGAAGCCAG
* * *
37408785 AAATCTTATCTCTCTGAGATTATAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
37408850 ATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
37408915 G
131 G
37408916 GTCTTATCTC
Statistics
Matches: 262, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 262 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
GATTGAAGCCAG
Found at i:37408851 original size:44 final size:44
Alignment explanation
Indices: 37408771--37408859 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
37408761 TAGATCGCAT
* * *
37408771 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTATAGCGGAG
1 CAGATGGAAGCCAGAAATCCTATCTCCCTGAGATTATAGCGGAG
* * *
37408815 CAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAG
1 CAGATGGAAGCCAGAAATCCTATCTCCCTGAGATTATAGCGGAG
37408859 C
1 C
37408860 GGATTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
CAGATGGAAGCCAGAAATCCTATCTCCCTGAGATTATAGCGGAG
Found at i:37409046 original size:50 final size:50
Alignment explanation
Indices: 37408992--37409155 Score: 163
Period size: 50 Copynumber: 3.3 Consensus size: 50
37408982 GCAGTGGAAC
*
37408992 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGAAGTTAAAA
* * * * * * * ** *
37409042 AGATTAAAGCTACAACAGCGAATCTTACTT-CCCTA-GTGGTGAAGTGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT--TGAAGTTAAAA
* *
37409092 AGATTAAAGCCACATCGATGAATCTTGCTTCCTCGACATT-ACAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGA-AGTTAAAA
37409142 AGATTAAAGCCACA
1 AGATTAAAGCCACA
37409156 ATGGCGAATC
Statistics
Matches: 86, Mismatches: 23, Indels: 10
0.72 0.19 0.08
Matches are distributed among these distances:
48 1 0.01
49 5 0.06
50 76 0.88
51 3 0.03
52 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGAAGTTAAAA
Found at i:37409142 original size:100 final size:100
Alignment explanation
Indices: 37408962--37409171 Score: 330
Period size: 100 Copynumber: 2.1 Consensus size: 100
37408952 AGAATTACAG
* *
37408962 ATCTTATCTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 ATCTTA-CTTCCCTAGCGGTGAAGTGGAACAGATTAAAGCCACATCGATGAATCTTGCTTCCCCG
** *
37409027 ACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
65 ACATTACAGTTAAAAAGATTAAAGCCACAACAGCGA
* *
37409063 ATCTTACTTCCCTAGTGGTGAAGTGGAACAGATTAAAGCCACATCGATGAATCTTGCTTCCTCGA
1 ATCTTACTTCCCTAGCGGTGAAGTGGAACAGATTAAAGCCACATCGATGAATCTTGCTTCCCCGA
**
37409128 CATTACAGTTAAAAAGATTAAAGCCACAATGGCGA
66 CATTACAGTTAAAAAGATTAAAGCCACAACAGCGA
37409163 ATCTTACTT
1 ATCTTACTT
37409172 TCCAAAAGTT
Statistics
Matches: 100, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 94 0.94
101 6 0.06
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (100 bp):
ATCTTACTTCCCTAGCGGTGAAGTGGAACAGATTAAAGCCACATCGATGAATCTTGCTTCCCCGA
CATTACAGTTAAAAAGATTAAAGCCACAACAGCGA
Found at i:37410880 original size:24 final size:23
Alignment explanation
Indices: 37410823--37410913 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 23
37410813 TTTCATCATG
* *
37410823 TATTATGTATTCATATTTTTGAAAT
1 TATTATGTATT-AT-TATTTAAAAT
* *
37410848 CATTGTGTATTATTATTCTAAAAT
1 TATTATGTATTATTATT-TAAAAT
*
37410872 TATTATGTATTATTACTTAAAAGT
1 TATTATGTATTATTATTTAAAA-T
*
37410896 TA-TACTATATTATTATTT
1 TATTA-TGTATTATTATTT
37410914 TTTCATTTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
23 10 0.19
24 35 0.65
25 9 0.17
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (23 bp):
TATTATGTATTATTATTTAAAAT
Found at i:37414425 original size:21 final size:22
Alignment explanation
Indices: 37414382--37414425 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37414372 ATTCATGACA
*
37414382 GAAACTAAGAGAAACACTTACC
1 GAAACTAAGAGAAACACTAACC
* *
37414404 GAAACTAAGTG-AGCACTAACC
1 GAAACTAAGAGAAACACTAACC
37414425 G
1 G
37414426 CGTATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (22 bp):
GAAACTAAGAGAAACACTAACC
Found at i:37429532 original size:26 final size:26
Alignment explanation
Indices: 37429466--37429800 Score: 369
Period size: 26 Copynumber: 12.7 Consensus size: 26
37429456 ACATGCCAAA
*
37429466 AAATGGAAGCCTTTGTAGCA-ATCTATG
1 AAATGGAAGCCTTTGTGGCATATC--TG
* * * *
37429493 AAATGAAAGTCTTTGCGGCGTATCTG
1 AAATGGAAGCCTTTGTGGCATATCTG
* *
37429519 AAATGGAAGCCTTTGTGGCAATATATC
1 AAATGGAAGCCTTTGTGGC-ATATCTG
37429546 AAATGGAAGCCTTTGTGGCA-ATCTATG
1 AAATGGAAGCCTTTGTGGCATATC--TG
* *
37429573 AAATGGAAACC-TTATGGCATATCTG
1 AAATGGAAGCCTTTGTGGCATATCTG
37429598 AAATGGAAGCCTTTGTGGCA-ATCCTG
1 AAATGGAAGCCTTTGTGGCATAT-CTG
37429624 AAATGGAAGCCTTTGTGGCA-ATCCATG
1 AAATGGAAGCCTTTGTGGCATAT-C-TG
*
37429651 AAATGAAAGCCTTTGTGGCATATCTG
1 AAATGGAAGCCTTTGTGGCATATCTG
*
37429677 AAATGGAAGTCTTTGTGGCATATCTG
1 AAATGGAAGCCTTTGTGGCATATCTG
37429703 AAATGGAAGCCTTTGTGGCA-ATCTATG
1 AAATGGAAGCCTTTGTGGCATATC--TG
* *
37429730 AAATAGAAGCCTTTGTGCCATATCTG
1 AAATGGAAGCCTTTGTGGCATATCTG
* *
37429756 AAATGGAAGACTTTTTGGCA-ATCTATG
1 AAATGGAAGCCTTTGTGGCATATC--TG
*
37429783 AAATGAAAGCCTTTGTGG
1 AAATGGAAGCCTTTGTGG
37429801 TGATCTATGG
Statistics
Matches: 264, Mismatches: 30, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
25 22 0.08
26 123 0.47
27 111 0.42
28 8 0.03
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGCATATCTG
Found at i:37429550 original size:53 final size:52
Alignment explanation
Indices: 37429466--37429800 Score: 372
Period size: 53 Copynumber: 6.3 Consensus size: 52
37429456 ACATGCCAAA
* * * * * *
37429466 AAATGGAAGCCTTTGTAGCAATCTATGAAATGAAAGTCTTTGCGGCGTATCTG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGC-AATCTG
*
37429519 AAATGGAAGCCTTTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCAATC--TG
* * *
37429573 AAATGGAAACC-TTATGGC-ATATCTGAAATGGAAGCCTTTGTGGCAATCCTG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCAAT-CTG
** *
37429624 AAATGGAAGCCTTTGTGGCAATCCATGAAATGAAAGCCTTTGTGGCATATCTG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCA-ATCTG
* *
37429677 AAATGGAAGTCTTTGTGGC-ATATCTGAAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCAATC--TG
* * * * *
37429730 AAATAGAAGCCTTTGT-GCCATATCTGAAATGGAAGACTTTTTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCAATC--TG
*
37429783 AAATGAAAGCCTTTGTGG
1 AAATGGAAGCCTTTGTGG
37429801 TGATCTATGG
Statistics
Matches: 244, Mismatches: 28, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
51 15 0.06
52 61 0.25
53 153 0.63
54 15 0.06
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (52 bp):
AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCAATCTG
Found at i:37429670 original size:79 final size:79
Alignment explanation
Indices: 37429466--37429809 Score: 471
Period size: 79 Copynumber: 4.3 Consensus size: 79
37429456 ACATGCCAAA
* * * *
37429466 AAATGGAAGCCTTTGTAGCAATCTATGAAATGAAAGTCTTTGCGGCGTATCTGAAATGGAAGCCT
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCCT
* *
37429531 TTGTGGCAATATATC
66 TTGTGGCAAT-CATG
*
37429546 AAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAA-CC-TTATGGCATATCTGAAATGGAAGCC
1 AAATGGAAGCCTTTGTGGCAATCTATGAAAT-GAAAGCCTTTGTGGCATATCTGAAATGGAAGCC
*
37429609 TTTGTGGCAATCCTG
65 TTTGTGGCAATCATG
* *
37429624 AAATGGAAGCCTTTGTGGCAATCCATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGTCT
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCCT
37429689 TTGTGGCATATC-TG
66 TTGTGGCA-ATCATG
* *
37429703 AAATGGAAGCCTTTGTGGCAATCTATGAAAT-AGAAGCCTTTGTGCCATATCTGAAATGGAAGAC
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATGA-AAGCCTTTGTGGCATATCTGAAATGGAAGCC
*
37429767 TTTTTGGCAATCTATG
65 TTTGTGGCAATC-ATG
* **
37429783 AAATGAAAGCCTTTGTGGTGATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
37429810 GAAAGGGTTA
Statistics
Matches: 239, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
77 4 0.02
78 37 0.15
79 134 0.56
80 60 0.25
81 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (79 bp):
AAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCCT
TTGTGGCAATCATG
Found at i:37429993 original size:27 final size:27
Alignment explanation
Indices: 37429963--37430059 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
37429953 AGACTGGATG
*
37429963 GTATGGCAAACACTAAAGGAATAGTAC
1 GTATGGCAAACACTGAAGGAATAGTAC
* *
37429990 GTATAG-AGAACATTGAAGGAAT-GATAC
1 GTATGGCA-AACACTGAAGGAATAG-TAC
* * * **
37430017 ATATGGCGAACACTGTAGGAATAGTGT
1 GTATGGCAAACACTGAAGGAATAGTAC
*
37430044 GTATGGCGAACACTGA
1 GTATGGCAAACACTGA
37430060 GAGAAATGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 2 0.04
27 51 0.94
28 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (27 bp):
GTATGGCAAACACTGAAGGAATAGTAC
Found at i:37435032 original size:50 final size:52
Alignment explanation
Indices: 37434945--37435091 Score: 201
Period size: 50 Copynumber: 2.9 Consensus size: 52
37434935 AGTGAAAGTG
* *
37434945 ATGGTCACGTGAGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGAT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATA
* * *
37434996 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG-AATGGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATA
* * *
37435046 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTATGTGAACCGAA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
37435092 CATCATTGAT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
49 5 0.06
50 39 0.47
51 38 0.46
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (52 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATA
Found at i:37435084 original size:26 final size:26
Alignment explanation
Indices: 37435003--37435084 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
37434993 GATAGGTCGC
*
37435003 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAAGCTACT
* * * *
37435029 ACGTGTA-T-CGAATG-GTAATGGTCAC-
1 ATGTGTAGTAC-TATGTGCAA-GCT-ACT
37435054 ATGTGTAGTACTATGTGCAAGCTACT
1 ATGTGTAGTACTATGTGCAAGCTACT
37435080 ATGTG
1 ATGTG
37435085 AACCGAACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 14
0.63 0.14 0.22
Matches are distributed among these distances:
24 3 0.08
25 14 0.35
26 19 0.47
27 4 0.10
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAAGCTACT
Found at i:37435142 original size:45 final size:45
Alignment explanation
Indices: 37435091--37435177 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
37435081 TGTGAACCGA
* * *
37435091 ACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCCACTGG
1 ACATCATTGATTAATAAAGGGGTTGCTATGTGCTGAATCCACTGG
*
37435136 ACATCATTGATTAATAAGGGGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAAGGGGTTGCTATGTGCTGAATCCAC
37435178 CGAGTATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGGGGTTGCTATGTGCTGAATCCACTGG
Found at i:37437791 original size:3 final size:3
Alignment explanation
Indices: 37437771--37437857 Score: 70
Period size: 3 Copynumber: 29.3 Consensus size: 3
37437761 AATACTAAAT
* * * * * *
37437771 ATA ATA ATG ATA ACA ATA ATA AGA ATA AGT- ATA ATA ACA CTA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * *
37437816 ATA ATA ATA ATA AGA ATA TTA ATA A-A ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37437858 GGACTAATTT
Statistics
Matches: 63, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
2 3 0.05
3 59 0.94
4 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:37439285 original size:35 final size:35
Alignment explanation
Indices: 37439217--37439337 Score: 172
Period size: 35 Copynumber: 3.5 Consensus size: 35
37439207 AGTACATCTA
* *
37439217 TAATCCAACCGAAACACACCAGATGCTCATAAGAGC
1 TAATCCATCCAAAACACACCA-ATGCTCATAAGAGC
* *
37439253 TAATCCATCCAGAACACATCAATGCTCATAAGAGC
1 TAATCCATCCAAAACACACCAATGCTCATAAGAGC
* *
37439288 TAATCCATCTAAAACACACCAATGCTCATAAGAGA
1 TAATCCATCCAAAACACACCAATGCTCATAAGAGC
37439323 T-ATCCATCCAAAACA
1 TAATCCATCCAAAACA
37439338 TGCCAAAACA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
34 13 0.17
35 46 0.61
36 17 0.22
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (35 bp):
TAATCCATCCAAAACACACCAATGCTCATAAGAGC
Found at i:37442407 original size:51 final size:50
Alignment explanation
Indices: 37442348--37442532 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 50
37442338 CCGGTTCACA
* *
37442348 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCTGATACACG
* * * * *
37442399 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCTGTTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCTGATACACG
* * * * *
37442450 TAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCTGATACACG
*
37442500 TAGTATCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
37442533 TAGCAACTTC
Statistics
Matches: 110, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 40 0.36
51 67 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCTGATACACG
Found at i:37442523 original size:101 final size:101
Alignment explanation
Indices: 37442346--37442530 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
37442336 ACCCGGTTCA
* * * *
37442346 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
37442411 CATAGTACTACACACGTGATCGAAGCTATCTGTTACG
65 CATAGTACTACACACGTGATCGAAGCTATCTGTTACG
* *
37442448 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTATCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCCGATACACGTAGTAGCCTGCA
37442512 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
37442531 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCTGTTACG
Found at i:37447431 original size:26 final size:28
Alignment explanation
Indices: 37447384--37447442 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
37447374 AAAGTGCATC
*
37447384 AAAATTTTCATATAATATAACATACTTA-
1 AAAATTTTCATATAAAATAACATA-TTAT
37447412 AAAATTTT-A-ATAAAATAACATATTAT
1 AAAATTTTCATATAAAATAACATATTAT
37447438 AAAAT
1 AAAAT
37447443 AAGAAAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 3 0.10
26 17 0.59
27 1 0.03
28 8 0.28
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATTTTCATATAAAATAACATATTAT
Found at i:37448271 original size:13 final size:13
Alignment explanation
Indices: 37448253--37448294 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
37448243 CAGTTAATAA
37448253 AAATCAGTTAGTC
1 AAATCAGTTAGTC
*
37448266 AAATCAGTTAAT-
1 AAATCAGTTAGTC
37448278 AGAATCAGTTAGTC
1 A-AATCAGTTAGTC
37448292 AAA
1 AAA
37448295 CCAGCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (13 bp):
AAATCAGTTAGTC
Found at i:37448288 original size:26 final size:27
Alignment explanation
Indices: 37448243--37448294 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
37448233 TTTAAATAAA
37448243 CAGTTAATAAAAATCAGTTAGTCAAAT
1 CAGTTAATAAAAATCAGTTAGTCAAAT
*
37448270 CAGTTAAT-AGAATCAGTTAGTCAAA
1 CAGTTAATAAAAATCAGTTAGTCAAA
37448295 CCAGCAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (27 bp):
CAGTTAATAAAAATCAGTTAGTCAAAT
Found at i:37448309 original size:26 final size:26
Alignment explanation
Indices: 37448254--37448310 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
37448244 AGTTAATAAA
* * *
37448254 AATCAGTTAGTCAAATCAGTTAATAG
1 AATCAGTTAGTCAAACCAGTCAATAC
37448280 AATCAGTTAGTCAAACCAG-CAATTAC
1 AATCAGTTAGTCAAACCAGTCAA-TAC
37448306 AATCA
1 AATCA
37448311 ACTATCAGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (26 bp):
AATCAGTTAGTCAAACCAGTCAATAC
Found at i:37448559 original size:20 final size:20
Alignment explanation
Indices: 37448514--37448562 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
37448504 TTTGTAATGG
*
37448514 TTATATCTTAATACTTAAAA
1 TTATATTTTAATACTTAAAA
37448534 -TATATTTTATATA-TTAAAA
1 TTATATTTTA-ATACTTAAAA
37448553 TTATATTTTA
1 TTATATTTTA
37448563 GAAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATATTTTAATACTTAAAA
Found at i:37448678 original size:38 final size:36
Alignment explanation
Indices: 37448612--37448687 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 36
37448602 TATATTTAAT
** * *
37448612 TTATTAAAATATTAATAATAAATTATTTTTATATTA
1 TTATTAAAATATTAATAATAAAAAATTTTAAAATTA
*
37448648 TTATTAAAATATCATAATATTAAAAAATTTTAAAATTA
1 TTATTAAAATAT--TAATAATAAAAAATTTTAAAATTA
37448686 TT
1 TT
37448688 TAAATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 12 0.36
38 21 0.64
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
TTATTAAAATATTAATAATAAAAAATTTTAAAATTA
Found at i:37450906 original size:6 final size:7
Alignment explanation
Indices: 37450889--37450916 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
37450879 TAACAAACCA
37450889 AAAAAAG
1 AAAAAAG
37450896 AAAAAAG
1 AAAAAAG
37450903 AAAAAAG
1 AAAAAAG
37450910 AAAAAAG
1 AAAAAAG
37450917 TGTGATATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:37452313 original size:2 final size:2
Alignment explanation
Indices: 37452306--37452341 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
37452296 ATCATGCTTA
37452306 AT AT AT AT AT 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 AT AT AT AT AT
37452342 GTAAATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37454201 original size:8 final size:8
Alignment explanation
Indices: 37454188--37454212 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37454178 ATAGATACAA
37454188 TTTTTAAT
1 TTTTTAAT
37454196 TTTTTAAT
1 TTTTTAAT
37454204 TTTTTAAT
1 TTTTTAAT
37454212 T
1 T
37454213 CCTTTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTAAT
Found at i:37466574 original size:30 final size:30
Alignment explanation
Indices: 37466528--37466585 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37466518 TTTGAGCTTT
37466528 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
* * * *
37466558 GGGGTAAAATTGTAATTTTGTCAAAGTT
1 GGGGCAAAAGTGTAATTATGTAAAAGTT
37466586 AGAGCCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
GGGGCAAAAGTGTAATTATGTAAAAGTTTA
Found at i:37466820 original size:13 final size:13
Alignment explanation
Indices: 37466798--37466828 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
37466788 TTTCCAAAAA
*
37466798 TTATGCATTTATT
1 TTATGAATTTATT
37466811 TTATGAATTTATT
1 TTATGAATTTATT
37466824 TTATG
1 TTATG
37466829 TTGACTCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:37467055 original size:50 final size:50
Alignment explanation
Indices: 37466924--37467116 Score: 224
Period size: 50 Copynumber: 3.8 Consensus size: 50
37466914 ATTTGGGTAA
* ** *
37466924 AGAGGTCCCATGTAAGACCATGTCTGGTACACAGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
37466974 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * ** *
37467024 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * *
37467074 AGAACATCCCATGTAAGACCATATCTGGGAGATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
37467117 TGTTATTATC
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 89 0.74
51 32 0.26
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:37473494 original size:82 final size:82
Alignment explanation
Indices: 37473354--37473517 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
37473344 GTGAGTTGAT
* *
37473354 GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTGTAGTAGAGGGATGGCATAGG
1 GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTATAGTAGAGAGATGGCATAGG
37473419 AGTTTATTAAAAATAGC
66 AGTTTATTAAAAATAGC
37473436 GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTATAGTAGAGAGATGGCATAGG
1 GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTATAGTAGAGAGATGGCATAGG
37473501 AGTTTATTAAAAATAGC
66 AGTTTATTAAAAATAGC
37473518 TTGGAGATCC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.27
Consensus pattern (82 bp):
GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTATAGTAGAGAGATGGCATAGG
AGTTTATTAAAAATAGC
Found at i:37478951 original size:22 final size:22
Alignment explanation
Indices: 37478923--37478991 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
37478913 TATATGAGTT
37478923 CGTTAAACATGAGAGCTTAGTA
1 CGTTAAACATGAGAGCTTAGTA
37478945 CGTTAAACATGAGAGCTTAGTA
1 CGTTAAACATGAGAGCTTAGTA
*
37478967 CGTGAAACATGAGAGCTTAGTA
1 CGTTAAACATGAGAGCTTAGTA
37478989 CGT
1 CGT
37478992 ACTATCAACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (22 bp):
CGTTAAACATGAGAGCTTAGTA
Found at i:37495382 original size:20 final size:20
Alignment explanation
Indices: 37495357--37495403 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
37495347 TGGGTTGAGT
37495357 TGAGCTGAATTCAACTCGAA
1 TGAGCTGAATTCAACTCGAA
* * * *
37495377 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTCAACTCGAA
37495397 TGAGCTG
1 TGAGCTG
37495404 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTCAACTCGAA
Found at i:37509146 original size:15 final size:16
Alignment explanation
Indices: 37509113--37509146 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37509103 TTATTCTATT
37509113 TTTCTTCACCTACTCC
1 TTTCTTCACCTACTCC
*
37509129 TTTCTTCCCCTA-TCC
1 TTTCTTCACCTACTCC
37509144 TTT
1 TTT
37509147 GCCAAACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTCTTCACCTACTCC
Found at i:37510445 original size:22 final size:22
Alignment explanation
Indices: 37510420--37510464 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
37510410 ATTATGATGA
37510420 TTGATATG-ATGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
37510442 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
37510464 T
1 T
37510465 GTGTTGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:37517321 original size:14 final size:14
Alignment explanation
Indices: 37517302--37517328 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37517292 CTAAAAATAA
37517302 AATTAAAGAAAAGG
1 AATTAAAGAAAAGG
37517316 AATTAAAGAAAAG
1 AATTAAAGAAAAG
37517329 AAAGATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (14 bp):
AATTAAAGAAAAGG
Found at i:37526178 original size:15 final size:16
Alignment explanation
Indices: 37526160--37526193 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
37526150 AGATTAAATT
37526160 AATTAA-CTAAATGCA
1 AATTAACCTAAATGCA
37526175 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
37526191 AAT
1 AAT
37526194 GAGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:37526581 original size:35 final size:35
Alignment explanation
Indices: 37526535--37526604 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
37526525 ATAGATATAA
*
37526535 TTTGGTTAAGTTATTAGAGTTAAGCTTGATTAATG
1 TTTGGTCAAGTTATTAGAGTTAAGCTTGATTAATG
37526570 TTTGGTCAAGTTATTAGAGTTAAGCTTGATTAATG
1 TTTGGTCAAGTTATTAGAGTTAAGCTTGATTAATG
37526605 CTAAAGCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (35 bp):
TTTGGTCAAGTTATTAGAGTTAAGCTTGATTAATG
Found at i:37533513 original size:16 final size:16
Alignment explanation
Indices: 37533492--37533523 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37533482 TCTTTCTTAA
37533492 CAACTTCCTTCATGAT
1 CAACTTCCTTCATGAT
37533508 CAACTTCCTTCATGAT
1 CAACTTCCTTCATGAT
37533524 GGGATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
CAACTTCCTTCATGAT
Found at i:37541166 original size:14 final size:14
Alignment explanation
Indices: 37541147--37541183 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
37541137 CTATACAGAA
37541147 ATCTTACAGTAAAC
1 ATCTTACAGTAAAC
*
37541161 ATCTTACAATAAAC
1 ATCTTACAGTAAAC
37541175 ATCTTACAG
1 ATCTTACAG
37541184 AAATCTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (14 bp):
ATCTTACAGTAAAC
Found at i:37546841 original size:26 final size:26
Alignment explanation
Indices: 37546811--37546871 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
37546801 CATAACATCA
37546811 TTTTAATTTCTTTTGTAACTCC-TAT
1 TTTTAATTTCTTTTGTAACTCCATAT
* *
37546836 TCTTTATTTTGTTTTGTAACTCCATAT
1 T-TTTAATTTCTTTTGTAACTCCATAT
*
37546863 TTTAAATTT
1 TTTTAATTT
37546872 GAAAAGGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.03
26 25 0.83
27 4 0.13
ACGTcount: A:0.21, C:0.13, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTTAATTTCTTTTGTAACTCCATAT
Found at i:37548041 original size:22 final size:22
Alignment explanation
Indices: 37548013--37548057 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
37548003 CCTTGTGGAA
37548013 AAGGTTAGAAACTCTTTATGCG
1 AAGGTTAGAAACTCTTTATGCG
37548035 AAGGTTAGAAACTCTTTATGCG
1 AAGGTTAGAAACTCTTTATGCG
37548057 A
1 A
37548058 CTAAGTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (22 bp):
AAGGTTAGAAACTCTTTATGCG
Found at i:37549172 original size:21 final size:21
Alignment explanation
Indices: 37549111--37549178 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 21
37549101 TGCTTATACA
*
37549111 GGCACAAATGTGC--TTTAGG
1 GGCACCAATGTGCAATTTAGG
* *
37549130 AGCACCGAA-GTGCAA-ATAGG
1 GGCACC-AATGTGCAATTTAGG
37549150 GGCACCAATGTGCAATTTAGG
1 GGCACCAATGTGCAATTTAGG
*
37549171 GGTACCAA
1 GGCACCAA
37549179 AGTACAAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 10 0.26
20 17 0.45
21 11 0.29
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (21 bp):
GGCACCAATGTGCAATTTAGG
Found at i:37549401 original size:2 final size:2
Alignment explanation
Indices: 37549394--37549419 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37549384 GTAATTTCAC
37549394 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
37549420 CAATTAAGTA
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:37571939 original size:24 final size:24
Alignment explanation
Indices: 37571912--37571970 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
37571902 CGATAACAAT
*
37571912 ATGCAGAAAATTTTGCCAGTAAAA
1 ATGCAGAAAATTCTGCCAGTAAAA
* *
37571936 ATGCAGACAA-GCTGCCAGTAAAA
1 ATGCAGAAAATTCTGCCAGTAAAA
37571959 ATGC-GATAAATT
1 ATGCAGA-AAATT
37571971 GCCATTTCCC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 2 0.07
23 17 0.61
24 9 0.32
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (24 bp):
ATGCAGAAAATTCTGCCAGTAAAA
Found at i:37575093 original size:65 final size:65
Alignment explanation
Indices: 37574992--37575122 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
37574982 TGACAAGTAA
37574992 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
37575057 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
37575122 A
1 A
37575123 AGAAATTTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (65 bp):
ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
Found at i:37589239 original size:21 final size:21
Alignment explanation
Indices: 37589165--37589241 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
37589155 TGCTAGTACA
*
37589165 GTGTAAATAAACCACTAATCG
1 GTGTAGATAAACCACTAATCG
* * ** * *
37589186 ATGCAGATAAAAACTGCTAGTACA
1 GTGTAGAT--AAACCACTAAT-CG
*
37589210 GTGTGGATAAACCACTAATCG
1 GTGTAGATAAACCACTAATCG
37589231 GTGTAGATAAA
1 GTGTAGATAAA
37589242 TTGCTCAGAC
Statistics
Matches: 38, Mismatches: 15, Indels: 6
0.64 0.25 0.10
Matches are distributed among these distances:
21 16 0.42
22 8 0.21
23 8 0.21
24 6 0.16
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (21 bp):
GTGTAGATAAACCACTAATCG
Found at i:37589239 original size:45 final size:45
Alignment explanation
Indices: 37589120--37589241 Score: 154
Period size: 45 Copynumber: 2.7 Consensus size: 45
37589110 TACTAGTATG
* * * * **
37589120 GTGTGGATAAACCACTCATTGGTACAAATAAAAGTTGCTAGTACA
1 GTGTGGATAAACCACTAATCGGTGCAGATAAAAACTGCTAGTACA
** *
37589165 GTGTAAATAAACCACTAATCGATGCAGATAAAAACTGCTAGTACA
1 GTGTGGATAAACCACTAATCGGTGCAGATAAAAACTGCTAGTACA
*
37589210 GTGTGGATAAACCACTAATCGGTGTAGATAAA
1 GTGTGGATAAACCACTAATCGGTGCAGATAAA
37589242 TTGCTCAGAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (45 bp):
GTGTGGATAAACCACTAATCGGTGCAGATAAAAACTGCTAGTACA
Found at i:37589356 original size:34 final size:34
Alignment explanation
Indices: 37589293--37589357 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
37589283 ATGCAATATG
**
37589293 ACATGCTTATAACAGACCAAGACGGTAGCAAGGA
1 ACATGCTTATAACAGACCAAGACAATAGCAAGGA
* * *
37589327 ACATGCTTATAACAGATCAATATAATAGCAA
1 ACATGCTTATAACAGACCAAGACAATAGCAA
37589358 TATATATGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (34 bp):
ACATGCTTATAACAGACCAAGACAATAGCAAGGA
Found at i:37599653 original size:21 final size:21
Alignment explanation
Indices: 37599627--37599689 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
37599617 TTGGTATTTG
37599627 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
37599648 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
37599669 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
37599690 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:37600880 original size:30 final size:30
Alignment explanation
Indices: 37600822--37600880 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
37600812 TTGAAAAGGT
* *
37600822 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
37600852 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
37600881 GTATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:37605245 original size:51 final size:51
Alignment explanation
Indices: 37605115--37605302 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 51
37605105 TATCATTAGA
* * * * *
37605115 TACACATAGTAGCCTTCACATAGTACTACACACGTGATCAAACT-TTTCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAATCTTCCAG
* * *
37605165 TTCACGTGGTAGCCTGCACATAGTACTACACACGTGACCAAAATCTTCCAG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAATCTTCCAG
* * ** *
37605216 TACACATAGTAGCATGCACATAGTACTACACATGTGACCATTATCTATCGA-
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAATCT-TCCAG
* *
37605267 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTG
37605303 TTTATAGGCA
Statistics
Matches: 116, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
50 38 0.33
51 75 0.65
52 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAATCTTCCAG
Found at i:37612924 original size:51 final size:51
Alignment explanation
Indices: 37612794--37612982 Score: 220
Period size: 51 Copynumber: 3.7 Consensus size: 51
37612784 ATTATCATTC
* * * *
37612794 GTACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAACTTTCCA
1 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCG
* *
37612844 GTTCACGTGGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCG
1 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCG
* * ** *
37612895 GTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CG
1 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCT-TCCG
* * * *
37612946 ATACACGTAGTAGCCTACACTTAGCACTACACACGTG
1 GTACACGTAGTAGCCTGCACATAGTACTACACACGTG
37612983 TTTATAAGCA
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 36 0.31
51 81 0.69
52 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (51 bp):
GTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCG
Found at i:37622435 original size:21 final size:18
Alignment explanation
Indices: 37622382--37622426 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
37622372 CAGTGGAATA
*
37622382 AAATAATTT-AAACAAAAC
1 AAATTATTTGAAA-AAAAC
37622400 AAATTATTTGAAAAAAAC
1 AAATTATTTGAAAAAAAC
37622418 AAATTATTT
1 AAATTATTT
37622427 TTTGAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATTATTTGAAAAAAAC
Found at i:37625297 original size:108 final size:108
Alignment explanation
Indices: 37625058--37625556 Score: 684
Period size: 108 Copynumber: 4.7 Consensus size: 108
37625048 AATTTGGCTA
* * * *
37625058 AACGTGAAATCGAAACCCAGCACCTTAGGGCATGTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
** *
37625123 TTATTTTTGAAAAGTTTTTAAAAGGAT-ATTTGGCTATTTGGTCG
66 TTA-TTTTGAAAA-TTTTTAAAAGGATAATAAGTCTATTTGGTCG
* *
37625167 AACGAGAAATCGAAACCTAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
37625232 TTATTTTGAAAATTTTTGAAAAGGATAATAAGTC-ATTTGGTGG
66 TTATTTTGAAAATTTTT-AAAAGGATAATAAGTCTATTTGGTCG
*
37625275 AACGAGAAATCCAAACCCAGTACCTTAGGGCACG-T--TC-----TCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
* * *
37625332 TTATTTTG-AAAGTTTT-AAAGGATATTTAG-CTATTTGGTCG
66 TTATTTTGAAAATTTTTAAAAGGATAATAAGTCTATTTGGTCG
* *
37625372 AACTAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
37625437 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTC-ATTTGGTCG
66 TTATTTTGAAAATTTTT-AAAAGGATAATAAGTCTATTTGGTCG
* *
37625480 AACGAGAAATCGAAACCCAGTACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTGC
37625545 CTTATTTTGAAA
65 CTTATTTTGAAA
37625557 TATATTTTTT
Statistics
Matches: 348, Mismatches: 26, Indels: 32
0.86 0.06 0.08
Matches are distributed among these distances:
96 1 0.00
97 51 0.15
98 1 0.00
99 7 0.02
100 29 0.08
105 29 0.08
106 7 0.02
107 6 0.02
108 110 0.32
109 107 0.31
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTGAAAATTTTTAAAAGGATAATAAGTCTATTTGGTCG
Found at i:37625459 original size:205 final size:210
Alignment explanation
Indices: 37625058--37625556 Score: 747
Period size: 205 Copynumber: 2.3 Consensus size: 210
37625048 AATTTGGCTA
* * * *
37625058 AACGTGAAATCGAAACCCAGCACCTTAGGGCATGTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCCAAACCCAGTACCTTAGGGCACG-TTCTC--A--TCCAAACGCAAAACATTGCC
* *
37625123 TTATTTTTGAAAAGTTTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCTAGT
61 TTA-TTTTG-AAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
37625188 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
124 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
*
37625253 AGGATAATAAGTCATTTGGTGG
189 AGGATAATAAGTCATTTGGTCG
37625275 AACGAGAAATCCAAACCCAGTACCTTAGGGCACG-T-TC-TCCAAACGCAAAACATTGCCTTATT
1 AACGAGAAATCCAAACCCAGTACCTTAGGGCACGTTCTCATCCAAACGCAAAACATTGCCTTATT
*
37625337 TTGAAAG-TTTT-AAAGGATATTTAGCTATTTGGTCGAACTAGAAATCGAAACCCAGTACCTTAG
66 TTGAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAG
*
37625400 GGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATAT
131 GGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATAA
37625465 TAAGTCATTTGGTCG
196 TAAGTCATTTGGTCG
* *
37625480 AACGAGAAATCGAAACCCAGTACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGC
1 AACGAGAAATCCAAACCCAGTACCTTAGGGCACG--TTCTC--A--TCCAAACGCAAAACATTGC
37625545 CTTATTTTGAAA
60 CTTATTTTGAAA
37625557 TATATTTTTT
Statistics
Matches: 262, Mismatches: 11, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
205 159 0.61
206 4 0.02
207 4 0.02
208 6 0.02
209 25 0.10
214 33 0.13
215 1 0.00
217 30 0.11
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (210 bp):
AACGAGAAATCCAAACCCAGTACCTTAGGGCACGTTCTCATCCAAACGCAAAACATTGCCTTATT
TTGAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAG
GGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATAA
TAAGTCATTTGGTCG
Found at i:37626318 original size:22 final size:23
Alignment explanation
Indices: 37626290--37626338 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
37626280 AGTGAAACAT
*
37626290 AAAAAATAT-GTATTTATAATAA
1 AAAAAATATAGTATATATAATAA
*
37626312 AAAAAATATAAGTATATATTATAA
1 AAAAAATAT-AGTATATATAATAA
37626336 AAA
1 AAA
37626339 TGTATTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
24 14 0.61
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAAAATATAGTATATATAATAA
Found at i:37627911 original size:44 final size:43
Alignment explanation
Indices: 37627839--37628393 Score: 301
Period size: 44 Copynumber: 12.8 Consensus size: 43
37627829 ATCTGATGTG
* * * ** *
37627839 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCC-TTACTTCA
* * *
37627883 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC-TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTA-CTTCA
* * * *
37627927 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CCTGA-TACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTACTTCA
* * * * * *
37627968 ATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCATTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATC-CTTACTTCA
* * * *
37628012 AT-TCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCA
1 ATCT-GCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTACTTCA
* * * *
37628056 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTAAC-ACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTACTTCA
* * * * *
37628097 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCC-TTACTTCA
* * * *
37628141 ATCCGCTCCACTATAATCTCAGGGAGATAGGATTAC-TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTA-CTTCA
* * *
37628185 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTAAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT----TACTTCA
* * * * * * *
37628231 GTCTGTTCCACTGTAATCTCAGGGAAATAA-AACCTGAC-ACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTACTTCA
* ** * * * *
37628272 ATCTACTCTGCTGT-AGCTTCAGAGAGATAAGATCCTTCATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTT-ACTTCA
** * * *
37628316 ATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTACTTCA
* *
37628360 ATCTGCTCCGCTGTAATCTCAGGGAGGTAAGATC
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
37628394 TGACACGATC
Statistics
Matches: 379, Mismatches: 101, Indels: 63
0.70 0.19 0.12
Matches are distributed among these distances:
40 4 0.01
41 77 0.20
42 14 0.04
43 13 0.03
44 223 0.59
45 15 0.04
46 32 0.08
47 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTACTTCA
Done.