Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 310 of 344
Found at i:102263065 original size:126 final size:126
Alignment explanation
Indices: 102262838--102263218 Score: 636
Period size: 126 Copynumber: 3.0 Consensus size: 126
102262828 TTATAGCCTC
*
102262838 ATTTTTCTATGAACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
102262903 ACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
* * *
102262964 ATTTTTCTATGAACTATTGTAACAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
** * *
102263029 ACAGTTTATCCTGCTTGAAGCGTTTTCGACAATATTTGTTCAGAAACGTTTATTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
*
102263090 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * *
102263155 ACAGTGCATCCTGCTTCAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTTAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
102263216 ATT
1 ATT
102263219 CTTGCAGAAA
Statistics
Matches: 234, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 234 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (126 bp):
ATTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
Found at i:102263765 original size:19 final size:19
Alignment explanation
Indices: 102263743--102263827 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
102263733 ACCATTATGT
102263743 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
* *
102263762 ATCAATTAGCCTTAAATTTA
1 ATCAATTAACCCTAAA-TTA
*
102263782 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAAATTA
*
102263801 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAAATTA
102263817 ATCAATTAACC
1 ATCAATTAACC
102263828 TTAATACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
16 15 0.26
17 1 0.02
18 1 0.02
19 24 0.42
20 16 0.28
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.35
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:102263812 original size:16 final size:17
Alignment explanation
Indices: 102263751--102263822 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 17
102263741 GTATCAATTA
*
102263751 ACCCTAAATTAATCAATT
1 ACCCTAATTTAATCAA-T
*
102263769 AGCCTTAAATTTAATCAATT
1 A-CCCT-AATTTAATCAA-T
102263789 AACCCTAATTTAATCAAT
1 -ACCCTAATTTAATCAAT
102263807 -CCCTAATTTAATCAAT
1 ACCCTAATTTAATCAAT
102263823 TAACCTTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
16 16 0.33
18 2 0.04
19 14 0.29
20 15 0.31
21 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (17 bp):
ACCCTAATTTAATCAAT
Found at i:102263822 original size:35 final size:38
Alignment explanation
Indices: 102263743--102263832 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 38
102263733 ACCATTATGT
* *
102263743 ATCAATTAACCCTAAATTAATCAATTAGCCTTAAATTTA
1 ATCAATTAACCCTAATTTAATCAATTA-CCCTAAATTTA
102263782 ATCAATTAACCCTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCCTAATTTAATCAATTACCCTAAATTTA
*
102263817 ATCAATTAACCTTAAT
1 ATCAATTAACCCTAAT
102263833 ACCCTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 21 0.44
36 3 0.06
38 1 0.02
39 23 0.48
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (38 bp):
ATCAATTAACCCTAATTTAATCAATTACCCTAAATTTA
Found at i:102264934 original size:13 final size:13
Alignment explanation
Indices: 102264905--102264939 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
102264895 ATTTAATGTT
*
102264905 TAATTATATATGGA
1 TAATTAT-TAAGGA
102264919 TAATTATTAAGGA
1 TAATTATTAAGGA
102264932 TAATTATT
1 TAATTATT
102264940 TAGATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (13 bp):
TAATTATTAAGGA
Found at i:102264971 original size:10 final size:10
Alignment explanation
Indices: 102264956--102265015 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
102264946 TAAATTTAAG
*
102264956 ATTTATTTTT
1 ATTTATCTTT
102264966 ATTTATCTTT
1 ATTTATCTTT
*
102264976 AATTATCTTT
1 ATTTATCTTT
*
102264986 AATTATCTTT
1 ATTTATCTTT
102264996 ATTTAT-TTGT
1 ATTTATCTT-T
*
102265006 GTTTATCTTT
1 ATTTATCTTT
102265016 TAGAATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 40 0.91
11 2 0.05
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:102271996 original size:7 final size:7
Alignment explanation
Indices: 102271986--102272037 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
102271976 TCTTTTTCTT
102271986 TTATTTA
1 TTATTTA
102271993 TTATTTA
1 TTATTTA
102272000 TTATTTTA
1 TTA-TTTA
*
102272008 TT-TTAA
1 TTATTTA
*
102272014 TTACTTA
1 TTATTTA
*
102272021 TTACTTAA
1 TTA-TTTA
102272029 TTATTTA
1 TTATTTA
102272036 TT
1 TT
102272038 TTATTTTGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
6 5 0.14
7 20 0.56
8 11 0.31
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (7 bp):
TTATTTA
Found at i:102274737 original size:99 final size:100
Alignment explanation
Indices: 102274608--102274794 Score: 295
Period size: 99 Copynumber: 1.9 Consensus size: 100
102274598 TTTTTAAGAA
* * *
102274608 TATGTTGGGTTGAGTAACTGGGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCG
1 TATGTTGGGTTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCA
*
102274673 ATATGTTCTTAAG-AAAATAAAAAAAAATTAGGAG
66 ATATATTCTTAAGAAAAATAAAAAAAAATTAGGAG
* * *
102274707 TATGTTGGTTTGAGTAACCGAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
1 TATGTTGGGTTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCA
102274772 ATATATTCTTAAGTAAAAATAAA
66 ATATATTCTTAAG-AAAAATAAA
102274795 TTAAATTAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 71 0.90
101 8 0.10
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (100 bp):
TATGTTGGGTTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCA
ATATATTCTTAAGAAAAATAAAAAAAAATTAGGAG
Found at i:102274832 original size:12 final size:11
Alignment explanation
Indices: 102274808--102274849 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
102274798 AATTAAATTT
*
102274808 AAAAAACAAAG
1 AAAAAAGAAAG
102274819 AAAGAAAGAAAG
1 AAA-AAAGAAAG
102274831 AAAAAAAGAAA-
1 -AAAAAAGAAAG
102274842 AAAAAAGA
1 AAAAAAGA
102274850 TATATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.29
11 3 0.11
12 14 0.50
13 3 0.11
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:102275016 original size:10 final size:10
Alignment explanation
Indices: 102275001--102275052 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
102274991 TAAATTTTGG
102275001 ATTTATTTTT
1 ATTTATTTTT
*
102275011 ATTTATCTTT
1 ATTTATTTTT
* *
102275021 AATTATCTTT
1 ATTTATTTTT
*
102275031 ATTTATTTGT
1 ATTTATTTTT
102275041 ATTTATCTTTT
1 ATTTAT-TTTT
102275052 A
1 A
102275053 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:102279084 original size:12 final size:11
Alignment explanation
Indices: 102279064--102279106 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
102279054 TTAGCTTTGC
102279064 ATTATTATTACT
1 ATTA-TATTACT
102279076 ATTACTATTACT
1 ATTA-TATTACT
*
102279088 ATTATATTTCT
1 ATTATATTACT
*
102279099 TTTATATT
1 ATTATATT
102279107 TATTAGGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATATTACT
Found at i:102279185 original size:19 final size:21
Alignment explanation
Indices: 102279155--102279195 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
102279145 AAAAATGATG
102279155 TCTGGAAAATGATTTA-TTTT
1 TCTGGAAAATGATTTACTTTT
102279175 TCTGG-AAATGATTTACTTTT
1 TCTGGAAAATGATTTACTTTT
102279195 T
1 T
102279196 TGGTGTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (21 bp):
TCTGGAAAATGATTTACTTTT
Found at i:102282092 original size:3 final size:3
Alignment explanation
Indices: 102282084--102282110 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
102282074 TCAATCTTTA
102282084 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
102282111 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:102282958 original size:22 final size:22
Alignment explanation
Indices: 102282910--102282962 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
102282900 TTTCGTAGAC
*
102282910 CAAAATTATTTTTTTAATAAAAT
1 CAAAA-TATTTTATTAATAAAAT
102282933 -AAAATATTTTATTAA-AACAAT
1 CAAAATATTTTATTAATAA-AAT
102282954 CAAAATATT
1 CAAAATATT
102282963 AGGTGATCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 13 0.48
22 12 0.44
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
CAAAATATTTTATTAATAAAAT
Found at i:102296048 original size:23 final size:23
Alignment explanation
Indices: 102296021--102296069 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
102296011 ATAACTAAAG
102296021 ATTTTTATTTCTTGAATTATTCT
1 ATTTTTATTTCTTGAATTATTCT
*
102296044 ATTTTTATTTTTTGAATTATTCT
1 ATTTTTATTTCTTGAATTATTCT
102296067 ATT
1 ATT
102296070 GTAAGTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTTTATTTCTTGAATTATTCT
Found at i:102300159 original size:3 final size:3
Alignment explanation
Indices: 102300151--102300200 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
102300141 AAAGTTAAAG
102300151 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
102300199 AA
1 AA
102300201 GAGATAAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:102303007 original size:43 final size:43
Alignment explanation
Indices: 102302946--102303062 Score: 180
Period size: 43 Copynumber: 2.7 Consensus size: 43
102302936 GTTTGTGGCG
*
102302946 CTTTTCCCACAAACGCCGCTACAGGTCATGACCTTTAGCGGCA
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCA
* * *
102302989 CTTTTGCCACAAATGCCGCTAAAGGTCATGACCTTTAGCGGCG
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCA
* *
102303032 CTTTTCCCACAAACGCCACTAAAGGTAATGA
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGA
102303063 AATTTTTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCA
Found at i:102303117 original size:27 final size:28
Alignment explanation
Indices: 102303070--102303123 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
102303060 TGAAATTTTT
*
102303070 AAAAAAATAAAATATTATAAAAGTCATG
1 AAAAAAATAAAAAATTATAAAAGTCATG
* *
102303098 AAAAATATAAAAAATT-TAAAATTCAT
1 AAAAAAATAAAAAATTATAAAAGTCAT
102303124 TATCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAAAAATAAAAAATTATAAAAGTCATG
Found at i:102303228 original size:19 final size:21
Alignment explanation
Indices: 102303187--102303234 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
102303177 TTAAATTTTT
102303187 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
102303208 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
102303227 AACTAAAA
1 AACTAAAA
102303235 TAAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:102304721 original size:17 final size:17
Alignment explanation
Indices: 102304696--102304728 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
102304686 TTATTTTTTC
*
102304696 TTTCTGAAAACCCATTG
1 TTTCAGAAAACCCATTG
102304713 TTTCAGAAAACCCATT
1 TTTCAGAAAACCCATT
102304729 TCTTCTTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (17 bp):
TTTCAGAAAACCCATTG
Found at i:102305980 original size:8 final size:7
Alignment explanation
Indices: 102305963--102306038 Score: 82
Period size: 7 Copynumber: 10.3 Consensus size: 7
102305953 GACTAAAATA
102305963 TTAATTT
1 TTAATTT
102305970 TTAAGTTT
1 TTAA-TTT
102305978 TTAAGTTTT
1 TTAA--TTT
102305987 TTAATTT
1 TTAATTT
*
102305994 TTTATTT
1 TTAATTT
*
102306001 TTAAATT
1 TTAATTT
102306008 TTAATTT
1 TTAATTT
102306015 TTAAATTT
1 TT-AATTT
102306023 TTAAATTT
1 TT-AATTT
102306031 TT-ATTT
1 TTAATTT
102306037 TT
1 TT
102306039 TGAGTTTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
6 6 0.10
7 26 0.43
8 22 0.36
9 7 0.11
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:102306653 original size:7 final size:7
Alignment explanation
Indices: 102306641--102306704 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
102306631 CCCATGGCCA
102306641 TTAAACC
1 TTAAACC
102306648 TTAAACC
1 TTAAACC
*
102306655 ATAAAACC
1 -TTAAACC
*
102306663 CTAAACC
1 TTAAACC
* *
102306670 ATAGACC
1 TTAAACC
102306677 TTAAACC
1 TTAAACC
**
102306684 TTAAATA
1 TTAAACC
102306691 TTAAACC
1 TTAAACC
*
102306698 GTAAACC
1 TTAAACC
102306705 AAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:102306661 original size:15 final size:15
Alignment explanation
Indices: 102306638--102306688 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
102306628 ATACCCATGG
*
102306638 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
102306653 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
102306668 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
102306682 CCTTAAA
1 CCATAAA
102306689 TATTAAACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:102307179 original size:41 final size:41
Alignment explanation
Indices: 102306927--102307167 Score: 333
Period size: 41 Copynumber: 5.9 Consensus size: 41
102306917 GGGGTTATAT
* *
102306927 GACTTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
102306968 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * *
102307009 GACTTTCAGCGGCGTTTTATCGAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* *
102307050 GACTTTTAGCGGCGTTTAACCAAAAGCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * *
102307091 G-TTTTTAGCGGCGTTTTAACAAAAAGCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCC
* * *
102307132 G-TTTTTAGTGGCGTTTTACCAAAAACGCCGCTATTG
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTG
102307168 ATCTGTGTTT
Statistics
Matches: 183, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
40 31 0.17
41 152 0.83
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
Found at i:102310767 original size:21 final size:20
Alignment explanation
Indices: 102310728--102310767 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
102310718 TTACTTAGAA
* *
102310728 ATATTTAAAATTAATATTAT
1 ATATTAAAAATTAACATTAT
102310748 ATATTAAAATATTAACATTA
1 ATATTAAAA-ATTAACATTA
102310768 AGTTATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTAAAAATTAACATTAT
Found at i:102310956 original size:13 final size:13
Alignment explanation
Indices: 102310935--102310979 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
102310925 AAATTTTTCC
*
102310935 AAAGCACTTCTCA
1 AAAGTACTTCTCA
102310948 AAAGTACTTCTCA
1 AAAGTACTTCTCA
* *
102310961 AAAGTATTTCTTA
1 AAAGTACTTCTCA
102310974 AAAGTA
1 AAAGTA
102310980 TTTTTCCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (13 bp):
AAAGTACTTCTCA
Found at i:102310964 original size:26 final size:27
Alignment explanation
Indices: 102310935--102311005 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 27
102310925 AAATTTTTCC
102310935 AAAGCACTTCTCAAAAGTACTTCT-CA
1 AAAGCACTTCTCAAAAGTACTTCTCCA
* * * * *
102310961 AAAGTATTTCTTAAAAGTATTTTTCCA
1 AAAGCACTTCTCAAAAGTACTTCTCCA
* *
102310988 CAA-CACTTTTCAAAAGTA
1 AAAGCACTTCTCAAAAGTA
102311006 ATGAAAAACT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (27 bp):
AAAGCACTTCTCAAAAGTACTTCTCCA
Found at i:102310980 original size:13 final size:13
Alignment explanation
Indices: 102310942--102310982 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
102310932 TCCAAAGCAC
*
102310942 TTCTCAAAAGTAC
1 TTCTCAAAAGTAT
102310955 TTCTCAAAAGTAT
1 TTCTCAAAAGTAT
*
102310968 TTCTTAAAAGTAT
1 TTCTCAAAAGTAT
102310981 TT
1 TT
102310983 TTCCACAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTCTCAAAAGTAT
Found at i:102311322 original size:15 final size:14
Alignment explanation
Indices: 102311294--102311320 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
102311284 TGAATTATGT
102311294 TTTTTTAATATTTA
1 TTTTTTAATATTTA
102311308 TTTTTTAATATTT
1 TTTTTTAATATTT
102311321 TAATATATTT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:102311324 original size:22 final size:21
Alignment explanation
Indices: 102311296--102311339 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
102311286 AATTATGTTT
102311296 TTTTAATATTTATTTTT-TAATA
1 TTTTAATA--TATTTTTATAATA
102311318 TTTTAATATATTTTTATAATA
1 TTTTAATATATTTTTATAATA
102311339 T
1 T
102311340 ATTTGTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTAATATATTTTTATAATA
Found at i:102314608 original size:14 final size:14
Alignment explanation
Indices: 102314591--102314620 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
102314581 GGGGTCCACG
*
102314591 TGTCATTTCTATTT
1 TGTCATTTCCATTT
102314605 TGTCATTTCCATTT
1 TGTCATTTCCATTT
102314619 TG
1 TG
102314621 GCATCCCACG
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:0.13, C:0.17, G:0.10, T:0.60
Consensus pattern (14 bp):
TGTCATTTCCATTT
Found at i:102316989 original size:12 final size:12
Alignment explanation
Indices: 102316972--102317012 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
102316962 AAGAAGAGAA
102316972 AAGAAAGAAAAT
1 AAGAAAGAAAAT
102316984 AAGAAAGAAAAT
1 AAGAAAGAAAAT
* *
102316996 AAGAAAAAAAAG
1 AAGAAAGAAAAT
102317008 AAGAA
1 AAGAA
102317013 GAACAAGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (12 bp):
AAGAAAGAAAAT
Found at i:102317020 original size:21 final size:22
Alignment explanation
Indices: 102316961--102317020 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 22
102316951 ATTTAGTGTT
102316961 TAAGAAG-AGAAAAGAAAGAAAA
1 TAAGAAGAAGAAAAG-AAGAAAA
102316983 TAAGAAAGAA-AATAAGAA-AAAA
1 TAAG-AAGAAGAA-AAGAAGAAAA
102317005 -AAGAAGAAGAACAAGA
1 TAAGAAGAAGAA-AAGA
102317021 GGAGAAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 5 0.15
21 9 0.27
22 8 0.24
23 7 0.21
24 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (22 bp):
TAAGAAGAAGAAAAGAAGAAAA
Found at i:102317035 original size:12 final size:12
Alignment explanation
Indices: 102316997--102317045 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
102316987 AAAGAAAATA
* *
102316997 AGAAAAAAAAGA
1 AGAAGAAAAAGG
102317009 AGAAGAACAAGAGG
1 AGAAGAA-AA-AGG
102317023 AGAAGAAAAAGG
1 AGAAGAAAAAGG
102317035 AGAAGAGAAAA
1 AGAAGA-AAAA
102317046 ATGGAGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 15 0.47
13 8 0.25
14 9 0.28
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (12 bp):
AGAAGAAAAAGG
Found at i:102317776 original size:20 final size:21
Alignment explanation
Indices: 102317746--102317787 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
102317736 ATCCAATGTG
102317746 GCAAGTTAACTGGCCACATCA
1 GCAAGTTAACTGGCCACATCA
*
102317767 GCAA-TTAACTTGCCACATCA
1 GCAAGTTAACTGGCCACATCA
102317787 G
1 G
102317788 TTGTCTCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (21 bp):
GCAAGTTAACTGGCCACATCA
Found at i:102318971 original size:17 final size:19
Alignment explanation
Indices: 102318944--102318983 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
102318934 TATTATTAAA
*
102318944 ATTGATTAATTTTATT-TT
1 ATTGATTAATTCTATTATT
102318962 ATTG-TTAATTCTATTATT
1 ATTGATTAATTCTATTATT
102318980 ATTG
1 ATTG
102318984 GTATTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (19 bp):
ATTGATTAATTCTATTATT
Found at i:102318981 original size:3 final size:3
Alignment explanation
Indices: 102318973--102319344 Score: 125
Period size: 3 Copynumber: 125.3 Consensus size: 3
102318963 TTGTTAATTC
** *
102318973 TAT TAT TAT TGG TAT TAT TAT TAT TAT TACT T-T TAT TCT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * ** * * *
102319017 TAC TAT TAT TGT TGC TAT T-T CTCT TAT TGT TTT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * *
102319063 T-T TAT TGT TAG TAT TAT TAG TAT TCCT TAG T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * * *
102319107 TAT T-T CAT CAT TAT TTT CTAT TAT TGT TAT TAT TAA TA- TAC TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
102319151 TAT TAT TCT TAT TAAT GTAT TAT TGT TAT TAT TTT CTAC T-T TAT TAT
1 TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
** * * * *
102319198 TA- TAT TAT TAT TAT TGC TAT CA- TCT TAT TAT TA- AACT AAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T-AT
* * * *
102319242 T-T TA- TAT TGAT T-T TGT CA- CAT TAT ATAT T-T TCT T-T T-T GTATT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TA-T
* ** *
102319284 TAT T-T ACAT TAT TAT TGC TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
102319329 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
102319345 TTTGAACATA
Statistics
Matches: 274, Mismatches: 62, Indels: 66
0.68 0.15 0.16
Matches are distributed among these distances:
2 29 0.11
3 214 0.78
4 29 0.11
5 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:102319182 original size:20 final size:23
Alignment explanation
Indices: 102319124--102319183 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
102319114 TCATTATTTT
102319124 CTATTATTGTTATTATTAATATA
1 CTATTATTGTTATTATTAATATA
* *
102319147 CTATTATTATTCTTATT-A-AT-
1 CTATTATTGTTATTATTAATATA
*
102319167 GTATTATTGTTATTATT
1 CTATTATTGTTATTATT
102319184 TTCTACTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
22 1 0.03
23 15 0.47
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (23 bp):
CTATTATTGTTATTATTAATATA
Found at i:102319409 original size:27 final size:26
Alignment explanation
Indices: 102319378--102319467 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 26
102319368 ATTATTATCA
102319378 ATTTTAAATATTTTACATATGTTATTT
1 ATTTTAAATATTTTACATAT-TTATTT
* * *
102319405 CTTTTAAACTATTATACGTA-TTATTT
1 ATTTTAAA-TATTTTACATATTTATTT
*
102319431 ATTTTGAAAT-TTTTATATATATCT-TTGT
1 ATTTT-AAATATTTTACATAT-T-TATT-T
102319459 ATTTTAAAT
1 ATTTTAAAT
102319468 TATTATGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
25 6 0.12
26 11 0.22
27 17 0.34
28 16 0.32
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTTTAAATATTTTACATATTTATTT
Found at i:102319733 original size:25 final size:27
Alignment explanation
Indices: 102319705--102319756 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
102319695 TTTATATGCA
*
102319705 ATTTTAAATTATT-TTTTTAT-TTATT
1 ATTTTAAATTATTCTATTTATATTATT
*
102319730 ATTTTAAGTTATTCTATTTATATTATT
1 ATTTTAAATTATTCTATTTATATTATT
102319757 TTGTTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 12 0.52
26 6 0.26
27 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
ATTTTAAATTATTCTATTTATATTATT
Found at i:102322315 original size:17 final size:16
Alignment explanation
Indices: 102322268--102322315 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
102322258 GGCCTATAAT
*
102322268 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
102322285 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
102322303 ATTTGATAGATTA
1 ATTTGATAGATTA
102322316 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:102323689 original size:14 final size:14
Alignment explanation
Indices: 102323651--102323690 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
102323641 CATGATGACT
102323651 AATTAATTTAATTTC
1 AATT-ATTTAATTTC
*
102323666 -ATTTTTTAATTTC
1 AATTATTTAATTTC
102323679 AATTATTTAATT
1 AATTATTTAATT
102323691 ATAATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTATTTAATTTC
Found at i:102323696 original size:14 final size:13
Alignment explanation
Indices: 102323650--102323702 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
102323640 TCATGATGAC
102323650 TAATTAATTTAATT
1 TAATT-ATTTAATT
* *
102323664 TCATTTTTTAATT
1 TAATTATTTAATT
102323677 TCAATTATTTAATT
1 T-AATTATTTAATT
*
102323691 ATAATTAATTAA
1 -TAATTATTTAA
102323703 ATAATAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 8 0.25
14 23 0.72
15 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (13 bp):
TAATTATTTAATT
Found at i:102323854 original size:43 final size:43
Alignment explanation
Indices: 102323753--102323838 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
102323743 TTATAGTGAG
102323753 AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
1 AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
102323796 AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
1 AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
102323839 CATTTCTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (43 bp):
AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
Found at i:102325894 original size:16 final size:16
Alignment explanation
Indices: 102325873--102325906 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
102325863 GGACGGAGTT
102325873 GGTGTGTAACAAATGG
1 GGTGTGTAACAAATGG
102325889 GGTGTGTAACAAATGG
1 GGTGTGTAACAAATGG
102325905 GG
1 GG
102325907 GTAGGAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.41, T:0.24
Consensus pattern (16 bp):
GGTGTGTAACAAATGG
Found at i:102331345 original size:26 final size:25
Alignment explanation
Indices: 102331316--102331389 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
102331306 AAAATTATGT
*
102331316 TAAATTATTTATATTTAAAATATTAA
1 TAAA-TATTTATATTTAAAATATAAA
* ** *
102331342 TAAAAATATTATATTGCAAATAAAAA
1 TAAATAT-TTATATTTAAAATATAAA
*
102331368 TAAATA-TTATTTTTAAAATATA
1 TAAATATTTATATTTAAAATATA
102331390 TAAAAAAGGT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
24 12 0.32
25 2 0.05
26 23 0.62
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (25 bp):
TAAATATTTATATTTAAAATATAAA
Found at i:102332741 original size:42 final size:41
Alignment explanation
Indices: 102332682--102332805 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 41
102332672 ATTTATATGC
*
102332682 CACACGACTTGGACACACACCTATGTCCTTGGCCGTGTGGCT
1 CACACGACTTGGACACACGCC-ATGTCCTTGGCCGTGTGGCT
** *
102332724 CACACGACTTGGACACACGCCCATGT-CTCTACCCGTGTGACT
1 CACACGACTTGGACACACG-CCATGTCCT-TGGCCGTGTGGCT
*
102332766 CACAC-AGCTTGCG-CGCACGCGCATGTCCTTGGCCGTGTGG
1 CACACGA-CTTG-GACACACGC-CATGTCCTTGGCCGTGTGG
102332806 TCCTAAGTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
41 4 0.06
42 59 0.87
43 5 0.07
ACGTcount: A:0.18, C:0.35, G:0.25, T:0.22
Consensus pattern (41 bp):
CACACGACTTGGACACACGCCATGTCCTTGGCCGTGTGGCT
Found at i:102336606 original size:15 final size:15
Alignment explanation
Indices: 102336586--102336617 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
102336576 AATTCTGAAC
102336586 AGACTTTCATTTCAA
1 AGACTTTCATTTCAA
102336601 AGACTTTCATTTCAA
1 AGACTTTCATTTCAA
102336616 AG
1 AG
102336618 TTAATCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (15 bp):
AGACTTTCATTTCAA
Found at i:102342068 original size:14 final size:16
Alignment explanation
Indices: 102342042--102342075 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
102342032 TAAAGCACGA
102342042 AAATTTCACACAT-AT
1 AAATTTCACACATAAT
102342057 AAATTT-ACACATAAT
1 AAATTTCACACATAAT
102342072 AAAT
1 AAAT
102342076 ACAGAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTTCACACATAAT
Found at i:102343360 original size:50 final size:48
Alignment explanation
Indices: 102343289--102343384 Score: 156
Period size: 50 Copynumber: 2.0 Consensus size: 48
102343279 TTTCCAAAAA
*
102343289 AATATTATTTTAATAGTTTAATATTAAATTTAATTTAATATTTATCTT
1 AATATTATTTTAATAGTTTAATATTAAATTTAATCTAATATTTATCTT
*
102343337 AATATTATTTTGATAAGATTTAATATTAAATTTAATCTAATATTTATC
1 AATATTATTTTAAT-AG-TTTAATATTAAATTTAATCTAATATTTATC
102343385 GTGATAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 13 0.30
49 2 0.05
50 29 0.66
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (48 bp):
AATATTATTTTAATAGTTTAATATTAAATTTAATCTAATATTTATCTT
Found at i:102349418 original size:5 final size:5
Alignment explanation
Indices: 102349408--102349451 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
102349398 TGTAAAACAA
* * *
102349408 TTGAT TTGAT TTGAT TTGAC TTGAC TTGAC TTGAC TTGAC TTGA
1 TTGAC TTGAC TTGAC TTGAC TTGAC TTGAC TTGAC TTGAC TTGA
102349452 TTTAAGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.48
Consensus pattern (5 bp):
TTGAC
Found at i:102354237 original size:21 final size:19
Alignment explanation
Indices: 102354212--102354263 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
102354202 GCCCTTTTTC
*
102354212 AAGAGTAGAAATCGGTAATGG
1 AAGAG-AGAAAT-GGAAATGG
*
102354233 AAGAG-GACAAAGGAAATGG
1 AAGAGAGA-AATGGAAATGG
102354252 AAGAGAGAAATG
1 AAGAGAGAAATG
102354264 AAGAAATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 17 0.65
20 4 0.15
21 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.35, T:0.12
Consensus pattern (19 bp):
AAGAGAGAAATGGAAATGG
Found at i:102354869 original size:22 final size:22
Alignment explanation
Indices: 102354844--102354888 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
102354834 GAAAATTTAT
102354844 TATAAAAATAATTTAAATTCAA
1 TATAAAAATAATTTAAATTCAA
**
102354866 TATATTAATAATTTAAATTCAA
1 TATAAAAATAATTTAAATTCAA
102354888 T
1 T
102354889 TTAGTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TATAAAAATAATTTAAATTCAA
Found at i:102359735 original size:116 final size:116
Alignment explanation
Indices: 102359531--102359762 Score: 455
Period size: 116 Copynumber: 2.0 Consensus size: 116
102359521 TCTGATAAGG
102359531 AAGAGGAAGCGACAGCTGCATCACCAGTAACAGTAGAACCCTACAAAACATATAACTTGGCAATC
1 AAGAGGAAGCGACAGCTGCATCACCAGTAACAGTAGAACCCTACAAAACATATAACTTGGCAATC
102359596 TTTCTCTGCCATTTCATCACAACAAGGGAACCTTTGGAAATCTTTAACACC
66 TTTCTCTGCCATTTCATCACAACAAGGGAACCTTTGGAAATCTTTAACACC
*
102359647 AAGAGGAAGCGACAGCTGCATCACCAGTAACAGTAGAACCCTGCAAAACATATAACTTGGCAATC
1 AAGAGGAAGCGACAGCTGCATCACCAGTAACAGTAGAACCCTACAAAACATATAACTTGGCAATC
102359712 TTTCTCTGCCATTTCATCACAACAAGGGAACCTTTGGAAATCTTTAACACC
66 TTTCTCTGCCATTTCATCACAACAAGGGAACCTTTGGAAATCTTTAACACC
102359763 CCACTTTCAG
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (116 bp):
AAGAGGAAGCGACAGCTGCATCACCAGTAACAGTAGAACCCTACAAAACATATAACTTGGCAATC
TTTCTCTGCCATTTCATCACAACAAGGGAACCTTTGGAAATCTTTAACACC
Found at i:102369091 original size:60 final size:59
Alignment explanation
Indices: 102369012--102369148 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
102369002 AACTGTGTTA
*
102369012 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTAATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
102369072 ATATGGGCTAGGCCTAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
*
102369132 ATATAGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
102369149 GTTAACACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 51 0.77
61 14 0.21
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:102370191 original size:29 final size:29
Alignment explanation
Indices: 102370158--102370215 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
102370148 AGTTCTACGG
*
102370158 AAAAACACTAAAATCAATTTTATGGAAAT
1 AAAAACACTAAAATCAATTTTATGAAAAT
102370187 AAAAACACTAAAATCAATTTTATGAAAAT
1 AAAAACACTAAAATCAATTTTATGAAAAT
102370216 GTTAGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAAACACTAAAATCAATTTTATGAAAAT
Found at i:102373025 original size:28 final size:27
Alignment explanation
Indices: 102372985--102373037 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
102372975 ATACTGTAAG
* *
102372985 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAG-TTAACATTGATAT
102373013 GGGCTAAGGCCCAGTTAACATTGAT
1 GGGCTAAGGCCCAGTTAACATTGAT
102373038 TTCTGAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAACATTGATAT
Found at i:102373474 original size:57 final size:57
Alignment explanation
Indices: 102373405--102373520 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
102373395 TTCTAGGGTG
102373405 AATTTTATAAAAGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGT
1 AATTTTATAAAAGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGT
102373462 AATTTTATAAAAGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGT
1 AATTTTATAAAAGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGT
102373519 AA
1 AA
102373521 CGTAAATGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (57 bp):
AATTTTATAAAAGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGT
Found at i:102373976 original size:16 final size:17
Alignment explanation
Indices: 102373944--102373976 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
102373934 CATCAAGAAG
102373944 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
102373962 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
102373977 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:102379026 original size:27 final size:27
Alignment explanation
Indices: 102378991--102379046 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
102378981 TTCGTCTTCT
*
102378991 TCTTCATTTATTGAAAGTTGATCCATA
1 TCTTAATTTATTGAAAGTTGATCCATA
102379018 TCTTAATTTATTGAAAGTTGATCCATA
1 TCTTAATTTATTGAAAGTTGATCCATA
102379045 TC
1 TC
102379047 GTTTTCCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (27 bp):
TCTTAATTTATTGAAAGTTGATCCATA
Found at i:102379811 original size:46 final size:47
Alignment explanation
Indices: 102379755--102379856 Score: 188
Period size: 47 Copynumber: 2.2 Consensus size: 47
102379745 GATAGATAAA
102379755 AATATTAAATTAAACGTCAGTTACT-AAAAAAATACGAACATAAAAT
1 AATATTAAATTAAACGTCAGTTACTAAAAAAAATACGAACATAAAAT
*
102379801 AATATTAAATTAAACGTCAGTTATTAAAAAAAATACGAACATAAAAT
1 AATATTAAATTAAACGTCAGTTACTAAAAAAAATACGAACATAAAAT
102379848 AATATTAAA
1 AATATTAAA
102379857 ACATAAGTAC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 24 0.44
47 30 0.56
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (47 bp):
AATATTAAATTAAACGTCAGTTACTAAAAAAAATACGAACATAAAAT
Found at i:102399031 original size:17 final size:18
Alignment explanation
Indices: 102399009--102399044 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
102398999 TTTGTTTATA
102399009 ATTTTAAA-AAATTAATT
1 ATTTTAAATAAATTAATT
*
102399026 ATTTTAAATAATTTAATT
1 ATTTTAAATAAATTAATT
102399044 A
1 A
102399045 AAGTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTAAATAAATTAATT
Found at i:102399209 original size:19 final size:21
Alignment explanation
Indices: 102399168--102399207 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
102399158 TTTTAGGATG
*
102399168 ATCCTAATATAATTTATTCTC
1 ATCCTAATAAAATTTATTCTC
102399189 ATCCTAATAAAATTTATTC
1 ATCCTAATAAAATTTATTC
102399208 ATGTATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (21 bp):
ATCCTAATAAAATTTATTCTC
Found at i:102399328 original size:124 final size:124
Alignment explanation
Indices: 102399085--102399311 Score: 402
Period size: 124 Copynumber: 1.8 Consensus size: 124
102399075 TATAGATGAG
*
102399085 TGTATAATAATACATTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTGGTGCCTAAAA
1 TGTATAATAATACATTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAGTGCCTAAAA
102399150 ACTATACTTTTTAGGATGATCCTAATATAATTTATTCTCATCCTAATAAAATTTATTCA
66 ACTATACTTTTTAGGATGATCCTAATATAATTTATTCTCATCCTAATAAAATTTATTCA
**
102399209 TGTATAATAATATTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAGTGCCTAAAA
1 TGTATAATAATACATTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAGTGCCTAAAA
* *
102399274 GCTATACTTTTTA-GATGATCTTAATATAATTTATTCTC
66 ACTATACTTTTTAGGATGATCCTAATATAATTTATTCTC
102399312 TTTAATTAAT
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
123 24 0.24
124 74 0.76
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (124 bp):
TGTATAATAATACATTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAGTGCCTAAAA
ACTATACTTTTTAGGATGATCCTAATATAATTTATTCTCATCCTAATAAAATTTATTCA
Found at i:102402803 original size:29 final size:29
Alignment explanation
Indices: 102402770--102402826 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
102402760 GTACAATAAT
*
102402770 CTATACAAGTCACAAAATTAAATAGAATC
1 CTATAAAAGTCACAAAATTAAATAGAATC
**
102402799 CTATAAAAGTCACCCAATTAAATAGAAT
1 CTATAAAAGTCACAAAATTAAATAGAAT
102402827 ATTTCCAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.25
Consensus pattern (29 bp):
CTATAAAAGTCACAAAATTAAATAGAATC
Found at i:102405740 original size:14 final size:13
Alignment explanation
Indices: 102405707--102405757 Score: 52
Period size: 14 Copynumber: 4.0 Consensus size: 13
102405697 ATTGGAATTA
102405707 AAAATTTAAATAT
1 AAAATTTAAATAT
* *
102405720 TAAATTTAAGTTAT
1 AAAATTTAA-ATAT
*
102405734 AAAATTTTAAT-T
1 AAAATTTAAATAT
102405746 AAAA-TTAAATAT
1 AAAATTTAAATAT
102405758 CGAACATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 5 0.17
12 6 0.20
13 9 0.30
14 10 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
AAAATTTAAATAT
Found at i:102405811 original size:29 final size:27
Alignment explanation
Indices: 102405772--102405832 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
102405762 CATGATTAGA
102405772 TAAATTGATAAAA-A-AATAATATAATAT
1 TAAATTGATAAAATACAATAA-A-AATAT
102405799 TAAATTGGAATAAAATACAATAAAAATAT
1 TAAATT-G-ATAAAATACAATAAAAATAT
102405828 TAAAT
1 TAAAT
102405833 AAAATATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 6 0.20
28 1 0.03
29 16 0.53
30 2 0.07
31 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (27 bp):
TAAATTGATAAAATACAATAAAAATAT
Found at i:102408416 original size:27 final size:27
Alignment explanation
Indices: 102408381--102408435 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
102408371 AAGAACCTAA
*
102408381 AAGTGGTTGCATCCACCACAAGAGAGT
1 AAGTAGTTGCATCCACCACAAGAGAGT
102408408 AAGTAGTTGCATCCACCACAAGAGAGT
1 AAGTAGTTGCATCCACCACAAGAGAGT
102408435 A
1 A
102408436 TGTCTCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
AAGTAGTTGCATCCACCACAAGAGAGT
Found at i:102417043 original size:54 final size:54
Alignment explanation
Indices: 102416984--102417098 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 54
102416974 GGTGTTAGAG
*
102416984 ATTAAAGTATAAGAATTAAATATCTAATTTAAGCATATT-AGGACTAAAATTG-AA
1 ATTAAAGTATAAGAATT--ATATCAAATTTAAGCATATTAAGGACTAAAATTGAAA
* *
102417038 ATTAAAGTATAAGAATTATTTCAAATTTAAGCATATTAAAAGGACTAAAGTTGAAA
1 ATTAAAGTATAAGAATTATATCAAATTTAAGCATATT--AAGGACTAAAATTGAAA
102417094 ATTAA
1 ATTAA
102417099 CCGATTTATA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
52 18 0.33
54 17 0.31
55 12 0.22
56 7 0.13
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.33
Consensus pattern (54 bp):
ATTAAAGTATAAGAATTATATCAAATTTAAGCATATTAAGGACTAAAATTGAAA
Found at i:102417710 original size:28 final size:28
Alignment explanation
Indices: 102417652--102417706 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
102417642 ATATGGACCG
* *
102417652 ATTATTTAACTAGTAGACGAAGTATAAT
1 ATTATTTAACTAATAAACGAAGTATAAT
102417680 ATTATTTAACTATATAAAC-AA-TATAAT
1 ATTATTTAACTA-ATAAACGAAGTATAAT
102417707 TATTTTACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 14 0.58
29 4 0.17
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (28 bp):
ATTATTTAACTAATAAACGAAGTATAAT
Found at i:102421613 original size:14 final size:13
Alignment explanation
Indices: 102421594--102421631 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
102421584 ATTTTAATTT
102421594 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
102421608 TAATTATTAAGGA
1 TAATTATTTAGGA
102421621 TAATTATTTAG
1 TAATTATTTAG
102421632 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:102421679 original size:20 final size:20
Alignment explanation
Indices: 102421656--102421695 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
102421646 ATTTATTTTC
102421656 ATTTATATTTAATTATCTTT
1 ATTTATATTTAATTATCTTT
*
102421676 ATTTATTTTTAATTATCTTT
1 ATTTATATTTAATTATCTTT
102421696 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTATATTTAATTATCTTT
Found at i:102423197 original size:96 final size:97
Alignment explanation
Indices: 102423023--102423209 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 97
102423013 ATTTTATTTA
* * *
102423023 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCTAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCTAAGCACCCCA
*
102423088 CCCCGGTTGCTCAGCCCAACACATTCCTAATT
66 CCCCGGTTACTCAGCCCAACACATTCCTAATT
* *
102423120 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGATGCGAAGAGAGATGACAGCTAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCTAAGCACCCCA
*
102423184 CCCTGGTTACTCAGCCCAACACATTC
66 CCCCGGTTACTCAGCCCAACACATTC
102423210 TTAAAAATTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 74 0.89
97 9 0.11
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCTAAGCACCCCA
CCCCGGTTACTCAGCCCAACACATTCCTAATT
Found at i:102423969 original size:14 final size:13
Alignment explanation
Indices: 102423950--102424019 Score: 65
Period size: 14 Copynumber: 5.2 Consensus size: 13
102423940 TAATATCTGA
102423950 AAATAATAAATAAT
1 AAATAATAAA-AAT
*
102423964 AAATAATAAAATAA
1 AAATAATAAAA-AT
102423978 AAATAA-AATAAACT
1 AAATAATAA-AAA-T
102423992 AAACTAA-AAAAAT
1 AAA-TAATAAAAAT
102424005 AAA-AATAAAAAT
1 AAATAATAAAAAT
102424017 AAA
1 AAA
102424020 AATTAGGTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
11 2 0.04
12 9 0.18
13 8 0.16
14 25 0.51
15 5 0.10
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAATAAAAAT
Found at i:102423982 original size:6 final size:6
Alignment explanation
Indices: 102423954--102424022 Score: 65
Period size: 6 Copynumber: 11.5 Consensus size: 6
102423944 ATCTGAAAAT
*
102423954 AATAAA TAATAAA TAAT-AA AATAAA AAT-AA AAT-AA ACTAAA CTAA-AAA
1 AATAAA -AATAAA -AATAAA AATAAA AATAAA AATAAA AATAAA --AATAAA
102424002 AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AAT
102424023 TAGGTTACCT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
5 14 0.25
6 27 0.49
7 13 0.24
8 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:102424011 original size:29 final size:29
Alignment explanation
Indices: 102423949--102424019 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
102423939 TTAATATCTG
*
102423949 AAAATAATAAAT-AA-TAAATAATAAAATA
1 AAAATAA-AAATAAACTAAATAAAAAAATA
102423977 AAAAT-AAAATAAACTAAACTAAAAAAATA
1 AAAATAAAAATAAACTAAA-TAAAAAAATA
102424006 AAAATAAAAATAAA
1 AAAATAAAAATAAA
102424020 AATTAGGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 4 0.11
27 3 0.08
28 9 0.24
29 14 0.37
30 8 0.21
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (29 bp):
AAAATAAAAATAAACTAAATAAAAAAATA
Found at i:102424015 original size:15 final size:14
Alignment explanation
Indices: 102423957--102424015 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
102423947 TGAAAATAAT
*
102423957 AAATAATAAATAATA
1 AAATAA-AAATAAAA
102423972 AAATAAAAATAAAA
1 AAATAAAAATAAAA
*
102423986 TAAACT-AAACTAAAA
1 -AAA-TAAAAATAAAA
102424001 AAATAAAAATAAAA
1 AAATAAAAATAAAA
102424015 A
1 A
102424016 TAAAAATTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 1 0.03
14 19 0.50
15 17 0.45
16 1 0.03
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAAATAAAA
Found at i:102424768 original size:15 final size:15
Alignment explanation
Indices: 102424748--102424777 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102424738 CATTTTATTT
*
102424748 ATATTAGGATAATTA
1 ATATTAAGATAATTA
102424763 ATATTAAGATAATTA
1 ATATTAAGATAATTA
102424778 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:102424821 original size:10 final size:10
Alignment explanation
Indices: 102424802--102424833 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
102424792 ATTTAGGATT
102424802 TTAT-TTTAA
1 TTATCTTTAA
102424811 TTATCTTTAA
1 TTATCTTTAA
102424821 TTATCTTTAA
1 TTATCTTTAA
102424831 TTA
1 TTA
102424834 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:102432479 original size:20 final size:20
Alignment explanation
Indices: 102432432--102432479 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
102432422 TTAAATTCTA
102432432 AAAGATAATTACAAATAAAT
1 AAAGATAATTACAAATAAAT
*
102432452 AAATATAATTA-AAGATAAAT
1 AAAGATAATTACAA-ATAAAT
*
102432472 GAAGATAA
1 AAAGATAA
102432480 ATCCTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (20 bp):
AAAGATAATTACAAATAAAT
Found at i:102432532 original size:14 final size:13
Alignment explanation
Indices: 102432496--102432532 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
102432486 AAATTTAAAT
102432496 CTAAATAATTATC
1 CTAAATAATTATC
*
102432509 CTTAATAATTATC
1 CTAAATAATTATC
102432522 CTAATATAATT
1 CTAA-ATAATT
102432533 GAAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:102437319 original size:18 final size:19
Alignment explanation
Indices: 102437296--102437333 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
102437286 GGAAGCAAGC
*
102437296 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
102437314 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
102437333 A
1 A
102437334 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:102441034 original size:17 final size:17
Alignment explanation
Indices: 102441014--102441047 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
102441004 TTTTTCTCTT
102441014 AAAAATAATAAAAAATA
1 AAAAATAATAAAAAATA
*
102441031 AAAAATTATAAAAAATA
1 AAAAATAATAAAAAATA
102441048 TTTAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATAATAAAAAATA
Found at i:102441054 original size:18 final size:18
Alignment explanation
Indices: 102441016--102441092 Score: 59
Period size: 19 Copynumber: 4.2 Consensus size: 18
102441006 TTTCTCTTAA
* *
102441016 AAATAATAAAAAATA-AA
1 AAATTATAAAAAATATAT
*
102441033 AAATTATAAAAAATATTT
1 AAATTATAAAAAATATAT
* *
102441051 AAATTGATATAAACT-TAT
1 AAATT-ATAAAAAATATAT
102441069 AGATATTATAAAAAATATAAT
1 A-A-ATTATAAAAAATAT-AT
102441090 AAA
1 AAA
102441093 ACTAATAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 14 0.30
18 8 0.17
19 16 0.35
20 5 0.11
21 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATTATAAAAAATATAT
Found at i:102441447 original size:16 final size:18
Alignment explanation
Indices: 102441426--102441462 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
102441416 CAGTTCAATT
102441426 AAATAAAAAAT-TAA-AA
1 AAATAAAAAATATAATAA
102441442 AAATAAAAAATATAATAA
1 AAATAAAAAATATAATAA
102441460 AAA
1 AAA
102441463 AAGTTGGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 3 0.16
18 5 0.26
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATAAAAAATATAATAA
Found at i:102441590 original size:8 final size:9
Alignment explanation
Indices: 102441578--102441781 Score: 76
Period size: 9 Copynumber: 21.6 Consensus size: 9
102441568 CCAATTTAAG
*
102441578 TTTTTATGA
1 TTTTTATAA
102441587 TTTTTATAA
1 TTTTTATAA
*
102441596 TTTTATTTCAA
1 TTTT-TAT-AA
* *
102441607 TTTTAATAC
1 TTTTTATAA
*
102441616 TTTTAAT-A
1 TTTTTATAA
*
102441624 TTTTTATGAC
1 TTTTTAT-AA
* *
102441634 GTTTTATGA
1 TTTTTATAA
*
102441643 TTTTTTTAGTA
1 TTTTTATA--A
*
102441654 TTTTAATACA
1 TTTTTATA-A
102441664 TTTTTATAA
1 TTTTTATAA
*
102441673 TATTTTAAATA
1 T-TTTTATA-A
102441684 TGTTTTATTAA
1 T-TTTTA-TAA
102441695 -TTTTATAA
1 TTTTTATAA
102441703 TTTATTATAA
1 TTT-TTATAA
* *
102441713 ATTTTA-CA
1 TTTTTATAA
102441721 TCTTTTATAA
1 T-TTTTATAA
*
102441731 TATTTAT-A
1 TTTTTATAA
*
102441739 TTTTTTTAA
1 TTTTTATAA
*
102441748 GTTTATATCAA
1 -TTTTTAT-AA
* *
102441759 TTTTCATAT
1 TTTTTATAA
102441768 TTTTTGA-AA
1 TTTTT-ATAA
102441777 TTTTT
1 TTTTT
102441782 TTCTGATTTT
Statistics
Matches: 143, Mismatches: 35, Indels: 34
0.67 0.17 0.16
Matches are distributed among these distances:
8 16 0.11
9 59 0.41
10 44 0.31
11 23 0.16
12 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:102441646 original size:47 final size:46
Alignment explanation
Indices: 102441578--102441667 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 46
102441568 CCAATTTAAG
*
102441578 TTTTTATGATTTTTATAATTTTATTTCA-ATTTTAATAC-TTTTAATA
1 TTTTTATGAGTTTTATAATTTT-TTT-AGATTTTAATACATTTTAATA
*
102441624 TTTTTATGACGTTTTATGATTTTTTTAGTATTTTAATACATTTT
1 TTTTTATGA-GTTTTATAATTTTTTTAG-ATTTTAATACATTTT
102441668 TATAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
45 1 0.03
46 12 0.32
47 21 0.55
48 4 0.11
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (46 bp):
TTTTTATGAGTTTTATAATTTTTTTAGATTTTAATACATTTTAATA
Found at i:102441678 original size:10 final size:10
Alignment explanation
Indices: 102441652--102441735 Score: 54
Period size: 10 Copynumber: 8.5 Consensus size: 10
102441642 ATTTTTTTAG
102441652 TATTTTAATACA
1 TATTTT-ATA-A
102441664 T-TTTTATAA
1 TATTTTATAA
102441673 TATTTTA-AA
1 TATTTTATAA
*
102441682 TATGTTT-TAT
1 TAT-TTTATAA
102441692 TAATTTTATAA
1 T-ATTTTATAA
102441703 T-TTATTATAA
1 TATT-TTATAA
*
102441713 -ATTTTA-CA
1 TATTTTATAA
*
102441721 TCTTTTATAA
1 TATTTTATAA
102441731 TATTT
1 TATTT
102441736 ATATTTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
8 1 0.02
9 17 0.30
10 29 0.51
11 9 0.16
12 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (10 bp):
TATTTTATAA
Found at i:102441689 original size:21 final size:20
Alignment explanation
Indices: 102441642--102441735 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
102441632 ACGTTTTATG
* *
102441642 ATTTTTTTAGTATTTTAATAC
1 ATTTTTATAATATTTTAA-AC
*
102441663 ATTTTTATAATATTTTAAAT
1 ATTTTTATAATATTTTAAAC
* *
102441683 ATGTTTTATTA-ATTTTATA-
1 AT-TTTTATAATATTTTAAAC
102441702 ATTTATTATAA-ATTTT--AC
1 ATTT-TTATAATATTTTAAAC
102441720 ATCTTTTATAATATTT
1 AT-TTTTATAATATTT
102441736 ATATTTTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.02
18 10 0.16
19 18 0.29
20 10 0.16
21 23 0.37
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTATAATATTTTAAAC
Found at i:102447858 original size:9 final size:9
Alignment explanation
Indices: 102447840--102447877 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
102447830 TGAGTTTTCG
102447840 AATTCAAAT
1 AATTCAAAT
*
102447849 AATTCGAAT
1 AATTCAAAT
102447858 AATTCAAAT
1 AATTCAAAT
*
102447867 AATTCGAAT
1 AATTCAAAT
102447876 AA
1 AA
102447878 ATTGAATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (9 bp):
AATTCAAAT
Found at i:102447885 original size:18 final size:18
Alignment explanation
Indices: 102447840--102447877 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
102447830 TGAGTTTTCG
102447840 AATTCAAATAATTCGAAT
1 AATTCAAATAATTCGAAT
102447858 AATTCAAATAATTCGAAT
1 AATTCAAATAATTCGAAT
102447876 AA
1 AA
102447878 ATTGAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
AATTCAAATAATTCGAAT
Found at i:102448401 original size:17 final size:17
Alignment explanation
Indices: 102448381--102448424 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
102448371 TCACGTTTAT
*
102448381 ATTATTTATAATATTGA
1 ATTATTTATAATACTGA
*
102448398 ATTATTTAGTCATACTGA
1 ATTATTTA-TAATACTGA
102448416 A-TATTTATA
1 ATTATTTATA
102448425 TTAAAATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 14 0.61
18 8 0.35
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (17 bp):
ATTATTTATAATACTGA
Found at i:102450221 original size:10 final size:10
Alignment explanation
Indices: 102450202--102450233 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
102450192 ATTTAGGATT
102450202 TTAT-TTTAA
1 TTATCTTTAA
102450211 TTATCTTTAA
1 TTATCTTTAA
102450221 TTATCTTTAA
1 TTATCTTTAA
102450231 TTA
1 TTA
102450234 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:102451339 original size:10 final size:9
Alignment explanation
Indices: 102451324--102451403 Score: 54
Period size: 9 Copynumber: 8.4 Consensus size: 9
102451314 TTTTCTCCTT
102451324 AAAAATCATA
1 AAAAAT-ATA
*
102451334 AAAAATACA
1 AAAAATATA
*
102451343 AAAAATATT
1 AAAAATATA
102451352 AAAAATGATA
1 AAAAAT-ATA
**
102451362 TAAACTTATA
1 -AAAAATATA
* *
102451372 AATATTAT-
1 AAAAATATA
102451380 AAAAATATA
1 AAAAATATA
102451389 ATAAAATAATA
1 A-AAAAT-ATA
102451400 AAAA
1 AAAA
102451404 TTATTTAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
8 6 0.11
9 22 0.40
10 19 0.35
11 8 0.15
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:102451402 original size:19 final size:18
Alignment explanation
Indices: 102451323--102451404 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 18
102451313 ATTTTCTCCT
102451323 TAAAAATCATAAAAAATACA
1 TAAAAAT-ATAAAAAATA-A
* *
102451343 -AAAAATATTAAAAATGA
1 TAAAAATATAAAAAATAA
* * *
102451360 TATAAACT-TATAAATATTA
1 TA-AAAATATA-AAAAATAA
102451379 TAAAAATATAATAAAATAA
1 TAAAAATATAA-AAAATAA
102451398 TAAAAAT
1 TAAAAAT
102451405 TATTTAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
17 1 0.02
18 15 0.31
19 32 0.67
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (18 bp):
TAAAAATATAAAAAATAA
Found at i:102451467 original size:8 final size:9
Alignment explanation
Indices: 102451371--102451468 Score: 51
Period size: 9 Copynumber: 10.4 Consensus size: 9
102451361 ATAAACTTAT
102451371 AAATATTATAA
1 AAATATT-T-A
*
102451382 AAATATAATA
1 AAATAT-TTA
* *
102451392 AAATAATAA
1 AAATATTTA
102451401 AAATTATTTA
1 AAA-TATTTA
102451411 AAATATTTA
1 AAATATTTA
102451420 AAATA---A
1 AAATATTTA
102451426 AAATATATTA
1 AAATAT-TTA
* *
102451436 GAATTTTTTTAA
1 -AA-ATATTT-A
102451448 AAATATTTA
1 AAATATTTA
102451457 AAATA-TTA
1 AAATATTTA
102451465 AAAT
1 AAAT
102451469 TGATATCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
6 6 0.09
8 7 0.10
9 21 0.31
10 18 0.26
11 13 0.19
12 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (9 bp):
AAATATTTA
Found at i:102451974 original size:10 final size:10
Alignment explanation
Indices: 102451959--102452027 Score: 93
Period size: 10 Copynumber: 6.9 Consensus size: 10
102451949 TACCTTTTCA
102451959 CGGTGGCCGG
1 CGGTGGCCGG
102451969 CGGTGGCCGG
1 CGGTGGCCGG
*
102451979 CAGTGGCCGG
1 CGGTGGCCGG
102451989 CGGTGGCCGG
1 CGGTGGCCGG
*
102451999 CAGTGGCCGG
1 CGGTGGCCGG
* *
102452009 CGATGGGCGG
1 CGGTGGCCGG
*
102452019 CGGCGGCCG
1 CGGTGGCCG
102452028 ACGATCGGCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 50 1.00
ACGTcount: A:0.04, C:0.30, G:0.57, T:0.09
Consensus pattern (10 bp):
CGGTGGCCGG
Found at i:102452026 original size:20 final size:20
Alignment explanation
Indices: 102451961--102452039 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
102451951 CCTTTTCACG
*
102451961 GTGGCCGGCGGTGGCCGGCA
1 GTGGCCGGCGATGGCCGGCA
*
102451981 GTGGCCGGCGGTGGCCGGCA
1 GTGGCCGGCGATGGCCGGCA
* *
102452001 GTGGCCGGCGATGGGCGGCG
1 GTGGCCGGCGATGGCCGGCA
* *
102452021 GCGGCCGACGATCGGCCGG
1 GTGGCCGGCGAT-GGCCGG
102452040 TGACCGGCCC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 47 0.90
21 5 0.10
ACGTcount: A:0.06, C:0.30, G:0.54, T:0.09
Consensus pattern (20 bp):
GTGGCCGGCGATGGCCGGCA
Found at i:102452105 original size:22 final size:22
Alignment explanation
Indices: 102452075--102452124 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
102452065 TCCTTTTCCC
*
102452075 CCCTCCCTTCTCTCTTCTTTCT
1 CCCTTCCTTCTCTCTTCTTTCT
* * *
102452097 CCCTTCCTTTTTTTTTCTTTCT
1 CCCTTCCTTCTCTCTTCTTTCT
*
102452119 CTCTTC
1 CCCTTC
102452125 AAAATGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (22 bp):
CCCTTCCTTCTCTCTTCTTTCT
Found at i:102452452 original size:11 final size:11
Alignment explanation
Indices: 102452428--102452470 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
102452418 TTCTAATACG
*
102452428 TATATATATTA
1 TATATATTTTA
*
102452439 TATGTATTTTA
1 TATATATTTTA
* *
102452450 TATATATTATG
1 TATATATTTTA
102452461 TATATATTTT
1 TATATATTTT
102452471 TTTAATGCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:102454186 original size:10 final size:10
Alignment explanation
Indices: 102454138--102454292 Score: 76
Period size: 10 Copynumber: 15.8 Consensus size: 10
102454128 ATATCAATTT
102454138 TAATATTTCTA
1 TAATATTT-TA
* *
102454149 AAAAATTTTA
1 TAATATTTTA
* *
102454159 TGATGTTTTA
1 TAATATTTTA
*
102454169 TGAT-TTTTA
1 TAATATTTTA
102454178 TAATATTTTA
1 TAATATTTTA
*
102454188 -ATACATTTTA
1 TA-ATATTTTA
*
102454198 TAAAACTTTTA
1 TAATA-TTTTA
102454209 -AATATGTTT-
1 TAATAT-TTTA
*
102454218 TATTAATTTTA
1 TAAT-ATTTTA
102454229 TAAT-TTATTA
1 TAATATT-TTA
*
102454239 -GA-ATTTTA
1 TAATATTTTA
102454247 T-ATATTTTA
1 TAATATTTTA
* *
102454256 TAACAATTT-
1 TAATATTTTA
*
102454265 TCATATTTTA
1 TAATATTTTA
*
102454275 TAATATTTAA
1 TAATATTTTA
102454285 TAATATTT
1 TAATATTT
102454293 ATATCTTTTG
Statistics
Matches: 110, Mismatches: 20, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
8 4 0.04
9 28 0.25
10 61 0.55
11 17 0.15
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (10 bp):
TAATATTTTA
Found at i:102454198 original size:20 final size:18
Alignment explanation
Indices: 102454173--102454310 Score: 70
Period size: 20 Copynumber: 7.2 Consensus size: 18
102454163 GTTTTATGAT
102454173 TTTTATAATATTTTAATACA
1 TTTTATAA-ATTTTAATA-A
*
102454193 TTTTATAAAACTTTTAAATATG
1 TTTTAT-AAA-TTTT-AATA-A
*
102454215 TTTTATTAATTTT-ATAA
1 TTTTATAAATTTTAATAA
102454232 -TTTATTAGAATTTT-ATATA
1 TTTTA-TA-AATTTTAATA-A
*
102454251 TTTTATAACAATTTTCAT-A
1 TTTTAT-A-AATTTTAATAA
102454270 TTTTAT-AATATTTAATAA
1 TTTTATAAAT-TTTAATAA
** *
102454288 TATTTATATCTTTTGATAA
1 T-TTTATAAATTTTAATAA
102454307 TTTT
1 TTTT
102454311 TCTGTTTTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
16 7 0.07
17 6 0.06
18 17 0.18
19 22 0.23
20 23 0.24
21 10 0.11
22 10 0.11
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTATAAATTTTAATAA
Found at i:102463060 original size:18 final size:15
Alignment explanation
Indices: 102463022--102463051 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
102463012 ATGAAGAGAA
102463022 ATATGTGAAATAATG
1 ATATGTGAAATAATG
102463037 ATATGTGAAATAATG
1 ATATGTGAAATAATG
102463052 TACATATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
ATATGTGAAATAATG
Found at i:102463736 original size:22 final size:21
Alignment explanation
Indices: 102463708--102463772 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
102463698 CTTATCGTTC
102463708 TGCACTTCAGTGCCTACTGTTT
1 TGCACTTC-GTGCCTACTGTTT
* * *
102463730 TGCACTTCGATGCTTAGTGATT
1 TGCACTTCG-TGCCTACTGTTT
*
102463752 TGCACTTTGGTGCCTACTGTT
1 TGCAC-TTCGTGCCTACTGTT
102463773 CTATTAGTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.88
23 3 0.09
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (21 bp):
TGCACTTCGTGCCTACTGTTT
Found at i:102465870 original size:26 final size:26
Alignment explanation
Indices: 102465832--102465916 Score: 152
Period size: 26 Copynumber: 3.3 Consensus size: 26
102465822 TTGATACAAA
* *
102465832 ATGATAATAGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTTC
102465858 ATGATAATGGGTTAGGTAAATGTTTC
1 ATGATAATGGGTTAGGTAAATGTTTC
102465884 ATGATAATGGGTTAGGTAAATGTTTC
1 ATGATAATGGGTTAGGTAAATGTTTC
102465910 ATGATAA
1 ATGATAA
102465917 GAATTTCATG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
ATGATAATGGGTTAGGTAAATGTTTC
Found at i:102471519 original size:26 final size:26
Alignment explanation
Indices: 102471439--102471522 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
102471429 CATGAAATTC
102471439 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
102471465 ATATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
102471491 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
102471517 TTATCA
1 TTATCA
102471523 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:102484421 original size:14 final size:13
Alignment explanation
Indices: 102484398--102484427 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
102484388 AACAGAAGGC
102484398 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
102484411 AAAAGACAAGAAAG
1 AAAAGA-AAGAAAG
102484425 AAA
1 AAA
102484428 CATAACGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:102484864 original size:25 final size:25
Alignment explanation
Indices: 102484813--102484869 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
102484803 TTTTTAAAGC
*
102484813 TTTTTTAATGTTTATAATTAATAAA
1 TTTTTTAATGTTTATAATCAATAAA
* * *
102484838 TTTTTTAAGTTTTTCTAATCAATAAT
1 TTTTTTAA-TGTTTATAATCAATAAA
102484864 TTTTTT
1 TTTTTT
102484870 TGCTTATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTTTAATGTTTATAATCAATAAA
Found at i:102507226 original size:29 final size:29
Alignment explanation
Indices: 102507193--102507251 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
102507183 ATGGTTTAAC
* * *
102507193 GTGCAATTGTGTACATGAACTTTTGTTTT
1 GTGCAATTGTATACATGAAATTTTGATTT
*
102507222 GTGCAATTTTATACATGAAATTTTGATTT
1 GTGCAATTGTATACATGAAATTTTGATTT
102507251 G
1 G
102507252 ATTCAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.47
Consensus pattern (29 bp):
GTGCAATTGTATACATGAAATTTTGATTT
Found at i:102511142 original size:20 final size:20
Alignment explanation
Indices: 102511113--102511153 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
102511103 TTACATTCTC
* * *
102511113 TTCTCTTTCTCTATTTGTTT
1 TTCTCCTTCTCCATTTCTTT
102511133 TTCTCCTTCTCCATTTCTTT
1 TTCTCCTTCTCCATTTCTTT
102511153 T
1 T
102511154 GACGTAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.27, G:0.02, T:0.66
Consensus pattern (20 bp):
TTCTCCTTCTCCATTTCTTT
Found at i:102532446 original size:26 final size:25
Alignment explanation
Indices: 102532401--102532460 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
102532391 ACCAAACACC
102532401 TTAAAAA-ATAATAGAAAATACAAAT
1 TTAAAAATATAATAGAAAATA-AAAT
* *
102532426 TTAAAAATATAATATATAATAAAAT
1 TTAAAAATATAATAGAAAATAAAAT
*
102532451 TATACAAATA
1 T-TAAAAATA
102532461 ATTTAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (25 bp):
TTAAAAATATAATAGAAAATAAAAT
Found at i:102535550 original size:52 final size:52
Alignment explanation
Indices: 102535491--102535644 Score: 157
Period size: 52 Copynumber: 2.9 Consensus size: 52
102535481 GACGGAAAAG
* * *
102535491 ATGTGATATGTGCTTCCATGTAAGACCATAACTGGGCTATGGCATCGGTGCA
1 ATGTGATATGTGATTCCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
** * * ** **
102535543 ATGTGATACAT-ATTCCCGTATAAGACCATAGCTGGGCTATGGCTTTAGTGTG
1 ATGTGATATGTGATT-CCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
* * *
102535595 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAACTGGGCTATGGCATCGGT
102535645 ATGATATGTG
Statistics
Matches: 80, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
51 2 0.03
52 45 0.56
53 30 0.38
54 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
Found at i:102543051 original size:46 final size:49
Alignment explanation
Indices: 102542878--102543087 Score: 128
Period size: 52 Copynumber: 4.2 Consensus size: 49
102542868 GGAAAAGATG
* ** * * *
102542878 TGATATGTGTTTCCATATAAGACCATAGCTGGGCTATGG-TATCGGTGCAA
1 TGATATGTGATTCTGTATAAGACCATAGCAGGGATATGGCTATC-GTG-TA
** * *
102542928 TG-TGATGCATG-TTCTCGTATAAGACCATAGTTGGGCTATAGCT-TCAGTGTGA
1 TGAT-ATG--TGATTCT-GTATAAGACCATAGCAGGGATATGGCTATC-GTGT-A
* *
102542980 TGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGC-ATCG-GTA
1 --TGAT-ATGTGATTCTGTATAAGACCATAGCAGGGATATGGCTATCGTGTA
* * * *
102543030 TGATATGTGA-TCTGTGTAAGACCATAGCAGGGCTATGGCTTTGGTGTA
1 TGATATGTGATTCTGTATAAGACCATAGCAGGGATATGGCTATCGTGTA
102543078 TGATATGTGA
1 TGATATGTGA
102543088 CAATGTGCAA
Statistics
Matches: 130, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
46 25 0.19
47 8 0.06
48 17 0.13
49 1 0.01
50 6 0.05
51 5 0.04
52 31 0.24
53 27 0.21
54 6 0.05
55 4 0.03
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (49 bp):
TGATATGTGATTCTGTATAAGACCATAGCAGGGATATGGCTATCGTGTA
Found at i:102556403 original size:46 final size:46
Alignment explanation
Indices: 102556336--102556464 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
102556326 TGTAACCCGC
* ** * * *
102556336 CCATAAGCGAACTTAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
102556382 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
102556428 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
102556465 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:102558972 original size:25 final size:26
Alignment explanation
Indices: 102558944--102558999 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
102558934 GTTTTTCTGC
102558944 ATAACA-TGTAAGAGTATTGTCAAAT
1 ATAACATTGTAAGAGTATTGTCAAAT
* *
102558969 ATAATATTTTTAAGAGTATTGTCAAAT
1 ATAACA-TTGTAAGAGTATTGTCAAAT
102558996 ATAA
1 ATAA
102559000 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 5 0.19
27 22 0.81
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (26 bp):
ATAACATTGTAAGAGTATTGTCAAAT
Found at i:102558982 original size:27 final size:27
Alignment explanation
Indices: 102558952--102559006 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
102558942 GCATAACATG
102558952 TAAGAGTATTGTCAAATATAATATTTT
1 TAAGAGTATTGTCAAATATAATATTTT
102558979 TAAGAGTATTGTCAAATATAATATTTT
1 TAAGAGTATTGTCAAATATAATATTTT
102559006 T
1 T
102559007 TATTCACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (27 bp):
TAAGAGTATTGTCAAATATAATATTTT
Found at i:102559806 original size:14 final size:14
Alignment explanation
Indices: 102559789--102559819 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
102559779 AGTAAAATAT
102559789 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
102559803 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
102559817 TTT
1 TTT
102559820 ACTTTTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:102559860 original size:33 final size:33
Alignment explanation
Indices: 102559822--102559936 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 33
102559812 AATGATTTAC
102559822 TTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
1 TTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
*
102559855 TTTTCT-GTTGTTTGGCA--AATTACCTGCTGGCAAATGATTTA
1 TTTTCTAG-TGTTTGG-ATGAA-T--CTG-T-GTAAA--A--TA
102559896 CTTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
1 -TTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
102559930 TTTTCTA
1 TTTTCTA
102559937 TTGATTTACC
Statistics
Matches: 65, Mismatches: 2, Indels: 30
0.67 0.02 0.31
Matches are distributed among these distances:
32 3 0.05
33 21 0.32
34 3 0.05
35 3 0.05
36 2 0.03
37 4 0.06
38 4 0.06
39 2 0.03
40 3 0.05
41 3 0.05
42 14 0.22
43 3 0.05
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.46
Consensus pattern (33 bp):
TTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
Found at i:102562413 original size:21 final size:21
Alignment explanation
Indices: 102562384--102562444 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
102562374 TAAGATAAGC
*
102562384 CAACTTTGAAAATGGCTTCTT
1 CAACATTGAAAATGGCTTCTT
102562405 CAACATTGAAAATGGCTTCTT
1 CAACATTGAAAATGGCTTCTT
102562426 CAACATTGAAAATGGCTTC
1 CAACATTGAAAATGGCTTC
102562445 GGTTCTCCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (21 bp):
CAACATTGAAAATGGCTTCTT
Found at i:102562637 original size:19 final size:20
Alignment explanation
Indices: 102562602--102562647 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
102562592 TGAAAAATGA
102562602 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
102562622 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATAATTTACT
102562641 TTTCTGG
1 TTTCTGG
102562648 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Done.