Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 285 of 378
Found at i:85945612 original size:13 final size:12
Alignment explanation
Indices: 85945572--85945615 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
85945562 TTTTCACTTC
85945572 AATTTTTTTTCG
1 AATTTTTTTTCG
** *
85945584 GTTTTTTTTTTG
1 AATTTTTTTTCG
85945596 AATTTTTTTTCG
1 AATTTTTTTTCG
85945608 AAATTTTT
1 -AATTTTT
85945616 AAAAATTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 18 0.72
13 7 0.28
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (12 bp):
AATTTTTTTTCG
Found at i:85946794 original size:17 final size:17
Alignment explanation
Indices: 85946770--85946831 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
85946760 ACCTCAATTC
85946770 TACA-TGCACCTCTTCA
1 TACATTGCACCTCTTCA
**** *
85946786 TACATTGCACCAAGCCC
1 TACATTGCACCTCTTCA
*
85946803 TACATGAGCACCTCTTCA
1 TACAT-TGCACCTCTTCA
85946821 TACATTGCACC
1 TACATTGCACC
85946832 AAGCCCTACA
Statistics
Matches: 32, Mismatches: 12, Indels: 3
0.68 0.26 0.06
Matches are distributed among these distances:
16 4 0.12
17 17 0.53
18 11 0.34
ACGTcount: A:0.27, C:0.37, G:0.10, T:0.26
Consensus pattern (17 bp):
TACATTGCACCTCTTCA
Found at i:85946816 original size:35 final size:35
Alignment explanation
Indices: 85946775--85946844 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
85946765 AATTCTACAT
85946775 GCACCTCTTCATACATTGCACCAAGCCCTACATGA
1 GCACCTCTTCATACATTGCACCAAGCCCTACATGA
85946810 GCACCTCTTCATACATTGCACCAAGCCCTACATGA
1 GCACCTCTTCATACATTGCACCAAGCCCTACATGA
85946845 ACTTGTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.37, G:0.11, T:0.23
Consensus pattern (35 bp):
GCACCTCTTCATACATTGCACCAAGCCCTACATGA
Found at i:85946841 original size:17 final size:17
Alignment explanation
Indices: 85946786--85946842 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
85946776 CACCTCTTCA
85946786 TACATTGCACCAAGCCC
1 TACATTGCACCAAGCCC
* **** *
85946803 TACATGAGCACCTCTTCA
1 TACAT-TGCACCAAGCCC
85946821 TACATTGCACCAAGCCC
1 TACATTGCACCAAGCCC
85946838 TACAT
1 TACAT
85946843 GAACTTGTAT
Statistics
Matches: 27, Mismatches: 12, Indels: 2
0.66 0.29 0.05
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.30, C:0.37, G:0.11, T:0.23
Consensus pattern (17 bp):
TACATTGCACCAAGCCC
Found at i:85950656 original size:18 final size:18
Alignment explanation
Indices: 85950633--85950668 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
85950623 TTTAATGTGT
*
85950633 TATAAATTACATAATATA
1 TATAAATAACATAATATA
85950651 TATAAATAACATAATATA
1 TATAAATAACATAATATA
85950669 AAGTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAAATAACATAATATA
Found at i:85951678 original size:16 final size:15
Alignment explanation
Indices: 85951657--85951712 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
85951647 CAAGAGAAAG
85951657 TAATTTAAAATTAAAA
1 TAATTTAAAA-TAAAA
85951673 TAATTT-AAATAAAA
1 TAATTTAAAATAAAA
* *
85951687 CAA-CTAACAATAAAA
1 TAATTTAA-AATAAAA
85951702 TAATTTAAAAT
1 TAATTTAAAAT
85951713 TAAACCCGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 1 0.03
14 8 0.24
15 15 0.45
16 9 0.27
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATTTAAAATAAAA
Found at i:85960191 original size:2 final size:2
Alignment explanation
Indices: 85960184--85960215 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
85960174 CATAAATCAC
85960184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85960216 CATGTACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85962200 original size:53 final size:53
Alignment explanation
Indices: 85962034--85962225 Score: 179
Period size: 53 Copynumber: 3.6 Consensus size: 53
85962024 AGAATACCAA
* * * * *
85962034 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAAT-CAT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAGG-ATTCCAT
* * * * * * * * *
85962088 GTAAGACAATGTCAAGACATGACATTGATAAACTATGATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TCATAAGGCAAGGATTCCAT
* * *
85962143 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATTCCAC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAGGATTCCAT
*
85962196 GTAAGACCATGTCAAGACATGGCAATGGTA
1 GTAAGACCATGCCAAGACATGGCAATGGTA
85962226 TGTTTAAAAA
Statistics
Matches: 109, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
53 43 0.39
54 28 0.26
55 38 0.35
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAGGATTCCAT
Found at i:85964018 original size:39 final size:39
Alignment explanation
Indices: 85963974--85964091 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
85963964 GATGTGTATG
85963974 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
85964013 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCG
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
85964052 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
85964092 TTTGTGCGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
39 64 0.88
40 9 0.12
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:85964097 original size:40 final size:39
Alignment explanation
Indices: 85963976--85964135 Score: 187
Period size: 39 Copynumber: 4.1 Consensus size: 39
85963966 TGTGTATGAA
**
85963976 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCATT
85964015 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCGA-T
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC-ATT
* *
85964054 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCATT
** * * * * *
85964094 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCATT
85964134 TG
1 TG
85964136 AACGAGTAGC
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 62 0.57
40 46 0.43
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCATT
Found at i:85964115 original size:79 final size:79
Alignment explanation
Indices: 85963976--85964131 Score: 206
Period size: 79 Copynumber: 2.0 Consensus size: 79
85963966 TGTGTATGAA
* * *
85963976 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTATCATAACCGGGCTAA
85964041 G-CCCGAAGGCGAT
66 GTCCCGAAGGCGAT
* * ** **
85964054 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAATGTGCGAATTATCATAACCGGGCTA
*
85964119 TGTCCCGAAGGCG
65 AGTCCCGAAGGCG
85964132 TTTGAACGAG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
78 25 0.38
79 31 0.47
80 10 0.15
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTATCATAACCGGGCTAA
GTCCCGAAGGCGAT
Found at i:85965538 original size:14 final size:14
Alignment explanation
Indices: 85965519--85965545 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85965509 TCTTGGGTTC
85965519 GGGGTGTTACATTA
1 GGGGTGTTACATTA
85965533 GGGGTGTTACATT
1 GGGGTGTTACATT
85965546 TATTAGTATC
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:0.19, C:0.07, G:0.37, T:0.37
Consensus pattern (14 bp):
GGGGTGTTACATTA
Found at i:85972851 original size:53 final size:54
Alignment explanation
Indices: 85972651--85972850 Score: 228
Period size: 55 Copynumber: 3.7 Consensus size: 54
85972641 ATAAGTATAT
* * * * *
85972651 CATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGATAC
*
85972705 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-T-C
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGGC-AAGGATAC
* * *
85972759 GCATGTAAGACCATG-CAAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 -CATGTAAGACCATGTC-AAGACATGGCATTGATAAGTTCTATAAGGCAAGGATAC
* * *
85972813 CACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTC
85972851 AAAAAGGAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
52 4 0.03
53 40 0.31
54 37 0.29
55 42 0.33
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGATAC
Found at i:85976615 original size:44 final size:44
Alignment explanation
Indices: 85976567--85976655 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
85976557 GCTAATAAAG
85976567 TATAAACAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
1 TATAAACAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
*
85976611 TATAAATAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
1 TATAAACAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
85976655 T
1 T
85976656 CAGCTTGGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (44 bp):
TATAAACAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
Found at i:85979396 original size:55 final size:54
Alignment explanation
Indices: 85979275--85979464 Score: 215
Period size: 55 Copynumber: 3.5 Consensus size: 54
85979265 GACAAGAATG
* * * *
85979275 CCATGTAAGACCATGCCAAGGCATGGCATTGATAAATTCTATAAGGCAAGGAAA
1 CCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATA
* * ** * *
85979329 TCTTGTAAGACCATGTTAAGACAGGGCATTGATGAGTTACTATAAGGCAAAGG-TC
1 CCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATA
* *
85979384 CCATGTAAGACCATGCCAA-AGCATGGCATTGGTGAGGTC-ATAAGGCAAGGATA
1 CCATGTAAGACCATGCCAAGA-CATGGCATTGATGAGTTCTATAAGGCAAGGATA
*
85979437 CCATGTAAGACCATGTCAAGACATGGCA
1 CCATGTAAGACCATGCCAAGACATGGCA
85979465 ATGGTAAGTT
Statistics
Matches: 112, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
52 4 0.04
53 33 0.29
54 33 0.29
55 38 0.34
56 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
CCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATA
Found at i:85983488 original size:53 final size:54
Alignment explanation
Indices: 85983359--85983500 Score: 169
Period size: 53 Copynumber: 2.6 Consensus size: 54
85983349 TACAAGGCAT
* * * * * *
85983359 GTAAGACCATGTCAAGACATGGCATTGATACACTACGATAAGGCAAAGATCCCAT
1 GTAAGACCATGTCAAGACATGGCAATGGTA-AGTTCGATAAGGCAAAGATACCAC
* * * *
85983414 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGGATACCAC
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTCGATAAGGCAAAGATACCAC
*
85983467 GTAAAACCATGTCAAGACATGGCAATGGTAAGTT
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTT
85983501 TGGAAAGGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 45 0.62
54 3 0.04
55 25 0.34
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (54 bp):
GTAAGACCATGTCAAGACATGGCAATGGTAAGTTCGATAAGGCAAAGATACCAC
Found at i:85987821 original size:15 final size:14
Alignment explanation
Indices: 85987795--85987824 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
85987785 ATCATTTAAC
85987795 ATGTAATTAACATA
1 ATGTAATTAACATA
85987809 ATGTAAGTTAACATA
1 ATGTAA-TTAACATA
85987824 A
1 A
85987825 ATGCTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (14 bp):
ATGTAATTAACATA
Found at i:85987904 original size:164 final size:162
Alignment explanation
Indices: 85987614--85987944 Score: 398
Period size: 164 Copynumber: 2.0 Consensus size: 162
85987604 TAATAACCAT
* * * *
85987614 CATAACCAAACAATTAACATACAATTAACATGATGAAGATTAGCATGAATGTTATCAAAATCTCA
1 CATAACCAAACAATTAACATACAATTAACATAATGAAGATTAACATAAATGCTATCAAAATCTCA
* * *
85987679 TAGTCATAACTTACTCGATCACAATCCCATCAAGAGTTCATCACATAACGAGCTCATTACTTATG
66 TAATCATAACTTACTCAATCACAATCCCATCAAGAATTCATCACATAACGAGCTCATTACTTATG
**
85987744 A-GTTTTACGTGCATACCTGTACCAACTCGTAA
131 AGGTTTT-CGCACATACCTGTACCAACTCGTAA
* * ** *
85987776 CATAACCATATCATTTAACATGTAATTAACATAATGTAAG-TTAACATAAATGCTATTAAAATCT
1 CATAACCA-AACAATTAACATACAATTAACATAATG-AAGATTAACATAAATGCTATCAAAATCT
* * * * * *
85987840 CATAATCATAAATTTGCTCAATCACAA-CCTTATCGAGAATTCATCACATACCGAGTTCATTACT
64 CATAATCAT-AACTTACTCAATCACAATCC-CATCAAGAATTCATCACATAACGAGCTCATTACT
* *
85987904 TATGAGGTTTTTGCACATACTTGTACCAACTCGTAA
127 TATGAGGTTTTCGCACATACCTGTACCAACTCGTAA
85987940 CATAA
1 CATAA
85987945 TTACATCCTT
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
162 8 0.06
163 52 0.37
164 77 0.54
165 5 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (162 bp):
CATAACCAAACAATTAACATACAATTAACATAATGAAGATTAACATAAATGCTATCAAAATCTCA
TAATCATAACTTACTCAATCACAATCCCATCAAGAATTCATCACATAACGAGCTCATTACTTATG
AGGTTTTCGCACATACCTGTACCAACTCGTAA
Found at i:85991073 original size:23 final size:22
Alignment explanation
Indices: 85991041--85991084 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
85991031 TATAATCCAT
* *
85991041 ACCAAATCATGCCAAATCATAA
1 ACCAAATCATACCAAAACATAA
85991063 ACCAAAGTCATACCAAAACATA
1 ACCAAA-TCATACCAAAACATA
85991085 TGTTTCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.52, C:0.27, G:0.05, T:0.16
Consensus pattern (22 bp):
ACCAAATCATACCAAAACATAA
Found at i:85991867 original size:44 final size:44
Alignment explanation
Indices: 85991811--85991898 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
85991801 TTACACGAAA
* *
85991811 TCAAATACGATGCCGATGT-CTCAGACATGGTCTTAAACATAAATC
1 TCAAATACGATGCCAACGTCCT-AGACATGGTCTTAAACA-AAATC
*
85991856 TCAAAT-CGATGCCAACGTCCTAGACATGGTCTTACACAAAATC
1 TCAAATACGATGCCAACGTCCTAGACATGGTCTTAAACAAAATC
85991899 ACATATCGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 5 0.13
44 26 0.67
45 8 0.21
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (44 bp):
TCAAATACGATGCCAACGTCCTAGACATGGTCTTAAACAAAATC
Found at i:85998051 original size:20 final size:20
Alignment explanation
Indices: 85998026--85998069 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
85998016 ATTTTGATAA
85998026 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
85998046 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
85998066 ACAT
1 ACAT
85998070 TAGGTGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:85998154 original size:23 final size:23
Alignment explanation
Indices: 85998123--85998265 Score: 196
Period size: 23 Copynumber: 6.1 Consensus size: 23
85998113 AGGAAGTGCA
*
85998123 AAAGAGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
85998146 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
85998169 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
85998192 AAAGGGCTTATGCCTCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
**
85998216 AAAGGGCTTATGCCCCAGTTACAA
1 AAAGGGCTTATGCCCCAGTTA-TT
* *
85998240 AAAGGGCTTTTGCCCCAGTTACT
1 AAAGGGCTTATGCCCCAGTTATT
85998263 AAA
1 AAA
85998266 AGAGGCTAGG
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
23 68 0.63
24 40 0.37
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:86002833 original size:27 final size:26
Alignment explanation
Indices: 86002781--86002840 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
86002771 ATATATATAT
*
86002781 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
86002807 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
86002834 ATATCTG
1 ATATCTG
86002841 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:86018319 original size:93 final size:93
Alignment explanation
Indices: 86018207--86018378 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
86018197 CGCCCATAAG
* *
86018207 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86018272 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
86018300 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86018365 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
86018379 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:86018375 original size:46 final size:46
Alignment explanation
Indices: 86018200--86018375 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
86018190 TGTAACCCGC
* * *
86018200 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
86018246 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
86018296 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
86018339 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
86018376 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:86025848 original size:93 final size:93
Alignment explanation
Indices: 86025736--86025907 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
86025726 CCGCCCTAAG
* *
86025736 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86025801 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
86025829 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86025894 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
86025908 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:86025904 original size:46 final size:46
Alignment explanation
Indices: 86025732--86025904 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
86025722 TAACCCGCCC
* * *
86025732 TAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
86025778 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
*
86025826 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
86025871 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
86025905 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:86027484 original size:29 final size:29
Alignment explanation
Indices: 86027449--86027522 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
86027439 GTTGTGAGAT
* *
86027449 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
86027478 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
86027507 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
86027523 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:86035204 original size:29 final size:29
Alignment explanation
Indices: 86035169--86035242 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
86035159 GTTGTGAGAT
* *
86035169 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
86035198 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
86035227 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
86035243 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:86041473 original size:16 final size:16
Alignment explanation
Indices: 86041452--86041482 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
86041442 TTTTAATAAT
86041452 GGAATTGCAATATTTA
1 GGAATTGCAATATTTA
86041468 GGAATTGCAATATTT
1 GGAATTGCAATATTT
86041483 TCTATAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (16 bp):
GGAATTGCAATATTTA
Found at i:86041646 original size:114 final size:113
Alignment explanation
Indices: 86041446--86041788 Score: 548
Period size: 114 Copynumber: 3.0 Consensus size: 113
86041436 CATAAGTTTT
* *
86041446 AATAATGGAATTGCAATATTTAGGAATTGCAATATTTTCTATAATAGATGGATGTCAAATAATAT
1 AATAATGGAATTGCAATATTTAGAAATTGCAATATTTTCTGTAAT-GATGGATGTCAAATAATAT
* *
86041511 GTACTTTATCAAATCAAAGATGTACACATTGTTTGAGACTGAAATATCG
65 CTACTTTATCAAATCAAAGATGTACACATTGTTTGAGACTGAAATATAG
*
86041560 AATAATGGAATTGCAATATTTAGAAATTGTAATATTTTCTGTAATGGATGGATGTCAAATAATAT
1 AATAATGGAATTGCAATATTTAGAAATTGCAATATTTTCTGTAAT-GATGGATGTCAAATAATAT
* *
86041625 CTACTTTATCAAATCAAAGATGTACACATTGTTTGAGAGTGAAATATTG
65 CTACTTTATCAAATCAAAGATGTACACATTGTTTGAGACTGAAATATAG
* *
86041674 AATAATGGAATTGCAATATTTAGAAATTGCAATTTTTTCTGTAAT-A--GATGTCGAATAATATC
1 AATAATGGAATTGCAATATTTAGAAATTGCAATATTTTCTGTAATGATGGATGTCAAATAATATC
* *
86041736 TACTTTATCAAATCAAAGATGTACACATTATTTGATACTGAAATATAG
66 TACTTTATCAAATCAAAGATGTACACATTGTTTGAGACTGAAATATAG
86041784 AATAA
1 AATAA
86041789 AAGACTTAAA
Statistics
Matches: 215, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
110 64 0.30
112 1 0.00
114 150 0.70
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (113 bp):
AATAATGGAATTGCAATATTTAGAAATTGCAATATTTTCTGTAATGATGGATGTCAAATAATATC
TACTTTATCAAATCAAAGATGTACACATTGTTTGAGACTGAAATATAG
Found at i:86052583 original size:46 final size:46
Alignment explanation
Indices: 86052516--86052691 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
86052506 TGTAACCCGC
* * *
86052516 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGGGTTCGCAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
* ** * *
86052562 CCATAACTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAG-TT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGA-GATTCGCAT
* ** * * * *
86052608 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCAGACATTCGCAT
1 CCATAACT-GAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
* *
86052655 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGA
86052692 TGCCCAAACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
Found at i:86052652 original size:93 final size:93
Alignment explanation
Indices: 86052524--86052695 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
86052514 GCCCATAAGT
* ***
86052524 GAACTCGGACTCAACTCAACGAGCTCGGGGGTTCGCATCCATAACTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
*
86052589 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
86052617 GAACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
*
86052682 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
86052696 CAAACATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:86055127 original size:30 final size:30
Alignment explanation
Indices: 86055083--86055171 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
86055073 CAAAGATAAC
86055083 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
86055112 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
86055142 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
86055172 TGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:86055131 original size:15 final size:15
Alignment explanation
Indices: 86055083--86055162 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
86055073 CAAAGATAAC
*
86055083 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
86055097 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
86055112 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
86055127 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
86055142 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
86055157 AAGAAA
1 AAGAAA
86055163 CCCAAGATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:86055171 original size:15 final size:15
Alignment explanation
Indices: 86055094--86055171 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
86055084 AGAAAACCGA
86055094 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
86055109 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
86055123 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
86055138 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
86055154 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
86055169 ATA
1 ATA
86055172 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:86058173 original size:46 final size:46
Alignment explanation
Indices: 86058106--86058280 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
86058096 TGTAACCCGC
* *
86058106 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * *
86058152 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * ** *
86058202 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
86058245 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
86058281 ATGCCCAAAC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
46 61 0.58
47 25 0.24
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:86058220 original size:93 final size:93
Alignment explanation
Indices: 86058114--86058285 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
86058104 GCCCATAAAT
** * *
86058114 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
86058179 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
86058207 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
86058272 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
86058286 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:86058300 original size:46 final size:46
Alignment explanation
Indices: 86058113--86058300 Score: 136
Period size: 46 Copynumber: 4.1 Consensus size: 46
86058103 CGCCCATAAA
*** *
86058113 TGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCC-T-AG
* *
86058159 TGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--TACATC-CTAG
* * * * * * *
86058206 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT--AAG
1 TGAACTCGGACTCAACTCAACGAGCTCG--GATGCCCATACATCCTAG
* *
86058252 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCTAG
86058298 TGA
1 TGA
86058301 CATGTCACTT
Statistics
Matches: 111, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
44 8 0.07
46 60 0.54
47 29 0.26
48 3 0.03
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCTAG
Found at i:86061554 original size:18 final size:20
Alignment explanation
Indices: 86061513--86061557 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
86061503 TAATCCAAGC
* *
86061513 TCAATATCAGTCGATATTTT
1 TCAATATCAATCGATATTTG
86061533 TCAATATCAATC-A-ATTTG
1 TCAATATCAATCGATATTTG
86061551 TCAATAT
1 TCAATAT
86061558 TATGCAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 1 0.04
20 11 0.48
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.42
Consensus pattern (20 bp):
TCAATATCAATCGATATTTG
Found at i:86061583 original size:18 final size:18
Alignment explanation
Indices: 86061556--86061638 Score: 121
Period size: 18 Copynumber: 4.6 Consensus size: 18
86061546 ATTTGTCAAT
*
86061556 ATTATGCAGTAACAATCA
1 ATTATTCAGTAACAATCA
*
86061574 ATTATTCAGTAGCAATCA
1 ATTATTCAGTAACAATCA
86061592 ATTATTCAGTAACAATCA
1 ATTATTCAGTAACAATCA
*
86061610 ATTATTCAGTAACAGTCA
1 ATTATTCAGTAACAATCA
* *
86061628 GTCATTCAGTA
1 ATTATTCAGTA
86061639 CTTTTTTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
ATTATTCAGTAACAATCA
Found at i:86061757 original size:47 final size:44
Alignment explanation
Indices: 86061702--86061870 Score: 123
Period size: 47 Copynumber: 3.7 Consensus size: 44
86061692 ACCATCACAC
*
86061702 CAGT-ACAGTACGACACATAGTGCCTCATCGGCCAAGTCGAAGTAAA
1 CAGTAACAGTACGACACATAGTGCCTCATCGG--AAATCGAAGT-AA
* * *
86061748 CAGTAACAGTACGATAC-TCAGTACCTCATCGGATTAAACCGAAGTAA
1 CAGTAACAGTACGACACAT-AGTGCCTCATCGG---AAATCGAAGTAA
* * *
86061795 CAGTAGCAGTACGACACACATGGTGCCTCATC-G-ACTCGAAGTCAA
1 CAGTAACAGTACG--ACACATAGTGCCTCATCGGAAATCGAAGT-AA
*
86061840 -AGTAATAGTACGACACTTATAGTGCCTCATC
1 CAGTAACAGTACGACAC--ATAGTGCCTCATC
86061871 AAATCAAGGT
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.04
44 29 0.29
45 2 0.02
46 5 0.05
47 37 0.37
48 9 0.09
49 12 0.12
50 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (44 bp):
CAGTAACAGTACGACACATAGTGCCTCATCGGAAATCGAAGTAA
Found at i:86062879 original size:17 final size:17
Alignment explanation
Indices: 86062857--86062893 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
86062847 AATCCCTAAT
*
86062857 TTTCCTTTCTTTCTTTC
1 TTTCCTTTCTTTCCTTC
86062874 TTTCCTTTCTTTCCTTC
1 TTTCCTTTCTTTCCTTC
86062891 TTT
1 TTT
86062894 TCTTCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTCCTTTCTTTCCTTC
Found at i:86062881 original size:9 final size:9
Alignment explanation
Indices: 86062857--86062893 Score: 60
Period size: 8 Copynumber: 4.3 Consensus size: 9
86062847 AATCCCTAAT
86062857 TTTCCTTTC
1 TTTCCTTTC
86062866 TTT-CTTTC
1 TTTCCTTTC
86062874 TTTCCTTTC
1 TTTCCTTTC
86062883 TTTCC-TTC
1 TTTCCTTTC
86062891 TTT
1 TTT
86062894 TCTTCTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTCCTTTC
Found at i:86064521 original size:16 final size:15
Alignment explanation
Indices: 86064494--86064538 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
86064484 AAAGCCCATA
86064494 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
86064509 ATAAAGAAAATCCATG
1 ATAAAG-AAATCCAAG
*
86064525 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
86064539 TTTACAGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:86066605 original size:16 final size:15
Alignment explanation
Indices: 86066578--86066622 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 15
86066568 AAAGCCCAGA
86066578 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
86066593 ATAAAGAAAATCCATG
1 ATAAAG-AAATCCAAG
86066609 ATAAAGAAATCCAA
1 ATAAAGAAATCCAA
86066623 TTTACAGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.60, C:0.13, G:0.11, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:86072199 original size:3 final size:3
Alignment explanation
Indices: 86072191--86072243 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
86072181 GACAATTCTT
86072191 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
86072239 TTA TT
1 TTA TT
86072244 CTATAATCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:86072755 original size:25 final size:25
Alignment explanation
Indices: 86072727--86072776 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
86072717 ATTTGAGCTC
86072727 AACTTGGCTGGATTACACCCCTATA
1 AACTTGGCTGGATTACACCCCTATA
86072752 AACTTGGCTGGATTACACCCCTATA
1 AACTTGGCTGGATTACACCCCTATA
86072777 CAACACCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (25 bp):
AACTTGGCTGGATTACACCCCTATA
Found at i:86073647 original size:37 final size:39
Alignment explanation
Indices: 86073595--86073672 Score: 115
Period size: 37 Copynumber: 2.0 Consensus size: 39
86073585 AGTATAGATA
86073595 ATTAATAATAAATACTATCTAATTTAGTTAA-ATTTAGT
1 ATTAATAATAAATACTATCTAATTTAGTTAATATTTAGT
* *
86073633 ATTAA-AATATATACTATGTAATTTAGTTAATTATTTAGT
1 ATTAATAATAAATACTATCTAATTTAGTTAA-TATTTAGT
86073672 A
1 A
86073673 GGTCAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 23 0.64
38 5 0.14
39 8 0.22
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (39 bp):
ATTAATAATAAATACTATCTAATTTAGTTAATATTTAGT
Found at i:86077440 original size:162 final size:163
Alignment explanation
Indices: 86077170--86077483 Score: 506
Period size: 162 Copynumber: 1.9 Consensus size: 163
86077160 AAAATATTGT
* *
86077170 ATATGAAACATTGAAATTGTACCACATCATCACTTGAAAATTCATATAATTTATATGAATTTTCA
1 ATATGAAACATTGAAATTGTACCACATCATCACCTAAAAATTCATATAATTTATATGAATTTTCA
* * *
86077235 AGTGATGATGTAGCACAATCTCATAATGTCACGTAATCAAACTTTTATAGTTTTCAAGTTTGGGA
66 AGTGATGATGTAGCACAATCTCATAATGCCACATAATCAAACTTTTATAGGTTTCAAGTTTGGGA
* *
86077300 CTAAAATTGACTCAGTTGTCAAATTTAAGTGCC
131 CTAAAATGGACTCAATTGTCAAATTTAAGTGCC
* *
86077333 ATATGAAACTTTGAAATTGTACCACATCATCACCTAAAAATTCATATATATTT-T-TTAATTTTC
1 ATATGAAACATTGAAATTGTACCACATCATCACCTAAAAATTCATATA-ATTTATATGAATTTTC
* *
86077396 AAGTGATGATGTTGCACAATCTCATAATGCCACATCATCAAACTTTTATAGGTTTCAAGTTTGGG
65 AAGTGATGATGTAGCACAATCTCATAATGCCACATAATCAAACTTTTATAGGTTTCAAGTTTGGG
86077461 ACTAAAATGGACTCAATTGTCAA
130 ACTAAAATGGACTCAATTGTCAA
86077484 GTTGATACCT
Statistics
Matches: 139, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
162 89 0.64
163 46 0.33
164 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (163 bp):
ATATGAAACATTGAAATTGTACCACATCATCACCTAAAAATTCATATAATTTATATGAATTTTCA
AGTGATGATGTAGCACAATCTCATAATGCCACATAATCAAACTTTTATAGGTTTCAAGTTTGGGA
CTAAAATGGACTCAATTGTCAAATTTAAGTGCC
Found at i:86080572 original size:21 final size:20
Alignment explanation
Indices: 86080533--86080572 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
86080523 ATATAAGATA
*
86080533 TCAAAATTATTAATTAAATG
1 TCAAAATTATTAATCAAATG
*
86080553 TCAAAATTTTATAATCAAAT
1 TCAAAATTAT-TAATCAAAT
86080573 CTAATACACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (20 bp):
TCAAAATTATTAATCAAATG
Found at i:86081617 original size:29 final size:31
Alignment explanation
Indices: 86081550--86081619 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
86081540 AAATGTGTAC
*
86081550 CTTTATTTGATCACTTTCAAAAAAGTTTGAT
1 CTTTATTTGACCACTTTCAAAAAAGTTTGAT
* *
86081581 CTTCATTTGACCA-TTT-TAAAAAGTTTGA-
1 CTTTATTTGACCACTTTCAAAAAAGTTTGAT
86081609 CATTTATTTGA
1 C-TTTATTTGA
86081620 GTATTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 19 0.56
30 3 0.09
31 11 0.32
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (31 bp):
CTTTATTTGACCACTTTCAAAAAAGTTTGAT
Found at i:86086587 original size:16 final size:16
Alignment explanation
Indices: 86086565--86086617 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
86086555 GAAAAATTAT
86086565 ATTTTTCATCCTTCTA
1 ATTTTTCATCCTTCTA
* *
86086581 GTTTTTCTACCCTT-TA
1 ATTTTTC-ATCCTTCTA
* *
86086597 ATTTTCCATCCTTCCA
1 ATTTTTCATCCTTCTA
86086613 ATTTT
1 ATTTT
86086618 CTTTTTGCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 5 0.17
16 19 0.66
17 5 0.17
ACGTcount: A:0.17, C:0.26, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTTCATCCTTCTA
Found at i:86087620 original size:2 final size:2
Alignment explanation
Indices: 86087613--86087645 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
86087603 TAGAGAAATG
86087613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86087646 GTTAAGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86089034 original size:17 final size:17
Alignment explanation
Indices: 86089012--86089045 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
86089002 ACTTTTTAAG
86089012 TAAAAAAGTTAAAAAAA
1 TAAAAAAGTTAAAAAAA
**
86089029 TAAAAATTTTAAAAAAA
1 TAAAAAAGTTAAAAAAA
86089046 CCAAATTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAAAAGTTAAAAAAA
Found at i:86089384 original size:78 final size:78
Alignment explanation
Indices: 86089250--86089397 Score: 287
Period size: 78 Copynumber: 1.9 Consensus size: 78
86089240 CCACCACTGC
*
86089250 CTTCGTCTTAATATCCTCTACAATTGGAACTCCTTTTCAATTTTATCTTTGTTTTTAAATTAAAA
1 CTTCCTCTTAATATCCTCTACAATTGGAACTCCTTTTCAATTTTATCTTTGTTTTTAAATTAAAA
86089315 AAAAAAAGGGCTT
66 AAAAAAAGGGCTT
86089328 CTTCCTCTTAATATCCTCTACAATTGGAACTCCTTTTCAATTTTATCTTTGTTTTTAAATTAAAA
1 CTTCCTCTTAATATCCTCTACAATTGGAACTCCTTTTCAATTTTATCTTTGTTTTTAAATTAAAA
86089393 AAAAA
66 AAAAA
86089398 GGACTTGAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (78 bp):
CTTCCTCTTAATATCCTCTACAATTGGAACTCCTTTTCAATTTTATCTTTGTTTTTAAATTAAAA
AAAAAAAGGGCTT
Found at i:86091033 original size:12 final size:12
Alignment explanation
Indices: 86091000--86091037 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
86090990 AAATCCTTTC
86091000 TTTTCCTTTTA-
1 TTTTCCTTTTAT
*
86091011 TTTT-ATTTTAT
1 TTTTCCTTTTAT
86091022 TTTTCCTTTTAT
1 TTTTCCTTTTAT
86091034 TTTT
1 TTTT
86091038 GTTTAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.22
11 8 0.35
12 10 0.43
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCCTTTTAT
Found at i:86092178 original size:18 final size:18
Alignment explanation
Indices: 86092155--86092190 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
86092145 TTTTCATACT
86092155 CTTCATCATCTTCTTCTC
1 CTTCATCATCTTCTTCTC
*
86092173 CTTCATCTTCTTCTTCTC
1 CTTCATCATCTTCTTCTC
86092191 AGCATAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.39, G:0.00, T:0.53
Consensus pattern (18 bp):
CTTCATCATCTTCTTCTC
Found at i:86093818 original size:2 final size:2
Alignment explanation
Indices: 86093811--86093846 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
86093801 TCTTTAATTT
86093811 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
86093847 CACTGTGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:86095001 original size:2 final size:2
Alignment explanation
Indices: 86094994--86095022 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
86094984 TTTGTGGAGT
86094994 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
86095023 CAAGAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:86096660 original size:22 final size:22
Alignment explanation
Indices: 86096634--86096697 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
86096624 CTACTGTGAT
86096634 CATGGACTGTGTTTCCTGCCAA
1 CATGGACTGTGTTTCCTGCCAA
* *
86096656 CAT-G---GT-TTCCCTTCC--
1 CATGGACTGTGTTTCCTGCCAA
86096671 CATGGACTGTGTTTCCTGCCAA
1 CATGGACTGTGTTTCCTGCCAA
86096693 CATGG
1 CATGG
86096698 TTTCCCTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
15 3 0.10
16 1 0.03
17 7 0.23
18 2 0.06
19 2 0.06
20 7 0.23
21 1 0.03
22 8 0.26
ACGTcount: A:0.16, C:0.30, G:0.22, T:0.33
Consensus pattern (22 bp):
CATGGACTGTGTTTCCTGCCAA
Found at i:86096684 original size:37 final size:37
Alignment explanation
Indices: 86096634--86096710 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
86096624 CTACTGTGAT
86096634 CATGGACTGTGTTTCCTGCCAACATGGTTTCCCTTCC
1 CATGGACTGTGTTTCCTGCCAACATGGTTTCCCTTCC
86096671 CATGGACTGTGTTTCCTGCCAACATGGTTTCCCTTCC
1 CATGGACTGTGTTTCCTGCCAACATGGTTTCCCTTCC
86096708 CAT
1 CAT
86096711 ATATCTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.35
Consensus pattern (37 bp):
CATGGACTGTGTTTCCTGCCAACATGGTTTCCCTTCC
Found at i:86097158 original size:2 final size:2
Alignment explanation
Indices: 86097151--86097175 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
86097141 AAACTTTGGG
86097151 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
86097176 GAGGCGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:86098726 original size:21 final size:21
Alignment explanation
Indices: 86098702--86098745 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
86098692 AAATTTAACA
86098702 TATATAATTGATGAAAAAGAT
1 TATATAATTGATGAAAAAGAT
86098723 TATATAATTGATGAAAAAGAT
1 TATATAATTGATGAAAAAGAT
86098744 TA
1 TA
86098746 CCGTTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (21 bp):
TATATAATTGATGAAAAAGAT
Found at i:86100775 original size:28 final size:28
Alignment explanation
Indices: 86100728--86100799 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
86100718 AATTAATTTA
*
86100728 TTTA-TGATTTTTATACTTTTTAAATAAT
1 TTTATTGATTTTTA-ACTTTTAAAATAAT
* **
86100756 TTTATTGATTTTTAATTTTTAAAATTTT
1 TTTATTGATTTTTAACTTTTAAAATAAT
*
86100784 TTTTTTGAATTTTTAA
1 TTTATTG-ATTTTTAA
86100800 AATTTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTATTGATTTTTAACTTTTAAAATAAT
Found at i:86100794 original size:22 final size:21
Alignment explanation
Indices: 86100764--86100805 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
86100754 ATTTTATTGA
86100764 TTTTTAATTTTTAAAATTTTT
1 TTTTTAATTTTTAAAATTTTT
86100785 TTTTTGAATTTTTAAAATTTT
1 TTTTT-AATTTTTAAAATTTT
86100806 AATTAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTAATTTTTAAAATTTTT
Found at i:86102647 original size:22 final size:23
Alignment explanation
Indices: 86102622--86102667 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
86102612 CAACCAAACC
86102622 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
86102644 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
86102667 A
1 A
86102668 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:86102673 original size:23 final size:23
Alignment explanation
Indices: 86102629--86102673 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
86102619 ACCAATTCAA
*
86102629 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
86102652 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
86102674 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:86110368 original size:22 final size:23
Alignment explanation
Indices: 86110343--86110388 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
86110333 CAACCAAACC
86110343 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
86110365 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
86110388 A
1 A
86110389 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:86110394 original size:23 final size:23
Alignment explanation
Indices: 86110350--86110394 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
86110340 ACCAATTCAA
*
86110350 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
86110373 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
86110395 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:86114083 original size:25 final size:25
Alignment explanation
Indices: 86114049--86114100 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
86114039 ATTCAAACAG
86114049 GTTCCGTACATACCTGTACCACCTC
1 GTTCCGTACATACCTGTACCACCTC
86114074 GTTCCGTACATACCTGTACCACCTC
1 GTTCCGTACATACCTGTACCACCTC
86114099 GT
1 GT
86114101 ACTAACTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.38, G:0.13, T:0.29
Consensus pattern (25 bp):
GTTCCGTACATACCTGTACCACCTC
Found at i:86115899 original size:13 final size:13
Alignment explanation
Indices: 86115881--86115915 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
86115871 CTGTGTATTC
86115881 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
86115894 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
86115907 TTAGTTTAG
1 TTAGTTTAG
86115916 ATAAAGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:86117962 original size:40 final size:40
Alignment explanation
Indices: 86117850--86118002 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
86117840 GGATATAGCG
* * * * ***
86117850 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
86117890 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
86117930 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
86117970 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
86118003 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:86125997 original size:40 final size:40
Alignment explanation
Indices: 86125859--86126003 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
86125849 GCGACTCGCT
* * * *** * *
86125859 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
* * *
86125899 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
* **
86125939 CAAATGCCTTC--GATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAAC-TAGCA
86125979 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
86126004 CATCATTCGA
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 21 0.25
40 60 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
Found at i:86130202 original size:55 final size:55
Alignment explanation
Indices: 86130075--86130205 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 55
86130065 TTAAAATTTT
* * * *
86130075 AAGTCATTGTTGTACACGGGTAGGCCACACGGGCGTGTGCCATGGTCGTGTCTTA
1 AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTCTTA
* * * * * *
86130130 AAGTCAGTATCGTACACGGGCAGGTCACATGGGCATGTGCCATGGCCGTGTGTTG
1 AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTCTTA
*
86130185 AAGTCAGTGTTGCACACGGGC
1 AAGTCAGTGTTGTACACGGGC
86130206 TAAGGACATG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.24
Consensus pattern (55 bp):
AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTCTTA
Found at i:86136236 original size:19 final size:19
Alignment explanation
Indices: 86136212--86136249 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
86136202 TATTATTCTA
86136212 GAACTTGCTTCGATTATGC
1 GAACTTGCTTCGATTATGC
86136231 GAACTTGCTTCGATTATGC
1 GAACTTGCTTCGATTATGC
86136250 ATGTCAAGAC
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):
GAACTTGCTTCGATTATGC
Found at i:86137695 original size:21 final size:21
Alignment explanation
Indices: 86137671--86137710 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86137661 AAAACCCTTC
*
86137671 TTAAAATAAAAGAAACCTTAA
1 TTAAAATAAAAAAAACCTTAA
**
86137692 TTAACTTAAAAAAAACCTT
1 TTAAAATAAAAAAAACCTT
86137711 TCAGTTACGA
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:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (21 bp):
TTAAAATAAAAAAAACCTTAA
Found at i:86138725 original size:29 final size:29
Alignment explanation
Indices: 86138683--86138745 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
86138673 ATTCATATGG
* * *
86138683 CCCATTTCATATTCTTATGGCCCACTAGA
1 CCCAATTCACATTCATATGGCCCACTAGA
* * *
86138712 CCCAATTCACATTCATATTGCCCATTAGG
1 CCCAATTCACATTCATATGGCCCACTAGA
86138741 CCCAA
1 CCCAA
86138746 ATCATATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.33, G:0.10, T:0.30
Consensus pattern (29 bp):
CCCAATTCACATTCATATGGCCCACTAGA
Found at i:86138993 original size:15 final size:16
Alignment explanation
Indices: 86138955--86138992 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
86138945 CTAACTTTTG
86138955 GCTTTTTGGCATTTCA
1 GCTTTTTGGCATTTCA
*
86138971 GCTTTTTGGCATTTCG
1 GCTTTTTGGCATTTCA
86138987 GCTTTT
1 GCTTTT
86138993 GTCGTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.18, G:0.21, T:0.53
Consensus pattern (16 bp):
GCTTTTTGGCATTTCA
Found at i:86144488 original size:30 final size:30
Alignment explanation
Indices: 86144453--86144551 Score: 198
Period size: 30 Copynumber: 3.3 Consensus size: 30
86144443 ACACCAGGGG
86144453 ACACACGGCCGTGTAACCTAACCGTGTGTC
1 ACACACGGCCGTGTAACCTAACCGTGTGTC
86144483 ACACACGGCCGTGTAACCTAACCGTGTGTC
1 ACACACGGCCGTGTAACCTAACCGTGTGTC
86144513 ACACACGGCCGTGTAACCTAACCGTGTGTC
1 ACACACGGCCGTGTAACCTAACCGTGTGTC
86144543 ACACACGGC
1 ACACACGGC
86144552 TCAGACACAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.24, C:0.34, G:0.23, T:0.18
Consensus pattern (30 bp):
ACACACGGCCGTGTAACCTAACCGTGTGTC
Found at i:86147229 original size:12 final size:13
Alignment explanation
Indices: 86147203--86147233 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
86147193 ATGACATATA
86147203 TTCTTAACAAATT
1 TTCTTAACAAATT
86147216 TTCTTAAC-AATT
1 TTCTTAACAAATT
86147228 TTCTTA
1 TTCTTA
86147234 GTAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
TTCTTAACAAATT
Found at i:86151076 original size:93 final size:93
Alignment explanation
Indices: 86150964--86151134 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
86150954 GCCCCTAAGT
**
86150964 GAACTCGGACTCAACTCAACGAGCTC-GAGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86151028 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
86151057 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
86151122 CGAGTTCGGATGC
66 CGAGTTCGGATGC
86151135 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:86151130 original size:46 final size:47
Alignment explanation
Indices: 86150959--86151131 Score: 214
Period size: 46 Copynumber: 3.7 Consensus size: 47
86150949 AACCCGCCCC
* **
86150959 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
*
86151005 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCA
* *
86151053 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
86151098 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
86151132 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.54
47 31 0.28
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
Found at i:86155078 original size:2 final size:2
Alignment explanation
Indices: 86155067--86155097 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
86155057 ATTCAAGCAA
86155067 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86155098 TCTATGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:86156931 original size:31 final size:31
Alignment explanation
Indices: 86156896--86156968 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
86156886 TACAATTAAT
* * *
86156896 AAAAATTAAAATTTTATGTGTATATTT-CAAC
1 AAAAATAAAAATTTAATGTATATATTTGC-AC
* *
86156927 AAAAATCAAACTTTAATGTATATATTTGCAC
1 AAAAATAAAAATTTAATGTATATATTTGCAC
86156958 AAAAATAAAAA
1 AAAAATAAAAA
86156969 AATTTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.34
Consensus pattern (31 bp):
AAAAATAAAAATTTAATGTATATATTTGCAC
Found at i:86158277 original size:17 final size:17
Alignment explanation
Indices: 86158228--86158277 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
86158218 AGAAACATGT
*
86158228 TCTTCGAAGATATGCAA
1 TCTTAGAAGATATGCAA
*
86158245 TCTTAGATATGATATGTAA
1 TCTTAGA-A-GATATGCAA
86158264 TCTTAGAAGATATG
1 TCTTAGAAGATATG
86158278 ATTTTGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
19 15 0.52
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (17 bp):
TCTTAGAAGATATGCAA
Found at i:86158277 original size:22 final size:21
Alignment explanation
Indices: 86158249--86158306 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
86158239 ATGCAATCTT
*
86158249 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
86158270 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TTTGTAATCTTAG
*
86158293 AGATTTGATTTGTA
1 AGATATGATTTGTA
86158307 GATACCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 6 0.18
22 15 0.45
23 12 0.36
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:86163387 original size:19 final size:17
Alignment explanation
Indices: 86163361--86163405 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
86163351 ATGATCTTCA
86163361 AAGATATGAAATCTTAG
1 AAGATATGAAATCTTAG
*
86163378 ATATGATATGTAATCTTAG
1 A-A-GATATGAAATCTTAG
86163397 AAGATATGA
1 AAGATATGA
86163406 TTTTGTAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 15 0.62
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.33
Consensus pattern (17 bp):
AAGATATGAAATCTTAG
Found at i:86163404 original size:22 final size:23
Alignment explanation
Indices: 86163376--86163420 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
86163366 ATGAAATCTT
86163376 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
86163398 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
86163421 TATTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:86163855 original size:40 final size:40
Alignment explanation
Indices: 86163793--86163984 Score: 253
Period size: 40 Copynumber: 4.8 Consensus size: 40
86163783 CCCATGTTAC
* *
86163793 AGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGA
1 AGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGA
* *
86163833 AGGCATTCGTGTGAGTTGTTATATCCGGGCTAAGACCCGA
1 AGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGA
86163873 AGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGA
1 AGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGA
* * * *
86163913 AGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCTGA
1 AGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGA
* ** *
86163953 AGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 AGGCATTTGTGCGAGTTGTTATATCCGGGCTAA
86163985 ATTCCGAAGA
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 5 0.04
40 127 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
AGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGA
Found at i:86166061 original size:79 final size:81
Alignment explanation
Indices: 86165952--86166134 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
86165942 CACTCGTTCA
* *
86165952 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
86166015 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
86166032 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
86166095 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
86166111 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
86166135 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:86166134 original size:40 final size:40
Alignment explanation
Indices: 86165931--86166134 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
86165921 CGGAGTTTAA
** ** *
86165931 CCGGATATAGCCACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
86165971 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
86166011 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
86166050 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
86166090 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
86166130 CCGGA
1 CCGGA
86166135 CATCATTCGA
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:86172836 original size:29 final size:29
Alignment explanation
Indices: 86172802--86172933 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
86172792 TACTCGATTT
** * *
86172802 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
86172831 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
86172860 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
86172889 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
86172918 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
86172934 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:86177880 original size:66 final size:68
Alignment explanation
Indices: 86177802--86177988 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
86177792 TAGTACCACT
*
86177802 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
86177864 CACG
65 CACG
86177868 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
86177933 ATCACG
63 ATCACG
86177939 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
86177989 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:86177913 original size:71 final size:71
Alignment explanation
Indices: 86177825--86177988 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
86177815 CGATTTGTCT
86177825 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
86177890 CTTTCA
66 CTTTCA
86177896 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
86177961 CTTTCA
66 CTTTCA
86177967 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
86177989 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:86178026 original size:71 final size:70
Alignment explanation
Indices: 86177825--86178022 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
86177815 CGATTTGTCT
* * * *
86177825 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
86177890 CTTTCA
65 CTTTCA
* * * *
86177896 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
86177961 CTTTCA
65 CTTTCA
* *
86177967 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
86178023 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:86185324 original size:71 final size:71
Alignment explanation
Indices: 86185240--86185403 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
86185230 CGATTTGTCT
86185240 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
86185305 CTTTCA
66 CTTTCA
* *
86185311 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
86185376 CTTTCA
66 CTTTCA
86185382 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
86185404 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:86185441 original size:71 final size:70
Alignment explanation
Indices: 86185240--86185437 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
86185230 CGATTTGTCT
* * * * *
86185240 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
86185305 CTTTCA
65 CTTTCA
* * * *
86185311 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
86185376 CTTTCA
65 CTTTCA
* *
86185382 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
86185438 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:86186767 original size:29 final size:29
Alignment explanation
Indices: 86186733--86186864 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
86186723 TACTCGATTT
** * *
86186733 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
86186762 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
86186791 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
86186820 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
86186849 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
86186865 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:86192020 original size:33 final size:34
Alignment explanation
Indices: 86191974--86192053 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 34
86191964 AGCTGATCTA
* *
86191974 TTATAAGCATATTACTTGTTACTGTATTGAACTG
1 TTATAAGCATATTAATTGATACTGTATTGAACTG
* *
86192008 TTA-AAGCATATTAATTGATATTGTATTGAATTG
1 TTATAAGCATATTAATTGATACTGTATTGAACTG
86192041 TTATAAGCATATT
1 TTATAAGCATATT
86192054 GATTACTACC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 29 0.71
34 12 0.29
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (34 bp):
TTATAAGCATATTAATTGATACTGTATTGAACTG
Found at i:86192068 original size:34 final size:32
Alignment explanation
Indices: 86191974--86192068 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 32
86191964 AGCTGATCTA
*
86191974 TTATAAGCATATTACTTGTTACTGTATTGAACTG
1 TTATAAGCATATTA-TT-ATACTGTATTGAACTG
* *
86192008 TTA-AAGCATATTAATTGATATTGTATTGAATTG
1 TTATAAGCATATT-ATT-ATACTGTATTGAACTG
*
86192041 TTATAAGCATATTGATTACTACCGTATT
1 TTATAAGCATATT-ATTA-TACTGTATT
86192069 ATTCTATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
33 29 0.56
34 23 0.44
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (32 bp):
TTATAAGCATATTATTATACTGTATTGAACTG
Found at i:86194054 original size:101 final size:101
Alignment explanation
Indices: 86193913--86194126 Score: 297
Period size: 101 Copynumber: 2.1 Consensus size: 101
86193903 TTATTCAAAC
** * *
86193913 GTAAGACCATGGTTGGACCATGGTAGTGTATATATCTAAGA-TCATAGCTAGGCTATGGCATTCT
1 GTAAGACCATGGTTGGACCATGACAGTGTATATATCTAAGACT-ATAGCTACGCTATCGCATTCT
86193977 GATGATAAGACCATAACTAGGTTATGGCACAATGGAT
65 GATGATAAGACCATAACTAGGTTATGGCACAATGGAT
* *
86194014 GTAAGACCCTGGTTGGACCATGACAGTGCT-TATATGTAAGACTATAGCTACGCTATCGCATTCT
1 GTAAGACCATGGTTGGACCATGACAGTG-TATATATCTAAGACTATAGCTACGCTATCGCATTCT
* * * *
86194078 GATGATAAGACCATAACTGGGTTATGGCACTATGAAC
65 GATGATAAGACCATAACTAGGTTATGGCACAATGGAT
*
86194115 GTAATACCATGG
1 GTAAGACCATGG
86194127 AAGGGCCATG
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
101 97 0.98
102 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (101 bp):
GTAAGACCATGGTTGGACCATGACAGTGTATATATCTAAGACTATAGCTACGCTATCGCATTCTG
ATGATAAGACCATAACTAGGTTATGGCACAATGGAT
Found at i:86195832 original size:23 final size:23
Alignment explanation
Indices: 86195737--86195833 Score: 67
Period size: 23 Copynumber: 4.2 Consensus size: 23
86195727 AGGCTCTATT
* *
86195737 GAGCTGAAAACAGTAAGCTC-TATT
1 GAGCTG-AAATAGTAAGCTCTTA-C
86195761 GAGCTG-AATAGTAAGCTCCTT-C
1 GAGCTGAAATAGTAAGCT-CTTAC
* * ** *
86195783 AAGCT-AAATCGGTAAGCTCCAAT
1 GAGCTGAAAT-AGTAAGCTCTTAC
86195806 GAGCTGAAATAGTAAGCTCTTAC
1 GAGCTGAAATAGTAAGCTCTTAC
86195829 GAGCT
1 GAGCT
86195834 ATGGTGAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
22 18 0.33
23 26 0.47
24 11 0.20
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
GAGCTGAAATAGTAAGCTCTTAC
Found at i:86205636 original size:20 final size:20
Alignment explanation
Indices: 86205613--86205651 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
86205603 TTTATCGTTA
*
86205613 GTTTATTATTGTT-ATTATTT
1 GTTTACTATT-TTGATTATTT
86205633 GTTTACTATTTTGATTATT
1 GTTTACTATTTTGATTATT
86205652 ATTATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (20 bp):
GTTTACTATTTTGATTATTT
Found at i:86205738 original size:22 final size:21
Alignment explanation
Indices: 86205713--86205768 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 21
86205703 TGTTTATTCA
86205713 TATTATTTTTAGTTAGTATTTT
1 TATTATTTTTAG-TAGTATTTT
*
86205735 TATTATTTTTAGTATTATTTT
1 TATTATTTTTAGTAGTATTTT
86205756 TACTTATTATTTA
1 TA-TTATT-TTTA
86205769 CTTATTTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 10 0.32
22 17 0.55
23 4 0.13
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (21 bp):
TATTATTTTTAGTAGTATTTT
Found at i:86205768 original size:11 final size:10
Alignment explanation
Indices: 86205729--86205776 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
86205719 TTTTAGTTAG
86205729 TATTTTTA-T
1 TATTTTTACT
*
86205738 TATTTTTAGTAT
1 TATTTTTA--CT
86205750 TATTTTTACT
1 TATTTTTACT
86205760 TATTATTTACT
1 TATT-TTTACT
86205771 TATTTT
1 TATTTT
86205777 CTTATTTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
9 8 0.24
10 7 0.21
11 10 0.29
12 9 0.26
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (10 bp):
TATTTTTACT
Found at i:86209086 original size:40 final size:40
Alignment explanation
Indices: 86209027--86209168 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
86209017 AAATTGAATG
* * *
86209027 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
86209067 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
86209107 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
86209147 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
86209169 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:86209169 original size:40 final size:39
Alignment explanation
Indices: 86209066--86209194 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
86209056 TGCTGGAAAT
* * *
86209066 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
86209106 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
86209146 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
86209186 TATATCCGG
1 TATATCCGG
86209195 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:86217112 original size:40 final size:40
Alignment explanation
Indices: 86217053--86217194 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
86217043 AAATTGAATG
* * *
86217053 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
86217093 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
86217133 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
86217173 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
86217195 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:86217195 original size:40 final size:39
Alignment explanation
Indices: 86217092--86217220 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
86217082 TGCTGGAAAT
* * *
86217092 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
86217132 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
86217172 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
86217212 TATATCCGG
1 TATATCCGG
86217221 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:86221901 original size:40 final size:38
Alignment explanation
Indices: 86221852--86221959 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
86221842 ATCACGATTT
*
86221852 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
86221892 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
86221932 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
86221960 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:86221919 original size:80 final size:80
Alignment explanation
Indices: 86221811--86221959 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
86221801 TATGGTAACC
* * * *
86221811 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
86221875 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
86221891 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
86221956 CCGG
66 CCGG
86221960 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:86226357 original size:15 final size:14
Alignment explanation
Indices: 86226337--86226392 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
86226327 GATATGGTAT
86226337 CTTGGATTTCTGTA
1 CTTGGATTTCTGTA
* *
86226351 CCTTGGATATCTTTA
1 -CTTGGATTTCTGTA
86226366 TCTTGGATTCTTCTGT-
1 -CTTGGA-T-TTCTGTA
86226382 CTTGGATTTCT
1 CTTGGATTTCT
86226393 TTATTCTGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 4 0.12
14 1 0.03
15 24 0.71
16 1 0.03
17 4 0.12
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.52
Consensus pattern (14 bp):
CTTGGATTTCTGTA
Found at i:86226368 original size:30 final size:30
Alignment explanation
Indices: 86226334--86226396 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
86226324 TATGATATGG
86226334 TATCTTGGA-T-TTCTGTACCTTGGATATCTT
1 TATCTTGGATTCTTCTGT--CTTGGATATCTT
*
86226364 TATCTTGGATTCTTCTGTCTTGGATTTCTT
1 TATCTTGGATTCTTCTGTCTTGGATATCTT
86226394 TAT
1 TAT
86226397 TCTGGTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 23 0.77
31 1 0.03
32 6 0.20
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.54
Consensus pattern (30 bp):
TATCTTGGATTCTTCTGTCTTGGATATCTT
Found at i:86236125 original size:37 final size:37
Alignment explanation
Indices: 86236070--86236143 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
86236060 ACATTCTAGA
* *
86236070 AAAGGTAGGTAAGCTGCATTCATTAA-TCGGGGTTATC
1 AAAGGTAGATAAGCTGCATTCATCAACT-GGGGTTATC
* *
86236107 AAAGGTAGATAAGTTGCATTTATCAACTGGGGTTATC
1 AAAGGTAGATAAGCTGCATTCATCAACTGGGGTTATC
86236144 TACGTGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (37 bp):
AAAGGTAGATAAGCTGCATTCATCAACTGGGGTTATC
Found at i:86236295 original size:20 final size:20
Alignment explanation
Indices: 86236270--86236323 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
86236260 ATATTCTGGT
* *
86236270 TTAGCCTTTGTGGTATTCTG
1 TTAGCCTTTGTGGCATCCTG
*
86236290 TTAGCCTTTATGGCATCCTG
1 TTAGCCTTTGTGGCATCCTG
86236310 TTAGCCTTTGTGGC
1 TTAGCCTTTGTGGC
86236324 GTACTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.44
Consensus pattern (20 bp):
TTAGCCTTTGTGGCATCCTG
Found at i:86236349 original size:25 final size:25
Alignment explanation
Indices: 86236317--86236378 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
86236307 CTGTTAGCCT
86236317 TTGTGGCGTACTT-TATATATTGCCC
1 TTGTGGCGTA-TTATATATATTGCCC
* * *
86236342 TTGTGGCGTATTATGTATGTTGCCT
1 TTGTGGCGTATTATATATATTGCCC
*
86236367 TTGTGGCATATT
1 TTGTGGCGTATT
86236379 CTGTCTAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.47
Consensus pattern (25 bp):
TTGTGGCGTATTATATATATTGCCC
Found at i:86238867 original size:13 final size:13
Alignment explanation
Indices: 86238849--86238883 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
86238839 GGACACGTGC
86238849 CCATGTGGCCAGG
1 CCATGTGGCCAGG
*
86238862 CCATGTGGTCAGG
1 CCATGTGGCCAGG
86238875 CCATGTGGC
1 CCATGTGGC
86238884 TCACACAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.20
Consensus pattern (13 bp):
CCATGTGGCCAGG
Found at i:86240128 original size:24 final size:24
Alignment explanation
Indices: 86240087--86240144 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
86240077 AGCACATAAA
* *
86240087 CGGGAAGCTCATGTGAGCCAATAT
1 CGGGAAGCTCAAGCGAGCCAATAT
*
86240111 CGGGAAGTTCAAGCGAGCCAATAT
1 CGGGAAGCTCAAGCGAGCCAATAT
*
86240135 CAGGAAGCTC
1 CGGGAAGCTC
86240145 CGGAGAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTCAAGCGAGCCAATAT
Found at i:86240176 original size:25 final size:24
Alignment explanation
Indices: 86240148--86240227 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
86240138 GAAGCTCCGG
*
86240148 AGAGCTATTAATTGGGAAGCTCATA
1 AGAGCTATT-ATCGGGAAGCTCATA
86240173 AGAG-TCAGTTATCGGGAAGCTC-TGA
1 AGAGCT-A-TTATCGGGAAGCTCAT-A
* *
86240198 AGAGCCAATTATCGAGAAGCTCATA
1 AGAG-CTATTATCGGGAAGCTCATA
86240223 AGAGC
1 AGAGC
86240228 CATAACGGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
24 3 0.07
25 39 0.85
26 4 0.09
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (24 bp):
AGAGCTATTATCGGGAAGCTCATA
Done.