Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 122 of 211
Found at i:34669061 original size:14 final size:13
Alignment explanation
Indices: 34669042--34669079 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
34669032 AAAAGTGAGA
34669042 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
34669054 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
34669069 GAAAAAGAAAA
1 GAAAAAGAAAA
34669080 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:34669093 original size:21 final size:21
Alignment explanation
Indices: 34669043--34669093 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
34669033 AAAGTGAGAG
*
34669043 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
34669064 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
34669085 AAAAAGAAA
1 AAAAAGAAA
34669094 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:34669133 original size:33 final size:33
Alignment explanation
Indices: 34669096--34669158 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
34669086 AAAAGAAATT
34669096 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
34669129 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
34669159 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:34670971 original size:29 final size:30
Alignment explanation
Indices: 34670927--34670999 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
34670917 AGTTTTTCCC
34670927 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
34670957 AGCTC-TTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
34670986 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
34671000 TGGCTTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 4 0.11
29 21 0.55
30 13 0.34
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.40
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:34680019 original size:14 final size:14
Alignment explanation
Indices: 34680002--34680031 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34679992 ATTTGAACTG
34680002 AACTAACCAAAATT
1 AACTAACCAAAATT
*
34680016 AACTAACTAAAATT
1 AACTAACCAAAATT
34680030 AA
1 AA
34680032 ATAATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (14 bp):
AACTAACCAAAATT
Found at i:34680105 original size:20 final size:21
Alignment explanation
Indices: 34680080--34680121 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
34680070 AATAGAAAGA
34680080 TGGAAACGAGCTC-ATTGAGC
1 TGGAAACGAGCTCAATTGAGC
*
34680100 TGGAAATGAGCTCAATTGAGC
1 TGGAAACGAGCTCAATTGAGC
34680121 T
1 T
34680122 CAACAAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (21 bp):
TGGAAACGAGCTCAATTGAGC
Found at i:34683029 original size:22 final size:24
Alignment explanation
Indices: 34682980--34683030 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
34682970 ATTAATGAAC
*
34682980 TTATAACATATTTAAAATGCTCAGA
1 TTATAACATATTTAAAA-GCTCAAA
*
34683005 TTATGACATATTT-AAA-CTCAAA
1 TTATAACATATTTAAAAGCTCAAA
34683027 TTAT
1 TTAT
34683031 TGATGTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
24 3 0.12
25 12 0.50
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (24 bp):
TTATAACATATTTAAAAGCTCAAA
Found at i:34694322 original size:23 final size:22
Alignment explanation
Indices: 34694271--34694322 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
34694261 CCTCGTCTTT
*
34694271 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
34694293 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
34694316 TTCTTTT
1 TTCTTTT
34694323 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:34698075 original size:23 final size:22
Alignment explanation
Indices: 34698023--34698075 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34698013 TCCACGTCTT
*
34698023 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
34698045 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
34698068 TTTCTTTT
1 TTTCTTTT
34698076 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:34702794 original size:9 final size:10
Alignment explanation
Indices: 34702787--34702843 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
34702777 ACGAGAAAAC
34702787 AAAGAAAAGA
1 AAAGAAAAGA
34702797 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
34702809 AAAGAAGA-A
1 AAAGAAAAGA
34702818 AAAGAAAATGA
1 AAAGAAAA-GA
34702829 AATA-AAAAGA
1 AA-AGAAAAGA
34702839 AAAGA
1 AAAGA
34702844 GAGGCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:34702811 original size:6 final size:5
Alignment explanation
Indices: 34702787--34702843 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
34702777 ACGAGAAAAC
*
34702787 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
34702834 AAAGA AAAGA
1 AAAGA AAAGA
34702844 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:34702818 original size:15 final size:14
Alignment explanation
Indices: 34702787--34702843 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
34702777 ACGAGAAAAC
34702787 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
34702803 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
34702818 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
34702834 AAAGAAAAGA
1 AAAGAAAAGA
34702844 GAGGCAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:34702968 original size:30 final size:30
Alignment explanation
Indices: 34702920--34702978 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
34702910 ACAAAAACAA
**
34702920 AATGAAAAAGAAAATGAGATTGAAAAAGAG
1 AATGAAAAAGAAAATGAGAGAGAAAAAGAG
***
34702950 AATGAAAAAGAGTTTGAGAGAGAAAAAGA
1 AATGAAAAAGAAAATGAGAGAGAAAAAGA
34702979 ATGTGAACAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.25, T:0.14
Consensus pattern (30 bp):
AATGAAAAAGAAAATGAGAGAGAAAAAGAG
Found at i:34703294 original size:14 final size:14
Alignment explanation
Indices: 34703250--34703294 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
34703240 TAGAAAGAGG
34703250 GGTACGAACGAAAT
1 GGTACGAACGAAAT
* *
34703264 GGTAGGAATGAAAT
1 GGTACGAACGAAAT
* *
34703278 GGTATGAACGAATT
1 GGTACGAACGAAAT
34703292 GGT
1 GGT
34703295 CGGTTTAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (14 bp):
GGTACGAACGAAAT
Found at i:34705627 original size:30 final size:30
Alignment explanation
Indices: 34705556--34705638 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
34705546 CTTTTGTTTC
* *
34705556 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
34705587 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
34705616 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
34705639 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:34705638 original size:18 final size:18
Alignment explanation
Indices: 34705589--34705644 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
34705579 CACTCTCAAA
* *
34705589 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
34705606 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
34705624 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
34705643 TT
1 TT
34705645 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:34705645 original size:12 final size:12
Alignment explanation
Indices: 34705614--34705638 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34705604 TTTTTCAATC
34705614 TCATTTTCTTTT
1 TCATTTTCTTTT
34705626 TCATTTTCTTTT
1 TCATTTTCTTTT
34705638 T
1 T
34705639 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:34705717 original size:5 final size:5
Alignment explanation
Indices: 34705707--34705763 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
34705697 CTCTTGCCTC
*
34705707 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
34705754 TCTTT TCTTT
1 TCTTT TCTTT
34705764 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:34705747 original size:15 final size:14
Alignment explanation
Indices: 34705707--34705763 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
34705697 CTCTTGCCTC
*
34705707 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
34705722 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
34705737 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
34705754 TCTTTTCTTT
1 TCTTTTCTTT
34705764 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:34705764 original size:21 final size:21
Alignment explanation
Indices: 34705707--34705774 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
34705697 CTCTTGCCTC
* *
34705707 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
34705728 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
34705749 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
34705769 CTCTTT
1 -TCTTT
34705775 ACAAGATGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:34712610 original size:21 final size:20
Alignment explanation
Indices: 34712575--34712642 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
34712565 ACATTCTTGT
* *
34712575 AAAGAGAAAATAAAAATAAGA
1 AAAGA-AAAAGAAAAAAAAGA
* *
34712596 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGAAAAAAAAG-A
*
34712617 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGAAA-AAAAAGA
34712638 AAAGA
1 AAAGA
34712643 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 11 0.28
21 23 0.59
22 5 0.13
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAAAAGA
Found at i:34712615 original size:15 final size:14
Alignment explanation
Indices: 34712597--34712642 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
34712587 AAAATAAGAA
34712597 AAGAAAAAGCAAAAG
1 AAGAAAAAG-AAAAG
34712612 AAGAAAAAGAAAACG
1 AAGAAAAAGAAAA-G
*
34712627 AAATAAAAAGAAAAG
1 -AAGAAAAAGAAAAG
34712642 A
1 A
34712643 GAGGCAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 12 0.43
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.02
Consensus pattern (14 bp):
AAGAAAAAGAAAAG
Found at i:34712719 original size:12 final size:12
Alignment explanation
Indices: 34712711--34712735 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34712701 TTTGAAAAGT
34712711 AAAAAGAAAATG
1 AAAAAGAAAATG
34712723 AAAAAGAAAATG
1 AAAAAGAAAATG
34712735 A
1 A
34712736 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:34712732 original size:18 final size:18
Alignment explanation
Indices: 34712705--34712760 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
34712695 AAAGCCTTTG
34712705 AAAAGTAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
34712724 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
34712742 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
34712759 AA
1 AA
34712761 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:34712745 original size:30 final size:31
Alignment explanation
Indices: 34712711--34712792 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
34712701 TTTGAAAAGT
*
34712711 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
34712741 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
34712771 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
34712793 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:34715044 original size:13 final size:13
Alignment explanation
Indices: 34715019--34715105 Score: 72
Period size: 13 Copynumber: 6.5 Consensus size: 13
34715009 TTGGAGTAAC
34715019 AAAAAAA-TC-AA
1 AAAAAAATTCGAA
34715030 AAAAAAATTCGAA
1 AAAAAAATTCGAA
*
34715043 AAAAAAATTTGATTGA
1 AAAAAAATTCGA---A
*
34715059 AAAAAAATTCAAA
1 AAAAAAATTCGAA
*
34715072 AAAAAAAGT-GAA
1 AAAAAAATTCGAA
*
34715084 AAAAAAAATCGAGCA
1 AAAAAAATTCGA--A
34715099 AAAAAAA
1 AAAAAAA
34715106 GAAAAGAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
11 7 0.11
12 12 0.19
13 24 0.39
15 8 0.13
16 11 0.18
ACGTcount: A:0.72, C:0.06, G:0.08, T:0.14
Consensus pattern (13 bp):
AAAAAAATTCGAA
Found at i:34715104 original size:31 final size:30
Alignment explanation
Indices: 34715068--34715136 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
34715058 AAAAAAAATT
**
34715068 CAAAAAAAA-AAGTGAAAAAAAAAA-TCGAG
1 CAAAAAAAAGAAAAGAAAAAAAAAAGT-GAG
34715097 CAAAAAAAAGAAAAGAAAAAAAAAAGGTGAG
1 CAAAAAAAAGAAAAGAAAAAAAAAA-GTGAG
34715128 CAAAAAAAA
1 CAAAAAAAA
34715137 TCAAGTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 9 0.26
30 13 0.37
31 12 0.34
32 1 0.03
ACGTcount: A:0.75, C:0.06, G:0.14, T:0.04
Consensus pattern (30 bp):
CAAAAAAAAGAAAAGAAAAAAAAAAGTGAG
Found at i:34722521 original size:30 final size:30
Alignment explanation
Indices: 34722487--34722583 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
34722477 AGCTCACTCC
34722487 TAGCTCATA-TTCAGCTCATGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCATGAGCTAAACCT
* * * * * *
34722517 TAGCTCAACTTCAACTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCATGAGCTAAACCT
* * *
34722547 CAGCTCAACTTTAGCTCATGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCATGAGCTAAACCT
34722577 TAGCTCA
1 TAGCTCA
34722584 TGAGCTAAAG
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCATGAGCTAAACCT
Found at i:34722579 original size:19 final size:19
Alignment explanation
Indices: 34722557--34722603 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
34722547 CAGCTCAACT
34722557 TTAGCTCATGAGCTAAAGC
1 TTAGCTCATGAGCTAAAGC
34722576 TTAGCTCATGAGCTAAAGC
1 TTAGCTCATGAGCTAAAGC
34722595 TTAGCTCAT
1 TTAGCTCAT
34722604 ATTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (19 bp):
TTAGCTCATGAGCTAAAGC
Found at i:34727145 original size:30 final size:30
Alignment explanation
Indices: 34727111--34727213 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 30
34727101 AGCTCACTCC
*
34727111 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTTAGCTCACGAGCTAAACCT
* * * * *
34727141 TAGCTCAGT-TTTAGCTTAGGAGTTTAATCT
1 TAGCTCA-TATTTAGCTCACGAGCTAAACCT
* *
34727171 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
34727201 TAGCTCAT-TTTAG
1 TAGCTCATATTTAG
34727214 TTTAACTCAA
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
29 5 0.09
30 50 0.89
31 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (30 bp):
TAGCTCATATTTAGCTCACGAGCTAAACCT
Found at i:34729517 original size:30 final size:30
Alignment explanation
Indices: 34729422--34729518 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
34729412 AGATCACTCC
* *
34729422 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * * **
34729452 TTGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
34729482 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
34729512 TAGCTCA
1 TAGCTCA
34729519 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 39 0.81
31 7 0.15
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:34730662 original size:20 final size:20
Alignment explanation
Indices: 34730639--34730704 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
34730629 AGCTCCGTCC
34730639 AGCTCAACTCAGCTTATTTG
1 AGCTCAACTCAGCTTATTTG
*** *
34730659 AGCTCGTTTCAGCTTGTTTG
1 AGCTCAACTCAGCTTATTTG
*
34730679 AGCTCAAC-CGAGCTTACTTTC
1 AGCTCAACTC-AGCTTA-TTTG
34730700 AGCTC
1 AGCTC
34730705 CTTCTTTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
19 1 0.03
20 26 0.74
21 8 0.23
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (20 bp):
AGCTCAACTCAGCTTATTTG
Found at i:34732113 original size:45 final size:45
Alignment explanation
Indices: 34732049--34732140 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
34732039 ACAATCAAAA
34732049 GATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTG
1 GATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTG
34732094 GATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTG
1 GATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTG
34732139 GA
1 GA
34732141 GAAAACCCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (45 bp):
GATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTG
Found at i:34734092 original size:12 final size:12
Alignment explanation
Indices: 34734075--34734106 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
34734065 AGTTTTATTT
34734075 TTATTTATTTAC
1 TTATTTATTTAC
34734087 TTATTTATTTAC
1 TTATTTATTTAC
34734099 TTAGTTTA
1 TTA-TTTA
34734107 AATTTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (12 bp):
TTATTTATTTAC
Found at i:34750453 original size:27 final size:27
Alignment explanation
Indices: 34750423--34750599 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
34750413 ATATTGAGTC
* * * *
34750423 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34750450 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
34750477 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
34750504 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34750531 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34750558 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34750585 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34750600 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 128 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34750561 original size:81 final size:81
Alignment explanation
Indices: 34750444--34750598 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
34750434 TGCTATATAA
* * *
34750444 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
34750509 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
34750525 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34750589 CACTTAGTGC
65 CACTTAGTGC
34750599 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34753208 original size:17 final size:15
Alignment explanation
Indices: 34753168--34753209 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
34753158 CTCACAAGAC
34753168 TTTTCACTTCTTTTT
1 TTTTCACTTCTTTTT
34753183 TTTAT-ACTTCGATTTTT
1 TTT-TCACTTC--TTTTT
34753200 TTTTCACTTC
1 TTTTCACTTC
34753210 AAATACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 13 0.57
ACGTcount: A:0.12, C:0.19, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTCACTTCTTTTT
Found at i:34753281 original size:11 final size:11
Alignment explanation
Indices: 34753265--34753349 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
34753255 CCTCTTCTCT
34753265 TTTTTTTTCAA
1 TTTTTTTTCAA
34753276 TTTTTTTTTCAA
1 -TTTTTTTTCAA
34753288 -TTTTTTT--A
1 TTTTTTTTCAA
* * **
34753296 -TTTCTCTCTT
1 TTTTTTTTCAA
34753306 TTTTTTTGCTCAA
1 TTTTTTT--TCAA
*
34753319 TTTTTTTTGAA
1 TTTTTTTTCAA
*
34753330 TTTTTTTTCGA
1 TTTTTTTTCAA
34753341 TTTTATTTT
1 TTTT-TTTT
34753350 TTTTAATCTA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
8 6 0.11
10 7 0.12
11 20 0.35
12 15 0.26
13 9 0.16
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:34753281 original size:12 final size:12
Alignment explanation
Indices: 34753264--34753294 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
34753254 TCCTCTTCTC
34753264 TTTTTTTTTCAA
1 TTTTTTTTTCAA
34753276 TTTTTTTTTCAA
1 TTTTTTTTTCAA
34753288 TTTTTTT
1 TTTTTTT
34753295 ATTTCTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:34754864 original size:20 final size:20
Alignment explanation
Indices: 34754841--34754887 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
34754831 GGATTAAGAT
*
34754841 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
34754861 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
34754881 TGAGCTG
1 TGAGCTG
34754888 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:34755414 original size:18 final size:19
Alignment explanation
Indices: 34755391--34755429 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34755381 GAACAAAAAG
* *
34755391 AAAAGA-TGGGAAAAGAAA
1 AAAAGAGTGAGAAAACAAA
34755409 AAAAGAGTGAGAAAACAAA
1 AAAAGAGTGAGAAAACAAA
34755428 AA
1 AA
34755430 GAAAAAGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (19 bp):
AAAAGAGTGAGAAAACAAA
Found at i:34758854 original size:15 final size:16
Alignment explanation
Indices: 34758815--34758855 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
34758805 AACAACACTC
34758815 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
34758831 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
34758845 CTTTCTTTTTC
1 CTTTCTTTTTC
34758856 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:34759050 original size:17 final size:15
Alignment explanation
Indices: 34759013--34759051 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
34759003 TATCTCCCAC
34759013 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
34759029 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
34759046 TCATTT
1 TCATTT
34759052 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:34759992 original size:26 final size:28
Alignment explanation
Indices: 34759951--34760017 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 28
34759941 TTTCAATCAC
*
34759951 TCTTTTTTTTTCAATTTTG-ATTTTTTT
1 TCTTTTTTTTTCAATTTCGAATTTTTTT
34759978 TCTTTTTTTTT-AATTTCGAATTTTTTT
1 TCTTTTTTTTTCAATTTCGAATTTTTTT
34760005 TCTTCTTTATTTT
1 TCTT-TTT-TTTT
34760018 TCTTCAATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 6 0.17
27 23 0.64
28 3 0.08
29 4 0.11
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (28 bp):
TCTTTTTTTTTCAATTTCGAATTTTTTT
Found at i:34760081 original size:13 final size:13
Alignment explanation
Indices: 34760063--34760120 Score: 98
Period size: 13 Copynumber: 4.5 Consensus size: 13
34760053 GAATACAAAC
34760063 TTTTTTTTGAATT
1 TTTTTTTTGAATT
34760076 TTTTTTTTGAATT
1 TTTTTTTTGAATT
* *
34760089 TTTTTTTTCAAAT
1 TTTTTTTTGAATT
34760102 TTTTTTTTGAATT
1 TTTTTTTTGAATT
34760115 TTTTTT
1 TTTTTT
34760121 ACAATACCGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTTTTTTGAATT
Found at i:34774327 original size:10 final size:11
Alignment explanation
Indices: 34774309--34774351 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
34774299 TACAATTTTT
34774309 TTTTCTTTTCAA
1 TTTT-TTTTCAA
*
34774321 TTTTTTTTTTAA
1 -TTTTTTTTCAA
34774333 TTTTTTTTCAA
1 TTTTTTTTCAA
34774344 TTTTTTTT
1 TTTTTTTT
34774352 TCAGAAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 18 0.64
12 6 0.21
13 4 0.14
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:34774329 original size:12 final size:12
Alignment explanation
Indices: 34774308--34774354 Score: 69
Period size: 12 Copynumber: 3.9 Consensus size: 12
34774298 ATACAATTTT
34774308 TTTTTCTTTTCAA
1 TTTTT-TTTTCAA
*
34774321 TTTTTTTTTTAA
1 TTTTTTTTTCAA
34774333 -TTTTTTTTCAA
1 TTTTTTTTTCAA
34774344 TTTTTTTTTCA
1 TTTTTTTTTCA
34774355 GAAATCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
11 10 0.32
12 16 0.52
13 5 0.16
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:34776663 original size:21 final size:21
Alignment explanation
Indices: 34776625--34776664 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34776615 TAAGTGATAA
* * *
34776625 AAAAAGAGAACGATACAAAGG
1 AAAAAGAAAAAGAGACAAAGG
34776646 AAAAAGAAAAAGAGACAAA
1 AAAAAGAAAAAGAGACAAA
34776665 AGATGAGAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAAAGAAAAAGAGACAAAGG
Found at i:34779294 original size:23 final size:22
Alignment explanation
Indices: 34779242--34779294 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34779232 TCCACGTCTT
*
34779242 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
34779264 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
34779287 TTTCTTTT
1 TTTCTTTT
34779295 TCACTCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:34780602 original size:17 final size:18
Alignment explanation
Indices: 34780576--34780617 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
34780566 TTTTATTAAA
*
34780576 TTTTTATTGAA-TTTCGTC
1 TTTTT-TTGAAGTTTCGAC
*
34780594 TTTTTTTGAAGTTTTGAC
1 TTTTTTTGAAGTTTCGAC
34780612 TTTTTT
1 TTTTTT
34780618 GACTGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (18 bp):
TTTTTTTGAAGTTTCGAC
Found at i:34789648 original size:88 final size:88
Alignment explanation
Indices: 34789452--34790610 Score: 1334
Period size: 88 Copynumber: 13.2 Consensus size: 88
34789442 AACAGATCAG
* * * *
34789452 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACA-AAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
34789516 TCCTCGATTGTAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * ** * * *
34789539 T-AAAGATAACAAATATTGCCTTTTTGCATTC-ACAGCGAAGCAGATCGAAGATACTAGCCTAGC
1 TGAAA-ATAGCAGATCTTGCCTTCCTGCA-TCGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* * *
34789602 CACCGTGGGTTGCAGCGGAACAGGT
64 CTCCCTGGGTTGCAGCGGAGCAGGT
* * *
34789627 TGAAAATAGTAGATCTTGCCTTTCGGCA-CTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* * *
34789691 TCCCTAGATTGCAGTGGAGCAGGT
65 TCCCTGGGTTGCAGCGGAGCAGGT
* ** * *
34789715 T-AAAGATAGCAGATCTTGCCTTCCTGTA-CTGACAGTTAAGAAGATCGAAGACACCAGACTTGC
1 TGAAA-ATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* *
34789778 CTCCCTGGGTTACAGCGGAGTAGGT
64 CTCCCTGGGTTGCAGCGGAGCAGGT
* * *
34789803 TGAAAATAGCAGATCTTGCCTTCCTGCACCGACGGCGAAGCAGATCGAAGACACCAACCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
34789868 CCCTGGATTGCAGTGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * ** * *
34789891 TGAAGATAGCAGATCTTGCCTTCCTGTA-CTAACAGTTAAGTAGATCGAAGACACCAGACTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* ** *
34789955 TCCCTAGGTTGCAGTAGAGTAGGT
65 TCCCTGGGTTGCAGCGGAGCAGGT
34789979 TGAAAATAGCAGATCTTGCCTTCCTGCAAT-GACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGC-ATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* *
34790043 TCCCTGGGTTGTAGCAGAGCAGGT
65 TCCCTGGGTTGCAGCGGAGCAGGT
* *
34790067 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCTGATCAAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
34790132 TCCTAGGCTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * *
34790155 TGAAAATAGCAGATCTTGCTTTCCTGCACCGACAACAAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
34790220 CCCTGGATTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
34790243 TGAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACA-CAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
34790307 CCCTGGGTTGCAGCGGAACAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
34790330 TGAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTAT-CC
1 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCT-TGCC
*
34790394 TCCTTGGGTTGCAGCGGAGCAGGT
65 TCCCTGGGTTGCAGCGGAGCAGGT
* * * * * * * *
34790418 TTAAAATAGTAGATTTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACGCTAGCCTTGCTT
1 TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
34790483 CCCTGGATTGCAGTGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * ** * * *
34790506 TGAAGATAGCAGATCTTTCCTTCCTGTAGT-GATAGTTAAGTAGATCGAATACCCCAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGCA-TCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* * * *
34790570 TCCTTCGGTTACAGTGGAGCAGGT
65 TCCCTGGGTTGCAGCGGAGCAGGT
*
34790594 TAAAAATTA-CAGATCTT
1 TGAAAA-TAGCAGATCTT
34790611 ATCTCCCTAA
Statistics
Matches: 919, Mismatches: 135, Indels: 35
0.84 0.12 0.03
Matches are distributed among these distances:
86 3 0.00
87 131 0.14
88 774 0.84
89 11 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:34789733 original size:44 final size:43
Alignment explanation
Indices: 34789685--34790355 Score: 179
Period size: 44 Copynumber: 15.3 Consensus size: 43
34789675 AGACACCAGC
*
34789685 CTTGCCTCCCTAGATTGCAGTGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCT-GATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * ** * * * * *
34789729 CTTGCCTTCCTGTACTGACAGTTAAGAAGATCGAAGACACCAGA-
1 CTTGCCTCCCTG-ATTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * *
34789773 CTTGCCTCCCTGGGTTACAGCGGAGTAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCT-GATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* ** * * * * * * * *
34789817 CTTGCCTTCCTGCACCGACGGCGAAGCAGATCGAAGACACCA-AC
1 CTTGCCTCCCTG-ATTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
34789861 CTTGCCTCCCTGGATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCT-GATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* ** ** * * * * *
34789905 CTTGCCTTCCTGTACTAACAGTTAAGTAGATCGAAGACACCAGA-
1 CTTGCCTCCCTG-A-TTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * * *
34789949 CTTGCCTCCCTAGGTTGCAGTAGAGTAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCT-GATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * *
34789993 CTTGCCTTCCTGCAATGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTG-ATTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* * ** *
34790037 CTTGCCTCCCTGGGTTGTAGCAGAGCAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCT-GATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * ** * * *
34790081 CTTGCCTTCCTGCATCGACAGCGAAGCTGATCAAAGACACCAG-C
1 CTTGCCTCCCTG-ATTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* ** * *
34790125 CTTGCCTTCCTAGGCTGCAGCGGAGCAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCT-GATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * ** **** * * * * *
34790169 CTTGCTTTCCTGCACCGACAACAAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTG-ATTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* * *
34790213 CTTGCCTCCCTGGATTGCAGCGGAGCAGGTTGAAAATAGTAGAT
1 CTTGCCTCCCT-GATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* ** * * * * * *
34790257 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACA-CAG-C
1 CTTGCCTCCCTG-ATTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * *
34790300 CTTGCCTCCCTGGGTTGCAGCGGAACAGGTTGAAAATAGTAGAT
1 CTTGCCTCCCT-GATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
*
34790344 CTTGCCTTCCTG
1 CTTGCCTCCCTG
34790356 CACCGACAGC
Statistics
Matches: 429, Mismatches: 169, Indels: 59
0.65 0.26 0.09
Matches are distributed among these distances:
42 15 0.03
43 125 0.29
44 165 0.38
45 124 0.29
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (43 bp):
CTTGCCTCCCTGATTGCAGTGGAGCAGGTTGAAGATAGCAGAT
Found at i:34790741 original size:44 final size:44
Alignment explanation
Indices: 34790693--34790907 Score: 306
Period size: 44 Copynumber: 4.9 Consensus size: 44
34790683 TTAAGCCACT
*
34790693 AGTCCTATCTCCCTGGACAGTAGTGGTATAGGTTAAAGATCGTA
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCGTA
* * *
34790737 AGTCCTATCTCCCTGGACAGTAGTGAAATAGGTTAACGATCTTA
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCGTA
*
34790781 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTT-AAGATCATA
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCGTA
* * * *
34790824 AGTCCTATCTCCCTGGATAGTAGTGGAATAGGTTGATGATTGTA
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCGTA
* ** *
34790868 AGTCCTATCTCCCTAGACAACAGTGGAATAGGTTGAAGAT
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGAT
34790908 TACAGATCAT
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 40 0.26
44 114 0.74
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCGTA
Found at i:34790746 original size:88 final size:88
Alignment explanation
Indices: 34790654--34790907 Score: 236
Period size: 87 Copynumber: 2.9 Consensus size: 88
34790644 CGGCGAATCT
* *
34790654 TATCTTCCACAGG-TAGTAGGGAAGCAGGTTTAAGCCA-C-T-AGTCCTATCTCCCTGGACAGTA
1 TATCTTCC-CAGGACAGTAGGGAAACAGG-TTAA-CCATCTTAAGTCCTATCTCCCTGGACAGTA
* *
34790715 GTGGTATAGGTTAAAGATCGTAAGTCC
63 GTGGAATAGGTT-AAGATCATAAGTCC
* * * *
34790742 TATC-TCCCTGGACAGTAGTGAAATAGGTTAACGATCTTAAGTCCTATCTCCCTGGACAGTAGTG
1 TATCTTCCCAGGACAGTAGGGAAACAGGTTAACCATCTTAAGTCCTATCTCCCTGGACAGTAGTG
34790806 GAATAGGTTAAGATCATAAGTCC
66 GAATAGGTTAAGATCATAAGTCC
* * * * ** * **
34790829 TATC-TCCCTGGATAGTAGTGG-AATAGGTTGATGAT-TGTAAGTCCTATCTCCCTAGACAACAG
1 TATCTTCCCAGGACAGTAG-GGAAACAGGTTAACCATCT-TAAGTCCTATCTCCCTGGACAGTAG
34790891 TGGAATAGGTTGAAGAT
64 TGGAATAGGTT-AAGAT
34790908 TACAGATCAT
Statistics
Matches: 144, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
85 2 0.01
86 9 0.06
87 90 0.62
88 43 0.30
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (88 bp):
TATCTTCCCAGGACAGTAGGGAAACAGGTTAACCATCTTAAGTCCTATCTCCCTGGACAGTAGTG
GAATAGGTTAAGATCATAAGTCC
Found at i:34790837 original size:87 final size:88
Alignment explanation
Indices: 34790693--34790907 Score: 317
Period size: 87 Copynumber: 2.5 Consensus size: 88
34790683 TTAAGCCACT
* *
34790693 AGTCCTATCTCCCTGGACAGTAGTGGTATAGGTTAAAGATCGTAAGTCCTATCTCCCTGGACAGT
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCATAAGTCCTATCTCCCTGGACAGT
34790758 AGTGAAATAGGTTAACGATCT-TA
66 AGTGAAATAGGTTAACGAT-TGTA
*
34790781 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTT-AAGATCATAAGTCCTATCTCCCTGGATAGT
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCATAAGTCCTATCTCCCTGGACAGT
* * *
34790845 AGTGGAATAGGTTGATGATTGTA
66 AGTGAAATAGGTTAACGATTGTA
* ** *
34790868 AGTCCTATCTCCCTAGACAACAGTGGAATAGGTTGAAGAT
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGAT
34790908 TACAGATCAT
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
86 1 0.01
87 77 0.66
88 38 0.33
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (88 bp):
AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCATAAGTCCTATCTCCCTGGACAGT
AGTGAAATAGGTTAACGATTGTA
Found at i:34790933 original size:131 final size:130
Alignment explanation
Indices: 34790693--34790934 Score: 310
Period size: 131 Copynumber: 1.8 Consensus size: 130
34790683 TTAAGCCACT
* * **
34790693 AGTCCTATCTCCCTGGACAGTAGTGGTATAGGTTAAAGATCGTAAGTCCTATCTCCCTGGACAGT
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCGTAAGTCCTATCTCCCTAGACAAC
* *
34790758 AGTGAAATAGGTTAACGATCTTAAGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAGATCAT
66 AGTGAAATAGGTTAACGA-CTTAAGTCATATCTCCCTAGACAGTAGTGGAATAGGTTAAGATCAT
34790823 A
130 A
* * * *
34790824 AGTCCTATCTCCCTGGATAGTAGTGGAATAGGTTGATGATTGTAAGTCCTATCTCCCTAGACAAC
1 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCGTAAGTCCTATCTCCCTAGACAAC
* *
34790889 AGTGGAATAGGTTGAA-GA-TTACAGATCATGTCTCCCTA-AGCAGTAG
66 AGTGAAATAGGTT-AACGACTTA-AG-TCATATCTCCCTAGA-CAGTAG
34790935 CAGAGCAGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
129 3 0.03
130 3 0.03
131 87 0.92
132 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (130 bp):
AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATCGTAAGTCCTATCTCCCTAGACAAC
AGTGAAATAGGTTAACGACTTAAGTCATATCTCCCTAGACAGTAGTGGAATAGGTTAAGATCATA
Found at i:34791617 original size:19 final size:19
Alignment explanation
Indices: 34791577--34791620 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
34791567 AAAAAAAAAC
*
34791577 AAATAAAATTAAAAATTAA
1 AAATAAAATTAAAAATCAA
34791596 AAAT-AAATTAAAAAGTCCAA
1 AAATAAAATTAAAAA-T-CAA
34791616 AAATA
1 AAATA
34791621 CATAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 6 0.29
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
AAATAAAATTAAAAATCAA
Found at i:34791699 original size:16 final size:16
Alignment explanation
Indices: 34791675--34791714 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
34791665 AACTCGGTTA
34791675 TAACCCAAACCCAAT-
1 TAACCCAAACCCAATC
*
34791690 TAAGCCCAAACCTAATC
1 TAA-CCCAAACCCAATC
34791707 TAACCCAA
1 TAACCCAA
34791715 CACGATTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.45, C:0.38, G:0.03, T:0.15
Consensus pattern (16 bp):
TAACCCAAACCCAATC
Found at i:34792075 original size:15 final size:16
Alignment explanation
Indices: 34792046--34792078 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34792036 CAAAGATTTT
*
34792046 AAAAAGAAAATACAAA
1 AAAAACAAAATACAAA
34792062 AAAAACAAAA-ACAAA
1 AAAAACAAAATACAAA
34792077 AA
1 AA
34792079 GGTGATTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAACAAAATACAAA
Found at i:34792775 original size:12 final size:12
Alignment explanation
Indices: 34792758--34792833 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
34792748 ATTTTAATGT
*
34792758 TTTTTATTTTTA
1 TTTTTATTATTA
34792770 TTTTTATTATTA
1 TTTTTATTATTA
**
34792782 TTGCTATTATTA
1 TTTTTATTATTA
* *
34792794 TTTTTTATCACTA
1 -TTTTTATTATTA
*
34792807 TTTATTATTCTTA
1 TTT-TTATTATTA
* *
34792820 TTATTCTTATTA
1 TTTTTATTATTA
34792832 TT
1 TT
34792834 ATATTTGATT
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
12 33 0.67
13 16 0.33
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.70
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:34792781 original size:3 final size:3
Alignment explanation
Indices: 34792761--34792835 Score: 55
Period size: 3 Copynumber: 25.3 Consensus size: 3
34792751 TTAATGTTTT
* * * * * *
34792761 TTA TTT TTA TTT TTA TTA TTA TTG CTA TTA TTA TT- TT- TTA TCA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
34792807 TTTA TTA TTC TTA TTA TTC TTA TTA TTA T
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34792836 ATTTGATTAT
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
2 4 0.07
3 48 0.89
4 2 0.04
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34796817 original size:33 final size:34
Alignment explanation
Indices: 34796766--34796840 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
34796756 AAATTTAAAC
34796766 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
* *
34796800 AAATTAATT-CTAACACTTATTTGAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
34796833 AATTTAAT
1 AAATTAAT
34796841 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:34797699 original size:10 final size:10
Alignment explanation
Indices: 34797684--34797734 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
34797674 TTGGGTTAAG
34797684 ATTGAGCTGA
1 ATTGAGCTGA
34797694 ATTGAGCTCGA
1 ATTGAGCT-GA
34797705 A-TGAGCTGA
1 ATTGAGCTGA
*
34797714 CTTGAGCTCG-
1 ATTGAGCT-GA
*
34797724 AGTGAGCTGA
1 ATTGAGCTGA
34797734 A
1 A
34797735 CTAAGTTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
9 3 0.09
10 27 0.79
11 4 0.12
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:34797709 original size:20 final size:20
Alignment explanation
Indices: 34797686--34797734 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
34797676 GGGTTAAGAT
34797686 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
* *
34797706 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
34797726 TGAGCTGAA
1 TGAGCTGAA
34797735 CTAAGTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:34802792 original size:23 final size:22
Alignment explanation
Indices: 34802740--34802792 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34802730 TCCACGTCTT
*
34802740 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
34802762 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
34802785 TTTCTTTT
1 TTTCTTTT
34802793 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:34804723 original size:40 final size:40
Alignment explanation
Indices: 34804630--34804852 Score: 224
Period size: 39 Copynumber: 5.7 Consensus size: 40
34804620 GCTCCTCGTT
* * * *
34804630 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
34804670 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
34804709 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
34804749 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
34804788 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34804829 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34804853 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 76 0.48
40 71 0.45
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34804813 original size:79 final size:79
Alignment explanation
Indices: 34804630--34804853 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 79
34804620 GCTCCTCGTT
* * *
34804630 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
*
34804695 TTTAATAACTCGCA
66 CTTAATAACTCGCA
* * * *
34804709 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG
* *
34804773 AACTT-GTATCTCGCA
65 -ACTTAATAACTCGCA
* * * * * * *
34804788 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTC-GGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACTTAACCCG
34804851 GAC
64 GAC
34804854 AGCATTCAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
78 7 0.06
79 95 0.80
80 17 0.14
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
CTTAATAACTCGCA
Found at i:34804861 original size:40 final size:41
Alignment explanation
Indices: 34804785--34804861 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
34804775 CTTGTATCTC
* * *
34804785 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34804826 GCACAAA-GCCTTCGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACA-CATTCA
34804862 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 11 0.34
40 14 0.44
41 7 0.22
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34810803 original size:20 final size:19
Alignment explanation
Indices: 34810760--34810817 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
34810750 AGCTGATTTT
** *
34810760 AGCTCAATTTCAGCTCCCTT
1 AGCTC-ATTTCAGCTCAATC
34810780 AGCTCATTTCAGCTGCAATC
1 AGCTCATTTCAGCT-CAATC
*
34810800 AGCTCATTTGAGCTCAAT
1 AGCTCATTTCAGCTCAAT
34810818 TTTGACCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (19 bp):
AGCTCATTTCAGCTCAATC
Found at i:34818540 original size:19 final size:20
Alignment explanation
Indices: 34818508--34818545 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
34818498 CAAGCTGATT
34818508 TTAGCTCAATTTCAGCTCCC
1 TTAGCTCAATTTCAGCTCCC
34818528 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAGCTCC
34818546 AATCAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGCTCAATTTCAGCTCCC
Found at i:34821178 original size:13 final size:13
Alignment explanation
Indices: 34821160--34821203 Score: 74
Period size: 12 Copynumber: 3.5 Consensus size: 13
34821150 ACGAGATTGT
34821160 AAAAAAAA-TCGA
1 AAAAAAAATTCGA
34821172 AAAAAAAATTCGA
1 AAAAAAAATTCGA
34821185 AAAAAAAATTC-A
1 AAAAAAAATTCGA
34821197 AAAAAAA
1 AAAAAAA
34821204 GTTTGTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 16 0.52
13 15 0.48
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:34823320 original size:15 final size:14
Alignment explanation
Indices: 34823284--34823338 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
34823274 TCTATTGAGC
34823284 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
34823298 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
34823312 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
34823327 GAAAGAAAAGAA
1 GAGA-AAAAGAA
34823339 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:34834230 original size:33 final size:34
Alignment explanation
Indices: 34834193--34834261 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
34834183 TGATCGAGCC
* *
34834193 AGGTAATACCGAACTTTGTTTCCCTGCT-CTAAA
1 AGGTAAAACCGAACTTTATTTCCCTGCTCCTAAA
* * *
34834226 AGGTAAAACTGAACTTTATTTTCTTGCTCCTAAA
1 AGGTAAAACCGAACTTTATTTCCCTGCTCCTAAA
34834260 AG
1 AG
34834262 TAAGCCTCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (34 bp):
AGGTAAAACCGAACTTTATTTCCCTGCTCCTAAA
Found at i:34836409 original size:22 final size:23
Alignment explanation
Indices: 34836384--34836432 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
34836374 ATCAGCTTCT
34836384 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
34836406 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
34836428 TTAAT
1 TTAAT
34836433 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:34838619 original size:22 final size:22
Alignment explanation
Indices: 34838589--34838632 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
34838579 TTTGGTATTT
34838589 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
34838611 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
34838633 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:34842925 original size:17 final size:18
Alignment explanation
Indices: 34842904--34842943 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34842894 TCATTCTCTT
34842904 TTTTTGAATTTTCTTTTC
1 TTTTTGAATTTTCTTTTC
* *
34842922 TTTTTCATTTTTCTTTTC
1 TTTTTGAATTTTCTTTTC
34842940 TTTT
1 TTTT
34842944 GTATTTTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTGAATTTTCTTTTC
Found at i:34842933 original size:18 final size:18
Alignment explanation
Indices: 34842912--34842966 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
34842902 TTTTTTTGAA
34842912 TTTTCTTTTCTTTTTCAT
1 TTTTCTTTTCTTTTTCAT
34842930 TTTTCTTTTCTTTTGT-AT
1 TTTTCTTTTCTTTT-TCAT
34842948 TTTCACTCTTTTCTTTTTC
1 TTT---TCTTTTCTTTTTC
34842967 TCTCATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 19 0.59
19 1 0.03
20 1 0.03
21 11 0.34
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTCTTTTCTTTTTCAT
Found at i:34842950 original size:17 final size:17
Alignment explanation
Indices: 34842905--34842951 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
34842895 CATTCTCTTT
*
34842905 TTTTGAATTTTCTTTTC
1 TTTTGTATTTTCTTTTC
34842922 TTTT-TCATTTTTCTTTTC
1 TTTTGT-A-TTTTCTTTTC
34842940 TTTTGTATTTTC
1 TTTTGTATTTTC
34842952 ACTCTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.38
18 15 0.58
19 1 0.04
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTGTATTTTCTTTTC
Found at i:34845213 original size:12 final size:12
Alignment explanation
Indices: 34845196--34845234 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
34845186 AAACCGTATG
34845196 CAATTTTTTTTT
1 CAATTTTTTTTT
34845208 CAATTTTTTTTT
1 CAATTTTTTTTT
34845220 CGAACTCTTTTTTTT
1 C-AA-T-TTTTTTTT
34845235 ACGTACCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 13 0.54
13 2 0.08
14 1 0.04
15 8 0.33
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:34845564 original size:22 final size:22
Alignment explanation
Indices: 34845534--34845577 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
34845524 TTTGGTATTT
34845534 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
34845556 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
34845578 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:34853286 original size:18 final size:18
Alignment explanation
Indices: 34853265--34853300 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
34853255 TTTCTTTTGA
34853265 ATCACTC-TCTCTTTTTTT
1 ATCACTCATCT-TTTTTTT
34853283 ATCACTCATCTTTTTTTT
1 ATCACTCATCTTTTTTTT
34853301 TTCTTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.61
Consensus pattern (18 bp):
ATCACTCATCTTTTTTTT
Found at i:34866778 original size:11 final size:11
Alignment explanation
Indices: 34866762--34866804 Score: 86
Period size: 11 Copynumber: 3.9 Consensus size: 11
34866752 GGAAATTTGA
34866762 AAAAAAAATTC
1 AAAAAAAATTC
34866773 AAAAAAAATTC
1 AAAAAAAATTC
34866784 AAAAAAAATTC
1 AAAAAAAATTC
34866795 AAAAAAAATT
1 AAAAAAAATT
34866805 TTTTTGAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:34867788 original size:18 final size:18
Alignment explanation
Indices: 34867732--34867791 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
34867722 AGTGCGAGCG
34867732 AGAAAAAGAAATCAAAAGAAA
1 AGAAAAAGAAATC--AA-AAA
* **
34867753 AGAAAAAGAGATTGAAAA
1 AGAAAAAGAAATCAAAAA
34867771 AGAAAAAGAAATCAAAAA
1 AGAAAAAGAAATCAAAAA
34867789 AGA
1 AGA
34867792 GAGTGAGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 21 0.64
19 1 0.03
21 11 0.33
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAATCAAAAA
Found at i:34881520 original size:18 final size:19
Alignment explanation
Indices: 34881497--34881532 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34881487 TGAAGGCGAG
34881497 GCCCAAT-AACAAATTCCA
1 GCCCAATCAACAAATTCCA
*
34881515 GCCCAATCAAGAAATTCC
1 GCCCAATCAACAAATTCC
34881533 TTCATACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (19 bp):
GCCCAATCAACAAATTCCA
Found at i:34884787 original size:12 final size:12
Alignment explanation
Indices: 34884762--34884807 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
34884752 ATTGAGAGTG
*
34884762 AAAAGGAATGTGA
1 AAAAGAAAT-TGA
34884775 AAAAGAAATTGA
1 AAAAGAAATTGA
*
34884787 AAAAGAAGTTGA
1 AAAAGAAATTGA
34884799 AGAAAGAAA
1 A-AAAGAAA
34884808 GAAAATGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 15 0.52
13 14 0.48
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:34884818 original size:22 final size:22
Alignment explanation
Indices: 34884793--34884834 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34884783 TTGAAAAAGA
*
34884793 AGTT-GAAGAAAGAAAGAAAATG
1 AGTTAGAA-AAAGAAACAAAATG
34884815 AGTTAGAAAAAGAAACAAAA
1 AGTTAGAAAAAGAAACAAAA
34884835 GAAAAAGACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.64, C:0.02, G:0.21, T:0.12
Consensus pattern (22 bp):
AGTTAGAAAAAGAAACAAAATG
Found at i:34889893 original size:17 final size:17
Alignment explanation
Indices: 34889871--34889926 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
34889861 GAAACAAAAG
34889871 AGTGTTTAGTCAATACA
1 AGTGTTTAGTCAATACA
*
34889888 AGTGTTTTAAG-CAAATACT
1 AGTG-TTT-AGTC-AATACA
34889907 AGTGTTTAGTCAATACA
1 AGTGTTTAGTCAATACA
34889924 AGT
1 AGT
34889927 CAATACAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 14 0.42
18 8 0.24
19 11 0.33
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (17 bp):
AGTGTTTAGTCAATACA
Found at i:34889929 original size:10 final size:10
Alignment explanation
Indices: 34889914--34889946 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
34889904 ACTAGTGTTT
34889914 AGTCAATACA
1 AGTCAATACA
34889924 AGTCAATACA
1 AGTCAATACA
34889934 AGTCAATACA
1 AGTCAATACA
34889944 AGT
1 AGT
34889947 GTTTAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.21
Consensus pattern (10 bp):
AGTCAATACA
Found at i:34890337 original size:39 final size:41
Alignment explanation
Indices: 34890242--34890425 Score: 229
Period size: 40 Copynumber: 4.6 Consensus size: 41
34890232 TTGAATGATG
* * *
34890242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
34890281 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
34890321 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
34890360 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
34890400 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34890426 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 54 0.43
40 69 0.55
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:34890377 original size:79 final size:80
Alignment explanation
Indices: 34890242--34890425 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 80
34890232 TTGAATGATG
* * *
34890242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
34890306 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * **
34890320 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
34890383 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
34890400 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34890426 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 10 0.11
79 66 0.73
80 15 0.16
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:34890447 original size:79 final size:78
Alignment explanation
Indices: 34890243--34890458 Score: 226
Period size: 79 Copynumber: 2.7 Consensus size: 78
34890233 TGAATGATGT
* * * *
34890243 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGT-GACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCAATT
*
34890306 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
*
34890322 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCAATT
*
34890385 GTGCGAGTTACT-ATAA
63 GTGCGAGATACTAAT-A
* ** *
34890401 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
34890459 TACGTGATTT
Statistics
Matches: 116, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
78 12 0.10
79 73 0.63
80 31 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCAATTGTG
CGAGATACTAATA
Found at i:34894749 original size:17 final size:18
Alignment explanation
Indices: 34894724--34894761 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
34894714 TTTCTTCAAC
* *
34894724 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
34894741 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
34894759 TTC
1 TTC
34894762 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:34900993 original size:22 final size:21
Alignment explanation
Indices: 34900964--34901011 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
34900954 AAGCATGAAC
*
34900964 TGAA-ATTTTAATGATTTAGTG
1 TGAACATTTTAATGAATT-GTG
* *
34900985 TGAACATTTTTATTAATTGTG
1 TGAACATTTTAATGAATTGTG
34901006 TGAACA
1 TGAACA
34901012 CATAGATGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
TGAACATTTTAATGAATTGTG
Found at i:34902947 original size:20 final size:20
Alignment explanation
Indices: 34902924--34902970 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
34902914 GGGTTAAGAT
*
34902924 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
34902944 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
34902964 TGAGCTG
1 TGAGCTG
34902971 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:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:34904692 original size:48 final size:48
Alignment explanation
Indices: 34904640--34904745 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
34904630 TTGTCTTTTC
*
34904640 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
34904688 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
34904736 TTTCTTTTTC
1 TTTCTTTTTC
34904746 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:34905847 original size:10 final size:11
Alignment explanation
Indices: 34905832--34905857 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34905822 CTTTTTCTCG
34905832 ATTTTTTTTGA
1 ATTTTTTTTGA
34905843 ATTTTTTTTGA
1 ATTTTTTTTGA
34905854 ATTT
1 ATTT
34905858 CTTCTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (11 bp):
ATTTTTTTTGA
Found at i:34907371 original size:20 final size:20
Alignment explanation
Indices: 34907348--34907394 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
34907338 GGGTTAAGAT
*
34907348 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
34907368 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
34907388 TGAGCTG
1 TGAGCTG
34907395 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:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:34912129 original size:22 final size:22
Alignment explanation
Indices: 34912078--34912143 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
34912068 GGTATTTGGG
* *
34912078 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
34912099 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
34912121 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
34912144 TCAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:34915187 original size:23 final size:22
Alignment explanation
Indices: 34915135--34915187 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34915125 TCCACGTCTT
*
34915135 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
34915157 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
34915180 TTTCTTTT
1 TTTCTTTT
34915188 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:34925597 original size:20 final size:21
Alignment explanation
Indices: 34925572--34925610 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
34925562 TCAAACAAGC
34925572 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
34925592 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
34925611 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:34931201 original size:79 final size:79
Alignment explanation
Indices: 34931102--34931321 Score: 205
Period size: 79 Copynumber: 2.8 Consensus size: 79
34931092 CTCGTTCAAG
* * ** * *
34931102 TGCCTTCGGGACATAGCCCGGTCATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACATAACCCGG-AATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-AT
*
34931166 TAA-AACTCGCACGAA
64 TAATAACTCGCACAAA
* * * *
34931181 TGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
34931246 ATAACTCGCACAAA
66 ATAACTCGCACAAA
* * ** * * *
34931260 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGA-ATAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
34931322 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.14
79 68 0.59
80 26 0.22
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
ATAACTCGCACAAA
Found at i:34931281 original size:40 final size:40
Alignment explanation
Indices: 34931139--34931321 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
34931129 TAACTCATTC
* *
34931139 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
34931179 AATGCCTTCGGGACTTAACCCGGAATT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
34931218 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
34931258 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
34931299 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34931322 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:34938079 original size:41 final size:39
Alignment explanation
Indices: 34938030--34938158 Score: 149
Period size: 37 Copynumber: 3.3 Consensus size: 39
34938020 GTAACTCATT
34938030 CAATGCCTTCGGGACTTAACCGCGGATTTTAAAACTCGCA
1 CAATGCCTTCGGGACTTAACC-CGGATTTTAAAACTCGCA
*
34938070 CGAATGCCTTCGGGACTTAACCCGGATTGGT---ACTCGCA
1 C-AATGCCTTCGGGACTTAACCCGGATT-TTAAAACTCGCA
* * *
34938108 CAAAGGCTTCGGGACTTAACCCGGA-ATTAATAACTCGCA
1 CAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCA
*
34938147 CAATACCTTCGG
1 CAATGCCTTCGG
34938159 ATCTTAGTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
35 1 0.01
37 22 0.29
38 8 0.11
39 16 0.21
40 7 0.09
41 21 0.28
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCA
Found at i:35510501 original size:25 final size:26
Alignment explanation
Indices: 35510473--35510525 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
35510463 TTCTTCAATT
*
35510473 TCTTTTCACTCTCA-ATTCTTTTTGC
1 TCTTTTCACTCTCATATTCTTTTCGC
* *
35510498 TCTTTTCATTCTCATTTTCTTTTCGC
1 TCTTTTCACTCTCATATTCTTTTCGC
35510524 TC
1 TC
35510526 ACTTGTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.09, C:0.28, G:0.04, T:0.58
Consensus pattern (26 bp):
TCTTTTCACTCTCATATTCTTTTCGC
Found at i:35517748 original size:18 final size:19
Alignment explanation
Indices: 35517712--35517750 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35517702 TCACTTTTTC
* *
35517712 TTTTTGTTTTCTCACTCTT
1 TTTTTCTTTTCCCACTCTT
35517731 TTTTTCTTTTCCCA-TCTT
1 TTTTTCTTTTCCCACTCTT
35517749 TT
1 TT
35517751 CTTTTTGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTCTTTTCCCACTCTT
Found at i:35522006 original size:13 final size:13
Alignment explanation
Indices: 35521984--35522023 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
35521974 AGAGAAGAGG
35521984 AAATTCGAAAAAA
1 AAATTCGAAAAAA
*
35521997 AAATTTGAAAAAA
1 AAATTCGAAAAAA
35522010 AAA-TCGAAAAAA
1 AAATTCGAAAAAA
35522022 AA
1 AA
35522024 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.15
Consensus pattern (13 bp):
AAATTCGAAAAAA
Found at i:35522009 original size:12 final size:12
Alignment explanation
Indices: 35521984--35522025 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
35521974 AGAGAAGAGG
35521984 AAATTCGAAAAAA
1 AAATTCG-AAAAA
*
35521997 AAATTTGAAAAA
1 AAATTCGAAAAA
*
35522009 AAAATCGAAAAA
1 AAATTCGAAAAA
35522021 AAATT
1 AAATT
35522026 AAAAAAATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 19 0.76
13 6 0.24
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (12 bp):
AAATTCGAAAAA
Found at i:35523035 original size:18 final size:18
Alignment explanation
Indices: 35522997--35523038 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35522987 AAAATGAAAG
* **
35522997 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCAA
35523015 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAATCAA
35523033 AAAAGA
1 AAAAGA
35523039 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCAA
Found at i:35526387 original size:13 final size:12
Alignment explanation
Indices: 35526369--35526403 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
35526359 GGAAATTCAA
35526369 AAAAAAAAATCTG
1 AAAAAAAAATC-G
35526382 AAAAAAAAATCG
1 AAAAAAAAATCG
35526394 AAAAAAAAAT
1 AAAAAAAAAT
35526404 TAAAAAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (12 bp):
AAAAAAAAATCG
Found at i:35527392 original size:18 final size:18
Alignment explanation
Indices: 35527337--35527395 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
35527327 AGTGCGAGCG
35527337 AGAAAAAGAAATGAAAGAAA
1 AGAAAAAGAAAT-AAA-AAA
* **
35527357 AGAAAAAGAGATTGAAAA
1 AGAAAAAGAAATAAAAAA
*
35527375 AGAAAAAGAAATCAAAAA
1 AGAAAAAGAAATAAAAAA
35527393 AGA
1 AGA
35527396 GAGTGAGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 21 0.64
19 1 0.03
20 11 0.33
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAATAAAAAA
Found at i:35532285 original size:22 final size:22
Alignment explanation
Indices: 35532237--35532299 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
35532227 TATTTGGGAA
* *
35532237 TGGTTCGAAATAGTATGG-AAT
1 TGGTACGAAATGGTATGGTAAT
*
35532258 TGGTACGAAATGGTATGGTATT
1 TGGTACGAAATGGTATGGTAAT
*
35532280 TGGTACGAATTGGTAATGGT
1 TGGTACGAAATGGT-ATGGT
35532300 TCAAAGAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 16 0.44
22 15 0.42
23 5 0.14
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.35
Consensus pattern (22 bp):
TGGTACGAAATGGTATGGTAAT
Found at i:35533868 original size:13 final size:13
Alignment explanation
Indices: 35533850--35533875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35533840 ACCTGAAAGC
35533850 AATTTAATTCATA
1 AATTTAATTCATA
35533863 AATTTAATTCATA
1 AATTTAATTCATA
35533876 TTAGGACACA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:35534290 original size:20 final size:21
Alignment explanation
Indices: 35534265--35534303 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35534255 TCAAACAAGC
*
35534265 AAATGAGCTTAA-TGAGCTGG
1 AAATGAGCTGAATTGAGCTGG
35534285 AAATGAGCTGAATTGAGCT
1 AAATGAGCTGAATTGAGCT
35534304 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (21 bp):
AAATGAGCTGAATTGAGCTGG
Found at i:35536726 original size:19 final size:19
Alignment explanation
Indices: 35536702--35536739 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35536692 TGGCTTAGAA
35536702 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
35536721 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
35536740 TTGGCTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
AATGACTCTTGAGTTGTCC
Found at i:35538103 original size:20 final size:21
Alignment explanation
Indices: 35538078--35538116 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35538068 CAATCCACGA
*
35538078 ATTTTTTT-ACTTTTTTTTTG
1 ATTTTTTTAAATTTTTTTTTG
35538098 ATTTTTTTAAATTTTTTTT
1 ATTTTTTTAAATTTTTTTT
35538117 AATCACTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (21 bp):
ATTTTTTTAAATTTTTTTTTG
Found at i:35539668 original size:20 final size:21
Alignment explanation
Indices: 35539643--35539681 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35539633 TCAAACAAGC
35539643 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
35539663 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
35539682 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:35540682 original size:12 final size:12
Alignment explanation
Indices: 35540650--35540682 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
35540640 TTTCTTTGAT
*
35540650 TTTTTTTTC-GA
1 TTTTTTTTCAAA
35540661 TTTTTTTTCAAA
1 TTTTTTTTCAAA
35540673 TTTTTTTTCA
1 TTTTTTTTCA
35540683 CGAATCTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:35546060 original size:12 final size:12
Alignment explanation
Indices: 35546043--35546067 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35546033 ACCCTTAAAT
35546043 ACATTACATTGA
1 ACATTACATTGA
35546055 ACATTACATTGA
1 ACATTACATTGA
35546067 A
1 A
35546068 TTCAAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ACATTACATTGA
Found at i:35546340 original size:20 final size:19
Alignment explanation
Indices: 35546315--35546352 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
35546305 CAAGCTGACT
35546315 TTAGCTCAATTTCAGCTCCC
1 TTAGCT-AATTTCAGCTCCC
*
35546335 TTAGCTTATTTCAGCTCC
1 TTAGCTAATTTCAGCTCC
35546353 GATCAGCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (19 bp):
TTAGCTAATTTCAGCTCCC
Found at i:35548356 original size:10 final size:10
Alignment explanation
Indices: 35548341--35548379 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
35548331 AACTTAGTTC
*
35548341 AGCTCACTTG
1 AGCTCAATTG
*
35548351 AGCTCAAGTG
1 AGCTCAATTG
*
35548361 AGCTCATTTG
1 AGCTCAATTG
35548371 AGCTCAATT
1 AGCTCAATT
35548380 CAACTCAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (10 bp):
AGCTCAATTG
Done.