Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 258 of 325
Found at i:84075014 original size:81 final size:81
Alignment explanation
Indices: 84074943--84075104 Score: 193
Period size: 81 Copynumber: 2.0 Consensus size: 81
84074933 ACCGTTTTAC
*
84074943 CCTC-GATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAACAAAATACCCTCGATCAG
1 CCTCTGATTTACAAAATTACTAAAATACCCCTGGTTTACAAAATTAACAAAATACCCTCGATCAG
84075007 TAAAATTACCAAAATA
66 TAAAATTACCAAAATA
* ** ** * * * * **
84075023 CCTCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAGAATACCATTGATTTG
1 CCTCTGATTTACAAAATTACTAAAATACCCCTGGTTTACAAAATTAACAAAATACCCTCGATCAG
*
84075088 TAAAA-TACCGAAATA
66 TAAAATTACCAAAATA
84075103 CC
1 CC
84075105 CCTGTAGGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 15 0.22
81 53 0.78
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
CCTCTGATTTACAAAATTACTAAAATACCCCTGGTTTACAAAATTAACAAAATACCCTCGATCAG
TAAAATTACCAAAATA
Found at i:84075064 original size:54 final size:53
Alignment explanation
Indices: 84074954--84075108 Score: 147
Period size: 54 Copynumber: 2.9 Consensus size: 53
84074944 CTCGATTTAC
* **
84074954 AAAATTACTAAAATACC-CTTGGTTTACAAAATTAACAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCTC-TGGTTTGTAAAATT-ACAAAATACCCCT-GATCAGT
* **
84075008 AAAATTACCAAAATACCTCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCTCTGGTTTGTAAAATTAC-AAAATACCCCTGATCAGT
* * *
84075062 AAAATTACCAGAATACCAT-TGATTTGTAAAA-TACCGAAATACCCCTG
1 AAAATTACCAAAATACC-TCTGGTTTGTAAAATTA-CAAAATACCCCTG
84075109 TAGGGTAGAA
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
53 15 0.17
54 66 0.76
55 6 0.07
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCTCTGGTTTGTAAAATTACAAAATACCCCTGATCAGT
Found at i:84075312 original size:27 final size:27
Alignment explanation
Indices: 84075093--84075312 Score: 316
Period size: 27 Copynumber: 8.1 Consensus size: 27
84075083 ATTTGTAAAA
84075093 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
84075120 TACTGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
84075147 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
84075174 TA-CTAAGATAACCCTGTAGGGTAGAAT
1 TACCGAA-ATACCCCTGTAGGGTAGAAT
*
84075201 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
84075228 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
84075255 TATCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
84075282 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
84075309 TACC
1 TACC
84075313 ATTTTGCCCT
Statistics
Matches: 171, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 3 0.02
27 166 0.97
28 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:84075553 original size:25 final size:25
Alignment explanation
Indices: 84075515--84075584 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
84075505 AGGAAGTGCT
* *
84075515 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
84075540 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
84075565 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
84075585 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:84075597 original size:24 final size:24
Alignment explanation
Indices: 84075540--84075611 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
84075530 TAGTTTACCG
*
84075540 AAAAG-GGCTTTGCCCTAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
84075564 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
84075588 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
84075612 ATGATAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:84075856 original size:31 final size:30
Alignment explanation
Indices: 84075805--84075887 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
84075795 CGCTTACAGT
* *
84075805 AAAGACTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATAA
84075835 AAAGGCTTCGGCCTAGTGATATGATTTATAA
1 AAAGGCTTCGGCC-AGTGATATGATTTATAA
84075866 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
84075888 TCGAGACTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 17 0.35
31 30 0.61
32 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATAA
Found at i:84091230 original size:26 final size:26
Alignment explanation
Indices: 84091200--84091253 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
84091190 CAACCATTAA
84091200 TAGCCAACACTTTTGGCCAAATCAAT
1 TAGCCAACACTTTTGGCCAAATCAAT
*
84091226 TAGCCAATACTTTTGGCCAAATCAAT
1 TAGCCAACACTTTTGGCCAAATCAAT
84091252 TA
1 TA
84091254 TGACATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (26 bp):
TAGCCAACACTTTTGGCCAAATCAAT
Found at i:84093003 original size:5 final size:5
Alignment explanation
Indices: 84092984--84093027 Score: 52
Period size: 5 Copynumber: 8.0 Consensus size: 5
84092974 AACGACTTAA
84092984 AAAAT ATAAAGT AAAAT AAAAT AAAAAAT AAAAT AAAAT AAAAT
1 AAAAT A-AAA-T AAAAT AAAAT --AAAAT AAAAT AAAAT AAAAT
84093028 GTACTAAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 22 0.63
6 6 0.17
7 7 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:84093004 original size:17 final size:17
Alignment explanation
Indices: 84092984--84093026 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
84092974 AACGACTTAA
* *
84092984 AAAATATAAAGTAAAAT
1 AAAATAAAAAATAAAAT
84093001 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
84093018 AAAATAAAA
1 AAAATAAAA
84093027 TGTACTAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:84093014 original size:22 final size:23
Alignment explanation
Indices: 84092983--84093027 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
84092973 TAACGACTTA
*
84092983 AAAAATATAAAGTAAAATAAAAT
1 AAAAATATAAAATAAAATAAAAT
84093006 AAAAA-ATAAAATAAAATAAAAT
1 AAAAATATAAAATAAAATAAAAT
84093028 GTACTAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAAATATAAAATAAAATAAAAT
Found at i:84093346 original size:21 final size:23
Alignment explanation
Indices: 84093325--84093373 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
84093315 GTAGTTTAAT
84093325 ATAA-ATAATATATAAAAAAATA
1 ATAATATAATATATAAAAAAATA
* * *
84093347 ATAATGTAATATTTAAAACAAAGA
1 ATAATATAATATATAAAA-AAATA
84093371 ATA
1 ATA
84093374 TACATAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
ATAATATAATATATAAAAAAATA
Found at i:84097892 original size:27 final size:28
Alignment explanation
Indices: 84097808--84097905 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
84097798 CATGAGATTG
* * * *
84097808 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
84097837 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
84097865 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
84097892 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
84097906 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:84097916 original size:27 final size:27
Alignment explanation
Indices: 84097836--84097918 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
84097826 TAAATTGTAC
* *
84097836 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
84097864 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
84097891 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
84097918 A
1 A
84097919 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:84097919 original size:29 final size:27
Alignment explanation
Indices: 84097808--84097919 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
84097798 CATGAGATTG
** * *
84097808 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
84097837 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
84097865 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
84097892 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
84097920 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:84106196 original size:27 final size:28
Alignment explanation
Indices: 84106116--84106209 Score: 127
Period size: 27 Copynumber: 3.4 Consensus size: 28
84106106 AGATTGGCAT
* * * *
84106116 TAAGTGTGCGGGTTTAAATTGTACAGCAC
1 TAAGTGTGCGAGTTT-GATTATATAGCAC
84106145 TAAGTGTGCGAGTTTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
84106173 TAAGTGTGCGAG-TTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
*
84106200 TGAGTGTGCG
1 TAAGTGTGCG
84106210 GACTTAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.40
28 22 0.37
29 14 0.23
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
TAAGTGTGCGAGTTTGATTATATAGCAC
Found at i:84106223 original size:29 final size:27
Alignment explanation
Indices: 84106140--84106223 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
84106130 TAAATTGTAC
* *
84106140 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
84106168 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
84106195 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
84106224 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:84109896 original size:58 final size:58
Alignment explanation
Indices: 84109808--84109925 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
84109798 TTGATTTATA
84109808 ATAACAAATTTAAATTATTTAACACACACATTGTTCAATTCAATCCAAAAATTGTATT
1 ATAACAAATTTAAATTATTTAACACACACATTGTTCAATTCAATCCAAAAATTGTATT
84109866 ATAACAAATTTAAATTATTTAACACACACATTGTTCAATTCAATCCAAAAATTGTATT
1 ATAACAAATTTAAATTATTTAACACACACATTGTTCAATTCAATCCAAAAATTGTATT
84109924 AT
1 AT
84109926 GGAAAAATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.36
Consensus pattern (58 bp):
ATAACAAATTTAAATTATTTAACACACACATTGTTCAATTCAATCCAAAAATTGTATT
Found at i:84111701 original size:21 final size:21
Alignment explanation
Indices: 84111654--84111702 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
84111644 CATTAAAGTC
* *
84111654 TTTTTATAAAATTAATATTAT
1 TTTTTATAAAATGAAAATTAT
*
84111675 TATTTATAAAAATGAAAATT-T
1 TTTTTAT-AAAATGAAAATTAT
84111696 TTTTTAT
1 TTTTTAT
84111703 CAATTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTTATAAAATGAAAATTAT
Found at i:84112313 original size:21 final size:21
Alignment explanation
Indices: 84112278--84112322 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
84112268 AAAATATTTA
*
84112278 AAATTTCTCCCTAAAGCTCTC
1 AAATTTCTCACTAAAGCTCTC
* **
84112299 AAATTTCTCATTAAATTTCTC
1 AAATTTCTCACTAAAGCTCTC
84112320 AAA
1 AAA
84112323 GCTCTTCATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTTCTCACTAAAGCTCTC
Found at i:84115632 original size:19 final size:19
Alignment explanation
Indices: 84115608--84115671 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
84115598 TGGTAACGGT
84115608 TTATTTTAAAATTTGAATA
1 TTATTTTAAAATTTGAATA
* ***
84115627 TTA-TTTAATATTTTTTTCA
1 TTATTTTAAAATTTGAAT-A
*
84115646 TTTATTTTAAATTTTGAATA
1 -TTATTTTAAAATTTGAATA
84115666 TTATTT
1 TTATTT
84115672 AATATTTTTC
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 10 0.30
19 10 0.30
20 4 0.12
21 9 0.27
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATTTTAAAATTTGAATA
Found at i:84115639 original size:18 final size:18
Alignment explanation
Indices: 84115612--84115678 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
84115602 AACGGTTTAT
*
84115612 TTTAAAATTTGAATATTA
1 TTTAATATTTGAATATTA
***
84115630 TTTAATATTTTTTTCATTTA
1 TTTAATATTTGAAT-A-TTA
84115650 TTTTAA-ATTTTGAATATTA
1 -TTTAATA-TTTGAATATTA
84115669 TTTAATATTT
1 TTTAATATTT
84115679 TTCATTTATG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
18 18 0.49
19 5 0.14
20 5 0.14
21 9 0.24
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTAATATTTGAATATTA
Found at i:84115662 original size:39 final size:37
Alignment explanation
Indices: 84115607--84115687 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 37
84115597 ATGGTAACGG
84115607 TTTATTTTAAAATTTGAATATTATTTAATATTTTTTTCA
1 TTTATTTTAAAATTTGAATATTATTTAATA--TTTTTCA
*
84115646 TTTATTTTAAATTTTGAATATTATTTAATATTTTTCA
1 TTTATTTTAAAATTTGAATATTATTTAATATTTTTCA
84115683 TTTAT
1 TTTAT
84115688 GTAATTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 12 0.29
39 29 0.71
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (37 bp):
TTTATTTTAAAATTTGAATATTATTTAATATTTTTCA
Found at i:84115678 original size:19 final size:19
Alignment explanation
Indices: 84115619--84115679 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
84115609 TATTTTAAAA
84115619 TTTGAATATTATTTAATAT
1 TTTGAATATTATTTAATAT
**
84115638 TTT-TTTCATTTATTTTAA-AT
1 TTTGAAT-A-TTA-TTTAATAT
84115658 TTTGAATATTATTTAATAT
1 TTTGAATATTATTTAATAT
84115677 TTT
1 TTT
84115680 TCATTTATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 9 0.27
21 6 0.18
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTGAATATTATTTAATAT
Found at i:84115687 original size:18 final size:18
Alignment explanation
Indices: 84115627--84115692 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 18
84115617 AATTTGAATA
84115627 TTATTTAATATTTTTTTCAT
1 TTATTTAATA--TTTTTCAT
**
84115647 TTATTTTAA-ATTTTGAAT
1 TTA-TTTAATATTTTTCAT
84115665 ATTATTTAATATTTTTCAT
1 -TTATTTAATATTTTTCAT
*
84115684 TTATGTAAT
1 TTATTTAAT
84115693 TTTAATTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 19 0.50
19 10 0.26
20 4 0.11
21 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTATTTAATATTTTTCAT
Found at i:84116760 original size:30 final size:30
Alignment explanation
Indices: 84116697--84116761 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
84116687 TACGGCACGA
**
84116697 GCCCATCAATAGCGCCCACACAATCAATGG
1 GCCCATCAATAGCGCCCACACAATCAACAG
* *
84116727 GCCCATCAATAGCGCCCACATAATCACCAG
1 GCCCATCAATAGCGCCCACACAATCAACAG
84116757 GCCCA
1 GCCCA
84116762 ATGCCTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.40, G:0.15, T:0.12
Consensus pattern (30 bp):
GCCCATCAATAGCGCCCACACAATCAACAG
Found at i:84120321 original size:125 final size:125
Alignment explanation
Indices: 84120098--84120349 Score: 371
Period size: 125 Copynumber: 2.0 Consensus size: 125
84120088 GGTCAATCAT
* *
84120098 GAACTATTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAAAAATTTTGCTAACATTACATC
1 GAACTATTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTT-AAAAATTTTGCTAACAGTACATC
*
84120163 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
65 CTGCTTGAAACATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* ** * * * *
84120224 GAACTATTGTAGAAAAAGAGCGTCCACATGGGAGC-TTTTTATGTATTTTTGTTGACAGTGCATC
1 GAACTATTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTA-AAAATTTTGCTAACAGTACATC
* *
84120288 CTGCTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
65 CTGCTTGAAACATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
84120349 G
1 G
84120350 GTACAAATAG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
124 1 0.01
125 79 0.70
126 33 0.29
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (125 bp):
GAACTATTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTAAAAATTTTGCTAACAGTACATCC
TGCTTGAAACATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:84120421 original size:25 final size:25
Alignment explanation
Indices: 84120371--84120422 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
84120361 CAATTTTGTT
*
84120371 AAAAAAATAAACACAATGTTATTTA
1 AAAAAAATAAACACAATGTTAATTA
*
84120396 AAAAAAATAAACCCTAAT-TTAATTA
1 AAAAAAATAAACAC-AATGTTAATTA
84120421 AA
1 AA
84120423 TTAAACTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAAAAATAAACACAATGTTAATTA
Found at i:84120462 original size:35 final size:32
Alignment explanation
Indices: 84120403--84120526 Score: 114
Period size: 30 Copynumber: 3.8 Consensus size: 32
84120393 TTAAAAAAAA
* *
84120403 TAAACCCTAATTTAATTAAATTAAACTTTAAACC
1 TAAACCCTAATTTAATTTATTTAAAC--TAAACC
*
84120437 TTAAACCCTAATTTAATTTATTT-AA--AATCC
1 -TAAACCCTAATTTAATTTATTTAAACTAAACC
84120467 TAAAACCCTAATCTACTTAATTTATTTAAA--AAACC
1 T-AAACCCTAA--T--TTAATTTATTTAAACTAAACC
84120502 TAAACCCTAATTTAATTTATTTAAA
1 TAAACCCTAATTTAATTTATTTAAA
84120527 ACCCTAAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
29 1 0.01
30 27 0.34
32 2 0.03
34 22 0.28
35 27 0.34
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAACCCTAATTTAATTTATTTAAACTAAACC
Found at i:84120492 original size:34 final size:34
Alignment explanation
Indices: 84120449--84120613 Score: 216
Period size: 34 Copynumber: 4.9 Consensus size: 34
84120439 AAACCCTAAT
* *
84120449 TTAATTTATTTAAAATCCTAAAACCCTAATCTAC
1 TTAATTTATTTAAAACCCTAAAACCCTAATTTAC
*
84120483 TTAATTTATTTAAAAAACCT-AAACCCTAA--T--
1 TTAATTTATTT-AAAACCCTAAAACCCTAATTTAC
*
84120513 TTAATTTATTTAAAACCCTAAAAACCCTAATTTAT
1 TTAATTTATTTAAAACCCT-AAAACCCTAATTTAC
84120548 TTAATTTATTTAAAACCCTAAAACCCTAATTTAC
1 TTAATTTATTTAAAACCCTAAAACCCTAATTTAC
*
84120582 TTAATTTATTTAAAAACCCT-AAACTCTAATTT
1 TTAATTTATTT-AAAACCCTAAAACCCTAATTT
84120614 GAATAATATT
Statistics
Matches: 119, Mismatches: 4, Indels: 16
0.86 0.03 0.12
Matches are distributed among these distances:
29 7 0.06
30 11 0.09
31 9 0.08
32 1 0.01
33 1 0.01
34 56 0.47
35 34 0.29
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (34 bp):
TTAATTTATTTAAAACCCTAAAACCCTAATTTAC
Found at i:84120527 original size:64 final size:64
Alignment explanation
Indices: 84120432--84120604 Score: 231
Period size: 65 Copynumber: 2.6 Consensus size: 64
84120422 ATTAAACTTT
*
84120432 AAACCTTAAACCCTAATTTAATTTATTTAAAATCCT-AAAACCCTAATCTACTTAATTTATTTAA
1 AAACC-TAAACCCTAATTTAATTTATTTAAAACCCTAAAAACCCTAATCTACTTAATTTATTT-A
84120496 A
64 A
* *
84120497 AAACCTAAACCCTAATTTAATTTATTTAAAACCCTAAAAACCCTAATTTATTTAATTTATTTAA
1 AAACCTAAACCCTAATTTAATTTATTTAAAACCCTAAAAACCCTAATCTACTTAATTTATTTAA
*
84120561 AACCCTAAAACCCTAATTTACTTAATTTATTTAAAAACCCTAAA
1 AAACCT-AAACCCTAA--T--TTAATTTATTT-AAAACCCTAAA
84120605 CTCTAATTTG
Statistics
Matches: 97, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
64 36 0.37
65 38 0.39
67 1 0.01
69 11 0.11
70 11 0.11
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (64 bp):
AAACCTAAACCCTAATTTAATTTATTTAAAACCCTAAAAACCCTAATCTACTTAATTTATTTAA
Found at i:84121424 original size:22 final size:22
Alignment explanation
Indices: 84121399--84121441 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
84121389 TGAAGAGTTA
*
84121399 TTTATAATTTTTTAACTATTTT
1 TTTATAATTTTTAAACTATTTT
*
84121421 TTTATAATTTTTAAATTATTT
1 TTTATAATTTTTAAACTATTT
84121442 ATTGATATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATAATTTTTAAACTATTTT
Found at i:84121735 original size:5 final size:5
Alignment explanation
Indices: 84121714--84121762 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
84121704 TTTTCCCCCT
* *
84121714 TTTTC TTTCC ATTTTC TTTTC TTTTC TTTTC TTTTC TTAT- TTTTC TTTT
1 TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
84121763 TCTTCATCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 31 0.82
6 4 0.11
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:84121763 original size:15 final size:15
Alignment explanation
Indices: 84121725--84121776 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
84121715 TTTCTTTCCA
*
84121725 TTTTCTTTTCTTTTC
1 TTTTCTTTTCTTATC
84121740 TTTTCTTTTCTTAT-
1 TTTTCTTTTCTTATC
84121754 TTTTCTTTTTCTTCATC
1 TTTTC-TTTTCTT-ATC
*
84121771 ATTTCT
1 TTTTCT
84121777 ACTTCCTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 5 0.16
15 20 0.62
16 3 0.09
17 4 0.12
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTCTTATC
Found at i:84133127 original size:23 final size:23
Alignment explanation
Indices: 84133078--84133149 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 23
84133068 AAAACTATAA
*
84133078 AAAAATATTTAAAAACCCTAAACCCT
1 AAAAATA-TTAAAAA-CCTTAA-CCT
*
84133104 AATAATATT-AAAACCTTAGACCT
1 AAAAATATTAAAAACCTTA-ACCT
84133127 AAAAATATTAAAAACCTTAACCT
1 AAAAATATTAAAAACCTTAACCT
84133150 TAGGAGAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 19 0.46
24 14 0.34
25 2 0.05
26 6 0.15
ACGTcount: A:0.53, C:0.19, G:0.01, T:0.26
Consensus pattern (23 bp):
AAAAATATTAAAAACCTTAACCT
Found at i:84134812 original size:14 final size:14
Alignment explanation
Indices: 84134795--84134821 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
84134785 AATAATTCTT
84134795 AAATAAATTTTAAA
1 AAATAAATTTTAAA
84134809 AAATAAATTTTAA
1 AAATAAATTTTAA
84134822 CATAATTTAA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTTTAAA
Found at i:84137592 original size:16 final size:16
Alignment explanation
Indices: 84137573--84137603 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84137563 CTTCTTCACT
84137573 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
84137589 TACTTACTTACTTAA
1 TACTCACTTACTTAA
84137604 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:84137609 original size:20 final size:20
Alignment explanation
Indices: 84137570--84137609 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
84137560 AAACTTCTTC
* *
84137570 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
84137590 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
84137610 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:84137924 original size:53 final size:54
Alignment explanation
Indices: 84137795--84138041 Score: 256
Period size: 55 Copynumber: 4.6 Consensus size: 54
84137785 ACACGGGTAC
* * * * *
84137795 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA----T-CCTTTTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* *
84137844 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* * * * *
84137897 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-GAAA
* * * * *
84137952 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
*
84138005 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATG
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATG
84138042 TTATTCTTAA
Statistics
Matches: 166, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 35 0.21
53 50 0.30
54 14 0.08
55 67 0.40
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
Found at i:84137986 original size:108 final size:110
Alignment explanation
Indices: 84137842--84138041 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 110
84137832 ATCCTTTTGA
* * *
84137842 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
84137905 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
84137950 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
84138015 TGCCATGCCTTGGCATGGTCTTACATG
66 TGCCATGCCTTGGCATGGTCTTACATG
84138042 TTATTCTTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:84144385 original size:9 final size:9
Alignment explanation
Indices: 84144371--84144412 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
84144361 ATTCAATACT
84144371 TTAATTTGG
1 TTAATTTGG
84144380 TTAATTTGG
1 TTAATTTGG
*
84144389 TTAATTAGG
1 TTAATTTGG
*
84144398 TTAATTTAG
1 TTAATTTGG
84144407 TTAATT
1 TTAATT
84144413 CAGTTAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (9 bp):
TTAATTTGG
Found at i:84146850 original size:21 final size:21
Alignment explanation
Indices: 84146806--84146850 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
84146796 AGAAGTCCGG
* *
84146806 GTTGTATCGGTAGAACCCAGA
1 GTTGTATCAGTAGAACCCACA
84146827 GTTGTATCAGTAGAACTCC-CA
1 GTTGTATCAGTAGAAC-CCACA
84146848 GTT
1 GTT
84146851 CTACTAGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (21 bp):
GTTGTATCAGTAGAACCCACA
Found at i:84152595 original size:50 final size:50
Alignment explanation
Indices: 84152520--84152958 Score: 511
Period size: 50 Copynumber: 8.9 Consensus size: 50
84152510 TGATGCTAGG
* * * * *
84152520 GAGATATAAGAGCTAGTGCAAGACCATGTCTAGGACATGGCATTGGCCTT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
84152570 GAGATACGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATC-GCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
84152619 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
** * * *
84152669 GAGATACAAGAGCTAGTGTAAGACCATGTCTGAGACATGACATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
84152719 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * *
84152767 -TGATATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * *
84152814 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * * * * *
84152864 GATAGATGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCATC-GACT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
** * * *
84152912 TTGATATGTGAGCAAGTGTAAGACCATGTCCGGGACATGGCATCGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
84152959 ACCTTACCCT
Statistics
Matches: 340, Mismatches: 40, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
45 31 0.09
46 1 0.00
47 8 0.02
48 41 0.12
49 52 0.15
50 207 0.61
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:84152760 original size:100 final size:99
Alignment explanation
Indices: 84152520--84152958 Score: 484
Period size: 99 Copynumber: 4.5 Consensus size: 99
84152510 TGATGCTAGG
* * * * * *
84152520 GAGATATAAGAGCTAGTGCAAGACCATGTCTAGGACATGGCATTGGCCTTGAGATACGAGAGCTA
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACAAGAGCTA
* *
84152585 ATGTAAGACCATGTCTGGGACATGGCATCGCCTC
66 GTGTAAGACCATGTCTGAGACATGGCATCGCCTC
*
84152619 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACAAGAGCTA
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACAAGAGCTA
*
84152684 GTGTAAGACCATGTCTGAGACATGACATCAGCCTC
66 GTGTAAGACCATGTCTGAGACATGGCATC-GCCTC
* * * *
84152719 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CT--TGAT--ATGTG-TC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACAAGAGCT-
*
84152778 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-C
65 AGTGTAAGACCATGTCTGAGACATGGCATC-GC-CTC
* * * * * ** *
84152814 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGATGAGAGCC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATACAAGAGCT
* *
84152878 AGTGTAAAACCATGTCT-AGGACATGGCATCGACT-
65 AGTGTAAGACCATGTCTGA-GACATGGCATCGCCTC
** * * *
84152912 TTGATATGTGAGCAAGTGTAAGACCATGTCCGGGACATGGCATCGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
84152959 ACCTTACCCT
Statistics
Matches: 289, Mismatches: 39, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
94 1 0.00
95 76 0.26
96 1 0.00
97 4 0.01
98 42 0.15
99 87 0.30
100 78 0.27
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (99 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACAAGAGCTA
GTGTAAGACCATGTCTGAGACATGGCATCGCCTC
Found at i:84152851 original size:145 final size:147
Alignment explanation
Indices: 84152527--84152961 Score: 554
Period size: 145 Copynumber: 3.0 Consensus size: 147
84152517 AGGGAGATAT
* * * * * *
84152527 AAGAGCTAGTGCAAGACCATGTCTAGGACATGGCATTGGCCTTGAGATACGAGAGCTAATGTAAG
1 AAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTGTAAG
* * * * * *
84152592 ACCATGTCTGGGACATGGCATCGCCTCGAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACAT
66 ACCATGTCTAGGACATGGCATCGACT--TGATATGTGAGCAAGTGTAAGACCATGTCTGGGACAT
*
84152657 GGCATCGGC-CTCGAGATAC
129 GGCATCGGCAC-CGAGAGAC
* * *
84152676 AAGAGCTAGTGTAAGACCATGTCTGAGACATGACATCAGCCTCGAGATATGAGAGCTAGTGTAAG
1 AAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTGTAAG
* *
84152741 ACCATGTCTAGGACATGGCATCGGCTTGATATGTG-TC-AGTGTAAGACCATGTCTGGGACATGG
66 ACCATGTCTAGGACATGGCATCGACTTGATATGTGAGCAAGTGTAAGACCATGTCTGGGACATGG
* *
84152804 CATCGGCACCGATAGAT
131 CATCGGCACCGAGAGAC
* * * * *
84152821 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGATGAGAGCCAGTGTAA
1 AAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATATGAGAGCTAGTGTAA
* *
84152885 AACCATGTCTAGGACATGGCATCGACTTTGATATGTGAGCAAGTGTAAGACCATGTCCGGGACAT
65 GACCATGTCTAGGACATGGCATCGAC-TTGATATGTGAGCAAGTGTAAGACCATGTCTGGGACAT
84152950 GGCATCGGCACC
129 GGCATCGGCACC
84152962 TTACCCTATG
Statistics
Matches: 251, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
145 116 0.46
146 13 0.05
147 7 0.03
148 35 0.14
149 80 0.32
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (147 bp):
AAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTGTAAG
ACCATGTCTAGGACATGGCATCGACTTGATATGTGAGCAAGTGTAAGACCATGTCTGGGACATGG
CATCGGCACCGAGAGAC
Found at i:84158679 original size:48 final size:48
Alignment explanation
Indices: 84158622--84158741 Score: 123
Period size: 48 Copynumber: 2.5 Consensus size: 48
84158612 ACGAGATCAT
* * *
84158622 GTGTAAGACCATGTCTGGGACATGACATCGGCATTGATACGCAATCCC
1 GTGTAAGACCATGTCTGGGACATGACATCGACATCGATAAGCAATCCC
* * * * * ** **
84158670 GTGTAAGACCATATCAGGGATATGGCTTCGACATCGATAAGTGATTTC
1 GTGTAAGACCATGTCTGGGACATGACATCGACATCGATAAGCAATCCC
*
84158718 GTATAAGACCATGTCTGGGACATG
1 GTGTAAGACCATGTCTGGGACATG
84158742 GTATCGATAT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGACATCGACATCGATAAGCAATCCC
Found at i:84159820 original size:13 final size:13
Alignment explanation
Indices: 84159802--84159829 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
84159792 GACAAAAGGG
84159802 CTTGGAAAATAGC
1 CTTGGAAAATAGC
84159815 CTTGGAAAATAGC
1 CTTGGAAAATAGC
84159828 CT
1 CT
84159830 CAAAGTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (13 bp):
CTTGGAAAATAGC
Found at i:84162341 original size:37 final size:37
Alignment explanation
Indices: 84162291--84162367 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
84162281 AATAATAAAG
84162291 TTAGAGAAATGAGAAACATTCATAAATGAATATGGTT
1 TTAGAGAAATGAGAAACATTCATAAATGAATATGGTT
84162328 TTAGAGAAATGAGAAACATTCATAAATGAATATGGTT
1 TTAGAGAAATGAGAAACATTCATAAATGAATATGGTT
84162365 TTA
1 TTA
84162368 TCACTATGTA
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:0.45, C:0.05, G:0.18, T:0.31
Consensus pattern (37 bp):
TTAGAGAAATGAGAAACATTCATAAATGAATATGGTT
Found at i:84162596 original size:16 final size:17
Alignment explanation
Indices: 84162562--84162596 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
84162552 TAGAATCGGG
*
84162562 TTGAGAAATTTATTTAA
1 TTGAGAAATTTAATTAA
84162579 TTGAGAAA-TTAATTAA
1 TTGAGAAATTTAATTAA
84162595 TT
1 TT
84162597 AATTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (17 bp):
TTGAGAAATTTAATTAA
Found at i:84163937 original size:208 final size:214
Alignment explanation
Indices: 84163552--84164031 Score: 785
Period size: 208 Copynumber: 2.3 Consensus size: 214
84163542 GTTTTTAAAA
* * *
84163552 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGGTTCAG
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTAGCAGATTCAC
84163617 TAATATGATTATATATATAATATATATATTTACGCATGCATCACATTACAAAAACAAAATTTTAA
66 TAATATG--TATATATATAATATATATA-TTACGCATGCATCACATTACAAAAACAAAATTTTAA
*
84163682 ATACTTATACCTAATAAAACATGTATCTCATTACAATAATTGTTATTTC-CTAAATAACATATTA
128 ATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTCTC-AAATAACATATTA
84163746 TTTTATAATTTTATTTCTTATTT
192 TTTTATAATTTTATTTCTTATTT
*
84163769 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGATTCAC
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTAGCAGATTCAC
* *
84163834 TAATATG-AT-T-T-T-ATATATATA-TACGCATGTATTACATTACAAAAACAAAATTTTAAATA
66 TAATATGTATATATATAATATATATATTACGCATGCATCACATTACAAAAACAAAATTTTAAATA
* * *
84163893 CTTATACCTAATAAAACATGTATCTCATTATAATAATAGTTATTTTTCAAATAACATATTGTTTT
131 CTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTCTCAAATAACATATTATTTT
84163958 ATAATTTTATTTCTTATTT
196 ATAATTTTATTTCTTATTT
84163977 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTA
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTA
84164032 TTAAAATTAA
Statistics
Matches: 251, Mismatches: 11, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
208 168 0.67
209 1 0.00
210 9 0.04
211 1 0.00
212 1 0.00
213 1 0.00
214 2 0.01
217 68 0.27
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (214 bp):
AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTAGCAGATTCAC
TAATATGTATATATATAATATATATATTACGCATGCATCACATTACAAAAACAAAATTTTAAATA
CTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTCTCAAATAACATATTATTTT
ATAATTTTATTTCTTATTT
Found at i:84167455 original size:15 final size:14
Alignment explanation
Indices: 84167415--84167458 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
84167405 ACAAAAATGA
*
84167415 TTAAATTTTA-ATT
1 TTAATTTTTATATT
84167428 TTAATTTTTATATT
1 TTAATTTTTATATT
*
84167442 TTAGTTTTTGATATT
1 TTAATTTTT-ATATT
84167457 TT
1 TT
84167459 TTTATTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 9 0.33
14 11 0.41
15 7 0.26
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TTAATTTTTATATT
Found at i:84168112 original size:24 final size:24
Alignment explanation
Indices: 84168079--84168134 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
84168069 AACCCTCTAT
*
84168079 TTAAATTTCTGCCTATTTTAGCCA
1 TTAAACTTCTGCCTATTTTAGCCA
*
84168103 TTAAACTTCTGCTTATTTTAGCCA
1 TTAAACTTCTGCCTATTTTAGCCA
84168127 TTAAACTT
1 TTAAACTT
84168135 ACATTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (24 bp):
TTAAACTTCTGCCTATTTTAGCCA
Found at i:84168331 original size:29 final size:27
Alignment explanation
Indices: 84168267--84168331 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
84168257 TTTTCTTATG
* * *
84168267 TTTTTATATATTTTAATAATTTTTAAT
1 TTTTTAAATAATTTAATAATTTTGAAT
**
84168294 TTTAAAAATAATTTATATATATTTTGAAT
1 TTTTTAAATAATTTA-ATA-ATTTTGAAT
84168323 TTTTTAAAT
1 TTTTTAAAT
84168332 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 11 0.38
28 3 0.10
29 15 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTTAAATAATTTAATAATTTTGAAT
Found at i:84168807 original size:17 final size:17
Alignment explanation
Indices: 84168785--84168817 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
84168775 ATTTTTAATG
*
84168785 AAAAAGTAAAAAAAAGA
1 AAAAAGAAAAAAAAAGA
84168802 AAAAAGAAAAAAAAAG
1 AAAAAGAAAAAAAAAG
84168818 GTCATAATCG
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:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGA
Found at i:84170353 original size:15 final size:15
Alignment explanation
Indices: 84170333--84170382 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
84170323 GTTGAATCAA
84170333 ATTAAATTATTTATT
1 ATTAAATTATTTATT
* * *
84170348 ATTAAATAATTGAAT
1 ATTAAATTATTTATT
84170363 -TTAAATT-TTATATT
1 ATTAAATTATT-TATT
84170377 ATTAAA
1 ATTAAA
84170383 AATTAAATGA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 17 0.63
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTAAATTATTTATT
Found at i:84170826 original size:23 final size:24
Alignment explanation
Indices: 84170794--84170846 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
84170784 AGCCTTTTTA
* *
84170794 ATTTTGTTAGG-TTTAGGGTTAGG
1 ATTTTGTTAGGATTAAGAGTTAGG
*
84170817 ATTTTTTTAGGAATTAAGAGTTAGG
1 ATTTTGTTAGG-ATTAAGAGTTAGG
84170842 ATTTT
1 ATTTT
84170847 AAGAGTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.40
25 15 0.60
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (24 bp):
ATTTTGTTAGGATTAAGAGTTAGG
Found at i:84173771 original size:16 final size:16
Alignment explanation
Indices: 84173744--84173782 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
84173734 CTTCCCTTTT
*
84173744 TAAAATAAAATAAA-A
1 TAAAAAAAAATAAATA
84173759 TAACAAAAAAATAAATA
1 TAA-AAAAAAATAAATA
84173776 TAAAAAA
1 TAAAAAA
84173783 TACTTATAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
TAAAAAAAAATAAATA
Found at i:84175626 original size:21 final size:20
Alignment explanation
Indices: 84175598--84175638 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
84175588 GTCAATCACT
84175598 AAAAGTTCACACAAACAGAC
1 AAAAGTTCACACAAACAGAC
**
84175618 AAAATGTTCTGACAAACAGAC
1 AAAA-GTTCACACAAACAGAC
84175639 GTATATTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.22, G:0.12, T:0.15
Consensus pattern (20 bp):
AAAAGTTCACACAAACAGAC
Found at i:84177579 original size:28 final size:27
Alignment explanation
Indices: 84177539--84177628 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
84177529 TATCTAGCTT
* * *
84177539 ATTAAGCCCAATCATATTCATATGGCCC
1 ATTAGGCCAAATCACATT-ATATGGCCC
*
84177567 ATTAGGCCAAATCACCTGTATATGGCCC
1 ATTAGGCCAAATCACAT-TATATGGCCC
84177595 ATTAGGCCCAAATCACATTTATATGGCCC
1 ATTAGG-CCAAATCACA-TTATATGGCCC
*
84177624 GTTAG
1 ATTAG
84177629 ACCCAGCACA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 28 0.53
29 24 0.45
30 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
ATTAGGCCAAATCACATTATATGGCCC
Found at i:84177617 original size:29 final size:29
Alignment explanation
Indices: 84177539--84177633 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
84177529 TATCTAGCTT
* * *
84177539 ATTAAGCCC-AATCATATTCATATGGCCC
1 ATTAGGCCCAAATCACATTTATATGGCCC
* *
84177567 ATTAGG-CCAAATCACCTGTATATGGCCC
1 ATTAGGCCCAAATCACATTTATATGGCCC
84177595 ATTAGGCCCAAATCACATTTATATGGCCC
1 ATTAGGCCCAAATCACATTTATATGGCCC
* *
84177624 GTTAGACCCA
1 ATTAGGCCCA
84177634 GCACATTCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
27 2 0.04
28 26 0.46
29 28 0.50
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (29 bp):
ATTAGGCCCAAATCACATTTATATGGCCC
Found at i:84181610 original size:9 final size:9
Alignment explanation
Indices: 84181598--84181654 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
84181588 AAAAATTGTA
84181598 AGAATTGAG
1 AGAATTGAG
*
84181607 AGAAGTGAG
1 AGAATTGAG
*
84181616 AGAGTTGAG
1 AGAATTGAG
84181625 AGAATTGAG
1 AGAATTGAG
*
84181634 AG-TTTAGAG
1 AGAATT-GAG
*
84181643 AGAATAGAG
1 AGAATTGAG
84181652 AGA
1 AGA
84181655 GTTAGATTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 2 0.05
9 36 0.92
10 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.37, T:0.19
Consensus pattern (9 bp):
AGAATTGAG
Found at i:84185559 original size:13 final size:13
Alignment explanation
Indices: 84185543--84185570 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
84185533 ATATTTTATC
84185543 AACCTATTTATTT
1 AACCTATTTATTT
84185556 AACCTATTTATTT
1 AACCTATTTATTT
84185569 AA
1 AA
84185571 GGTGTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (13 bp):
AACCTATTTATTT
Found at i:84188500 original size:43 final size:43
Alignment explanation
Indices: 84188439--84188531 Score: 159
Period size: 43 Copynumber: 2.2 Consensus size: 43
84188429 AATAAAAATG
*
84188439 AGTTTTTCAACATAATATGAAACTAATGATTCACAGTCAATAT
1 AGTTTTTCAACATAATATGAAACTAACGATTCACAGTCAATAT
*
84188482 AGTTTTTCAACATAATATGAAACTAACGATTCATAGTCAATAT
1 AGTTTTTCAACATAATATGAAACTAACGATTCACAGTCAATAT
*
84188525 ACTTTTT
1 AGTTTTT
84188532 TGATATCTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (43 bp):
AGTTTTTCAACATAATATGAAACTAACGATTCACAGTCAATAT
Found at i:84194238 original size:38 final size:38
Alignment explanation
Indices: 84194178--84194255 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
84194168 GGTCATTTGG
*
84194178 TGGAAAATTGAGAGTGAGTGATAGGTTTGAGTTATGTA
1 TGGAAAATTGAGAGTGAATGATAGGTTTGAGTTATGTA
*
84194216 TGGATAATTGAGAGTGAATGATAGGTTTGAGTTATGTA
1 TGGAAAATTGAGAGTGAATGATAGGTTTGAGTTATGTA
84194254 TG
1 TG
84194256 TACTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (38 bp):
TGGAAAATTGAGAGTGAATGATAGGTTTGAGTTATGTA
Found at i:84197919 original size:19 final size:20
Alignment explanation
Indices: 84197890--84197927 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
84197880 CAATGATTCA
*
84197890 ATGGACATGAAACTCTTGAC
1 ATGGACATGAAAATCTTGAC
84197910 ATGG-CATGAAAATCTTGA
1 ATGGACATGAAAATCTTGA
84197928 GATGATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
ATGGACATGAAAATCTTGAC
Found at i:84197937 original size:19 final size:19
Alignment explanation
Indices: 84197893--84197937 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
84197883 TGATTCAATG
*
84197893 GACATGAAACTCTTGACAT
1 GACATGAAAATCTTGACAT
* *
84197912 GGCATGAAAATCTTGAGAT
1 GACATGAAAATCTTGACAT
*
84197931 GATATGA
1 GACATGA
84197938 TAATGACTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (19 bp):
GACATGAAAATCTTGACAT
Found at i:84207465 original size:20 final size:20
Alignment explanation
Indices: 84207442--84207486 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
84207432 AGGGACTAAA
*
84207442 ATGAAAATTTATAAAATTTG
1 ATGAAAAATTATAAAATTTG
* *
84207462 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTATAAAATTTG
84207482 ATGAA
1 ATGAA
84207487 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:84208361 original size:19 final size:19
Alignment explanation
Indices: 84208318--84208361 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
84208308 GATTCAACGG
* *
84208318 ATATGAAATTCTTGACATG
1 ATATGAAAATCTTGACATA
* *
84208337 ACATGAAAATCTTGAGATA
1 ATATGAAAATCTTGACATA
84208356 ATATGA
1 ATATGA
84208362 TAATGATTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (19 bp):
ATATGAAAATCTTGACATA
Found at i:84210672 original size:20 final size:18
Alignment explanation
Indices: 84210647--84210685 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
84210637 GAAGTTTATA
*
84210647 AAATAAGTTGTAAATGTGTG
1 AAATAA-TTGAAAAT-TGTG
84210667 AAATAATTGAAAATTGTG
1 AAATAATTGAAAATTGTG
84210685 A
1 A
84210686 GGTTCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (18 bp):
AAATAATTGAAAATTGTG
Found at i:84211221 original size:48 final size:48
Alignment explanation
Indices: 84211150--84211327 Score: 182
Period size: 48 Copynumber: 3.7 Consensus size: 48
84211140 TATGTGTGCT
* *
84211150 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * *
84211198 AGTGTAAGATCATGCCTAGGACATGGCAT-TG--ACATTGATATGTGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACA-T--TATGAGAGCC
* ** *
84211246 AGTGTAAGACCATGTTTAGGACATGTTATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCC
* *
84211294 AGTATAAGACCATGTCTGGGACATGGCATCGGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCC
84211328 TGTGTAACTC
Statistics
Matches: 101, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
45 3 0.03
46 1 0.01
47 1 0.01
48 91 0.90
49 1 0.01
50 1 0.01
51 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:84211302 original size:96 final size:96
Alignment explanation
Indices: 84211137--84211322 Score: 300
Period size: 96 Copynumber: 1.9 Consensus size: 96
84211127 GACAATTGGG
* *
84211137 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCACATTATGAGAGCCAGTA
*
84211202 TAAGATCATGCCTAGGACATGGCATTGACAT
66 TAAGACCATGCCTAGGACATGGCATTGACAT
** *
84211233 TGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGTTATTGGCCACATTATGAGAGCCAGTA
1 TGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCACATTATGAGAGCCAGTA
* *
84211298 TAAGACCATGTCTGGGACATGGCAT
66 TAAGACCATGCCTAGGACATGGCAT
84211323 CGGCCTGTGT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCACATTATGAGAGCCAGTA
TAAGACCATGCCTAGGACATGGCATTGACAT
Found at i:84214100 original size:17 final size:18
Alignment explanation
Indices: 84214067--84214101 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
84214057 TAACTTAGCT
*
84214067 AGAATTTGAATAATAGAA
1 AGAATATGAATAATAGAA
84214085 AGAATATGAA-AATAGAA
1 AGAATATGAATAATAGAA
84214102 TGTTATCGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (18 bp):
AGAATATGAATAATAGAA
Found at i:84219396 original size:27 final size:27
Alignment explanation
Indices: 84219333--84219386 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
84219323 TGTCAAGTGA
**
84219333 AATTGAATGGCAAATTATCATTACATG
1 AATTGAATGTTAAATTATCATTACATG
84219360 AATTGAATGTTAAATTA-CTATTACATG
1 AATTGAATGTTAAATTATC-ATTACATG
84219387 GGTTGTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (27 bp):
AATTGAATGTTAAATTATCATTACATG
Found at i:84231116 original size:50 final size:49
Alignment explanation
Indices: 84231000--84231175 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 49
84230990 TGAGGTCGCA
* * * * * *
84231000 TGTGTAGTACTAAGTTCAGGCTACTATGCGTACCCGAAAACTGT-GATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* **
84231051 TGTGGAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
84231101 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
84231150 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
84231176 TGCATACCAG
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 30 0.29
50 40 0.38
51 29 0.28
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:84231184 original size:49 final size:49
Alignment explanation
Indices: 84230993--84231186 Score: 171
Period size: 49 Copynumber: 3.9 Consensus size: 49
84230983 TTTATTGTGA
* * *
84230993 GGTCGCATGTGTAGTACTAAGTTCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * ** *
84231044 GAT--CATGTGTGGAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCGCATGTGT--AGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* * * *
84231094 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
84231143 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
84231187 TAGTTTCGGC
Statistics
Matches: 115, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 45 0.39
50 33 0.29
51 27 0.23
52 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:84240735 original size:21 final size:21
Alignment explanation
Indices: 84240722--84240762 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
84240712 TAATAATGAG
84240722 AATAACAACACTAATAAAAAC
1 AATAACAACACTAATAAAAAC
*
84240743 AGTAACAACACTAATAAAAA
1 AATAACAACACTAATAAAAA
84240763 GAGTTAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (21 bp):
AATAACAACACTAATAAAAAC
Found at i:84243769 original size:213 final size:213
Alignment explanation
Indices: 84243397--84243825 Score: 637
Period size: 213 Copynumber: 2.0 Consensus size: 213
84243387 TAGTTATTGC
* * * *
84243397 TATAGGGGTTATTTTGAGGTCTAGAATTATTATCCATAAAGTTGACTTGTTCATACTCCATGTTA
1 TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
* * * *
84243462 GAACTAAAGGGTAAACCTTCGGGATTGATCATCCCCGCTCCAGTTGCGTCACATTGCATTATTGG
66 GAACTAAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTGG
* * * *
84243527 ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTCTTTAGTACCTT-TACCTGACTTGCC
131 ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAAT-CCTTCTACCTGACATGCC
84243591 AACATAACAACTGCATCCA
195 AACATAACAACTGCATCCA
* *
84243610 TATAAGGGTTATTTTGCGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATGCTCCATGTTA
1 TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
* * * *
84243675 GAA-TCGAAGGGAAAACATTCTGGATTGATCATCCCTGGTCCAGTTGCATCACATTGCATTACTG
66 GAACT-AAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTG
* *
84243739 GATTCATCGTATTATTGCAACTCAAACCATCCATTTTTTTATTCAATGCTTCTACCTGACATGCC
130 GATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAATCCTTCTACCTGACATGCC
*
84243804 AACATAGCAACTGCATCCA
195 AACATAACAACTGCATCCA
84243823 TAT
1 TAT
84243826 TAAAAACACC
Statistics
Matches: 193, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
212 4 0.02
213 189 0.98
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (213 bp):
TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
GAACTAAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTGG
ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAATCCTTCTACCTGACATGCCA
ACATAACAACTGCATCCA
Found at i:84245489 original size:120 final size:120
Alignment explanation
Indices: 84245276--84245515 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
84245266 AAGGACAAAA
84245276 TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
1 TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
84245341 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
66 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
*
84245396 TCGTAAAAAGTTTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
1 TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
84245461 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
66 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
84245516 AAGGTTTTAT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (120 bp):
TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
Found at i:84249200 original size:83 final size:83
Alignment explanation
Indices: 84249061--84249251 Score: 212
Period size: 83 Copynumber: 2.3 Consensus size: 83
84249051 AATACTCGAT
* * *
84249061 ATCTCACACACTAAGTGCCAAAGCATAGCTGAAGCTATTATAATCTCGTACACTAAGTGCCTTT-
1 ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGTACACTAAGTG-CTTTA
* *
84249125 CGTAGCCGAAGCTGTCTCA
65 CATAGCCGAAGCTATCTCA
* * *
84249144 ATCTCGCACACTAAGTGCCATATA-TATAGCCGAAGCTATTCCAAT-TCGTGCACTAAGTGCTTT
1 ATCTCGCACACTAAGTGCCA-A-AGCATAGCCGAAGCTATTACAATCTCGTACACTAAGTGCTTT
* *
84249207 ATATAGCCGAAGCTATCTCG
64 ACATAGCCGAAGCTATCTCA
* *
84249227 AT-ACGCACACTAAGTG-CAAAACATA
1 ATCTCGCACACTAAGTGCCAAAGCATA
84249252 TCCGGTTCAT
Statistics
Matches: 92, Mismatches: 12, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
79 1 0.01
80 4 0.04
81 2 0.02
82 17 0.18
83 49 0.53
84 18 0.20
85 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (83 bp):
ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGTACACTAAGTGCTTTAC
ATAGCCGAAGCTATCTCA
Found at i:84249238 original size:40 final size:41
Alignment explanation
Indices: 84249110--84249243 Score: 148
Period size: 40 Copynumber: 3.3 Consensus size: 41
84249100 ATAATCTCGT
** *
84249110 ACACTAAGTGCCTTT-CGTAGCCGAAGCTGTCTCAATCTCGC
1 ACACTAAGTGCCTTTATATAGCCGAAGCTATCTCAAT-TCGC
* *
84249151 ACACTAAGTGCCATATATATAGCCGAAGCTAT-TCCAATTCGT
1 ACACTAAGTGCC-TTTATATAGCCGAAGCTATCT-CAATTCGC
* * *
84249193 GCACTAAGTG-CTTTATATAGCCGAAGCTATCTCGATACGC
1 ACACTAAGTGCCTTTATATAGCCGAAGCTATCTCAATTCGC
84249233 ACACTAAGTGC
1 ACACTAAGTGC
84249244 AAAACATATC
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
40 32 0.42
41 14 0.18
42 15 0.19
43 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
ACACTAAGTGCCTTTATATAGCCGAAGCTATCTCAATTCGC
Found at i:84254219 original size:13 final size:15
Alignment explanation
Indices: 84254201--84254232 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
84254191 TTAACTTATC
84254201 AATCTCTT-CCTC-G
1 AATCTCTTACCTCTG
84254214 AATCTCTTACCTCTG
1 AATCTCTTACCTCTG
84254229 AATC
1 AATC
84254233 AACCTTTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (15 bp):
AATCTCTTACCTCTG
Found at i:84268253 original size:20 final size:20
Alignment explanation
Indices: 84268228--84268265 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
84268218 TATTTGAAAC
84268228 TGAAATATAACATCAAATGA
1 TGAAATATAACATCAAATGA
84268248 TGAAATATAACATCAAAT
1 TGAAATATAACATCAAAT
84268266 AAAATTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (20 bp):
TGAAATATAACATCAAATGA
Found at i:84272253 original size:28 final size:28
Alignment explanation
Indices: 84272222--84272283 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
84272212 AATCATAAAT
*
84272222 AAAAATTAGAAAAAGAG-TTTAT-AAAAA
1 AAAAATAAGAAAAAGAGATTT-TCAAAAA
*
84272249 GAAAAAAAAGAAAAAGAGATTTTCAAAAA
1 -AAAAATAAGAAAAAGAGATTTTCAAAAA
84272278 AAAAAT
1 AAAAAT
84272284 CAGTAGACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (28 bp):
AAAAATAAGAAAAAGAGATTTTCAAAAA
Found at i:84277116 original size:18 final size:17
Alignment explanation
Indices: 84277095--84277128 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
84277085 TTTTTATGTA
*
84277095 TTTTAATTTTTATATTTT
1 TTTTAAATTTTA-ATTTT
84277113 TTTTAAATTTTAATTT
1 TTTTAAATTTTAATTT
84277129 AAATGGGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTAAATTTTAATTTT
Found at i:84277704 original size:10 final size:10
Alignment explanation
Indices: 84277689--84277718 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
84277679 TCGGCTGTGG
*
84277689 GCTGTGCTTT
1 GCTGTGCCTT
84277699 GCTGTGCCTT
1 GCTGTGCCTT
84277709 GCTGTGCCTT
1 GCTGTGCCTT
84277719 ATCTCCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.30, T:0.43
Consensus pattern (10 bp):
GCTGTGCCTT
Found at i:84284327 original size:31 final size:30
Alignment explanation
Indices: 84284288--84284361 Score: 114
Period size: 31 Copynumber: 2.5 Consensus size: 30
84284278 AATAGAACAA
84284288 AAGAAAAAAAAGCTTGTTTAACAAAACGAG
1 AAGAAAAAAAAGCTTGTTTAACAAAACGAG
* *
84284318 ATAGAAAAAAGAGTTTGTTTAACAAAACGAG
1 A-AGAAAAAAAAGCTTGTTTAACAAAACGAG
84284349 AA-AAAAAAAAGCT
1 AAGAAAAAAAAGCT
84284362 GTTAGAAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 9 0.23
30 2 0.05
31 28 0.72
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.18
Consensus pattern (30 bp):
AAGAAAAAAAAGCTTGTTTAACAAAACGAG
Found at i:84284350 original size:27 final size:29
Alignment explanation
Indices: 84284272--84284361 Score: 101
Period size: 31 Copynumber: 3.0 Consensus size: 29
84284262 ACAATTTCTA
* * *
84284272 TTGTTTAATAGAACAAAAGAAAAAAAAGC
1 TTGTTTAACAAAACAGAAGAAAAAAAAGC
* *
84284301 TTGTTTAACAAAACGAGATAGAAAAAAGAGT
1 TTGTTTAACAAAAC-AGA-AGAAAAAAAAGC
84284332 TTGTTTAACAAAACGAGAA-AAAAAAAAGC
1 TTGTTTAACAAAAC-AGAAGAAAAAAAAGC
84284361 T
1 T
84284362 GTTAGAAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 21 0.40
30 3 0.06
31 28 0.54
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.21
Consensus pattern (29 bp):
TTGTTTAACAAAACAGAAGAAAAAAAAGC
Found at i:84292699 original size:83 final size:83
Alignment explanation
Indices: 84292560--84292740 Score: 353
Period size: 83 Copynumber: 2.2 Consensus size: 83
84292550 GGAGGCAATG
84292560 CACACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTTCATTTCAAACCTACAGG
1 CACACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTTCATTTCAAACCTACAGG
84292625 GGTTTTCACACGGCCGAC
66 GGTTTTCACACGGCCGAC
*
84292643 CACACGCCCGTGTCCCTTACCCTTGTGGAATTAATTGAATTTATTTTTCATTTCAAACCTACAGG
1 CACACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTTCATTTCAAACCTACAGG
84292708 GGTTTTCACACGGCCGAC
66 GGTTTTCACACGGCCGAC
84292726 CACACGCCCGTGTCC
1 CACACGCCCGTGTCC
84292741 TTGGCCTGTG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 97 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (83 bp):
CACACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTTCATTTCAAACCTACAGG
GGTTTTCACACGGCCGAC
Found at i:84294450 original size:21 final size:21
Alignment explanation
Indices: 84294425--84294468 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
84294415 AGTATATTTA
*
84294425 AAGTTTTCTTCGAGTTACACG
1 AAGTTTACTTCGAGTTACACG
84294446 AAGTTTACTTCGAGTTACACG
1 AAGTTTACTTCGAGTTACACG
84294467 AA
1 AA
84294469 CTTATTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (21 bp):
AAGTTTACTTCGAGTTACACG
Found at i:84297038 original size:46 final size:46
Alignment explanation
Indices: 84296895--84297108 Score: 163
Period size: 46 Copynumber: 4.6 Consensus size: 46
84296885 ATGCTGATGC
* ** * *
84296895 CATGT-CTCAGACATGGTCTTACACTGGCTCATATCTC-AAGTCGATG
1 CATGTCCT-AGACAT-GTCTTACACTGGCTTACGTCTCGAAGCCAATG
* * * * * *
84296941 ACATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGCTAATA
1 -CATGTCCTAGACAT-GTCTTACACTGGCTTACGTCTCGAAGCCAATG
84296987 CATGTCCTA-AGCATGTCTTACACTGGCTTACGTCTCGAAGCCAATG
1 CATGTCCTAGA-CATGTCTTACACTGGCTTACGTCTCGAAGCCAATG
* * * *
84297033 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTC-AATGTCGATG
1 CATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCGAA-GCCAATG
84297079 CCATGTCCTAGACATGGTCTTACACTGGCT
1 -CATGTCCTAGACAT-GTCTTACACTGGCT
84297109 CATAATAACC
Statistics
Matches: 137, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 13 0.09
45 19 0.14
46 52 0.38
47 39 0.28
48 14 0.10
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTGGCTTACGTCTCGAAGCCAATG
Found at i:84312446 original size:42 final size:42
Alignment explanation
Indices: 84312399--84312485 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
84312389 ACTAAAAAGA
84312399 ACATACATTAAAACCATCATAATCTATCTCTAAAACTTTAAC
1 ACATACATTAAAACCATCATAATCTATCTCTAAAACTTTAAC
*
84312441 ACATACATTAAAACTATCATAATCTATCTCTAAAACTTTAAC
1 ACATACATTAAAACCATCATAATCTATCTCTAAAACTTTAAC
84312483 ACA
1 ACA
84312486 AATACAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (42 bp):
ACATACATTAAAACCATCATAATCTATCTCTAAAACTTTAAC
Found at i:84312477 original size:22 final size:22
Alignment explanation
Indices: 84312407--84312477 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
84312397 GAACATACAT
*
84312407 TAAAACCATCATAATCTATCTC
1 TAAAACTATCATAATCTATCTC
*
84312429 TAAAACT-T--TAA-CACATACAT-
1 TAAAACTATCATAATC-TAT-C-TC
84312449 TAAAACTATCATAATCTATCTC
1 TAAAACTATCATAATCTATCTC
84312471 TAAAACT
1 TAAAACT
84312478 TTAACACAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 8 0.21
21 4 0.11
22 14 0.37
23 5 0.13
24 1 0.03
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAACTATCATAATCTATCTC
Found at i:84312539 original size:19 final size:19
Alignment explanation
Indices: 84312517--84312558 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
84312507 AATATAATCT
*
84312517 TAAATATTAAATCTAAAA-A
1 TAAATAATAAAT-TAAAATA
84312536 TAAATAATAAATTAAAATA
1 TAAATAATAAATTAAAATA
84312555 TAAA
1 TAAA
84312559 CATACATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATAATAAATTAAAATA
Found at i:84326809 original size:22 final size:26
Alignment explanation
Indices: 84326771--84326832 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 26
84326761 ATCTCAATTC
*
84326771 ATCAATCAATTCATACCAAAAC-T-TA
1 ATCAAT-AAATCATACCAAAACGTATA
*
84326796 A-CAA-AAATCATACCTAAACGTATA
1 ATCAATAAATCATACCAAAACGTATA
84326820 ATCAATAAATCAT
1 ATCAATAAATCAT
84326833 GTAATCTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 13 0.42
23 1 0.03
24 6 0.19
25 4 0.13
26 7 0.23
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.26
Consensus pattern (26 bp):
ATCAATAAATCATACCAAAACGTATA
Found at i:84330171 original size:42 final size:42
Alignment explanation
Indices: 84330114--84330233 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 42
84330104 AGGGTTTCTG
*
84330114 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATA-T
1 AGATTACATGTAAGACCATATCTGGGATATGGCATAGATACT
* * * *
84330155 GAGACTT-CGTGTAAGACCATAGCTAGGCTATTGGCATAGATACT
1 -AGA-TTACATGTAAGACCATATCTGGGATA-TGGCATAGATACT
84330199 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACATGTAAGACCATATCTGGGATATGGCAT
84330234 TAGTATGGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
AGATTACATGTAAGACCATATCTGGGATATGGCATAGATACT
Found at i:84345262 original size:28 final size:29
Alignment explanation
Indices: 84345224--84345289 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
84345214 TACTCTCGCA
* *
84345224 CACTTAAGGGTTCGCACAAGTAGGGGTAG
1 CACTTAAGGGTTCACACAAGTAAGGGTAG
* *
84345253 CACTT-AGGGTTCACGCAAGTAAGGGTTG
1 CACTTAAGGGTTCACACAAGTAAGGGTAG
*
84345281 CACCTAAGG
1 CACTTAAGG
84345290 TTTGCATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (29 bp):
CACTTAAGGGTTCACACAAGTAAGGGTAG
Found at i:84345452 original size:21 final size:21
Alignment explanation
Indices: 84345428--84345477 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
84345418 CATAATTTGA
*
84345428 CTCGCATGTAATATTAATAGG
1 CTCGCATATAATATTAATAGG
*
84345449 CTCGCATATGATATTAATAGG
1 CTCGCATATAATATTAATAGG
*
84345470 CTCACATA
1 CTCGCATA
84345478 ATTTGGCCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (21 bp):
CTCGCATATAATATTAATAGG
Found at i:84349398 original size:47 final size:47
Alignment explanation
Indices: 84349347--84349538 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
84349337 TTAGGATTTT
84349347 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84349394 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84349441 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
84349488 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
84349533 ATGTGA
1 ATGTGA
84349539 AATATATATA
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 25 0.19
47 108 0.81
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:84349400 original size:22 final size:22
Alignment explanation
Indices: 84349372--84349447 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
84349362 ACATGCATAT
84349372 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
84349394 ATGTGATAAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
84349418 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
84349441 ATGTGAT
1 ATGTGAT
84349448 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:84349496 original size:25 final size:25
Alignment explanation
Indices: 84349421--84349496 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
84349411 ATGCATATAT
84349421 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
84349446 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
84349468 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
84349493 GTGA
1 GTGA
84349497 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:84349570 original size:50 final size:50
Alignment explanation
Indices: 84349497--84349693 Score: 317
Period size: 50 Copynumber: 4.0 Consensus size: 50
84349487 AATGTGGTGA
*
84349497 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
*
84349546 ATATGAGATATGCATATGTGGTAAAGCCGACTGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
*
84349596 ATATGAGATATGCATATGTGGTAAAGCCGACTGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* * *
84349646 ATATGAGATATGTATATGTGGTAAAGACGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
84349694 GTAGGCGAGG
Statistics
Matches: 140, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
49 7 0.05
50 133 0.95
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:84349951 original size:37 final size:37
Alignment explanation
Indices: 84349842--84349951 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
84349832 TGGAAATATA
*
84349842 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
* * *
84349879 GTCTGGGTAAGATCCGATGACTACGTGTGGAGATTTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
* *
84349916 TTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
84349952 CGTCTAAGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (37 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
Found at i:84352447 original size:22 final size:22
Alignment explanation
Indices: 84352395--84352448 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
84352385 ACTACCATGG
*
84352395 ATGTATTATGCCAATATAATTGA
1 ATGT-TTATGCCAATATAATCGA
* * * *
84352418 TTGATTATGCCAGTATGATCGA
1 ATGTTTATGCCAATATAATCGA
84352440 ATGTTTATG
1 ATGTTTATG
84352449 TGTTAAAAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (22 bp):
ATGTTTATGCCAATATAATCGA
Found at i:84357588 original size:48 final size:48
Alignment explanation
Indices: 84357533--84357805 Score: 288
Period size: 48 Copynumber: 5.7 Consensus size: 48
84357523 TATGTGTGCT
84357533 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCC
* * * * *
84357581 AGTGTAAGATCATGTTTGGAACATGACATC-AGCA-ATGTAATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATAT-T-ATGAGAGCC
* * * *
84357629 AGTGTAAGACCATGTCTGGGACATGGCATCTA-CAT-TGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATAT--TATGAGAGCC
* * * *
84357677 AGTGTAAGACCATGTCTCGGACACGACATCGACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCC
* * *
84357725 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAT--ATTATGAGAGCC
* *
84357773 AGTGTAAGACCATGTTTGGAACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
84357806 AATTCACCCA
Statistics
Matches: 185, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
46 2 0.01
47 4 0.02
48 173 0.94
49 5 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCC
Found at i:84357644 original size:96 final size:96
Alignment explanation
Indices: 84357533--84357805 Score: 335
Period size: 96 Copynumber: 2.8 Consensus size: 96
84357523 TATGTGTGCT
* *
84357533 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCCAGTGTAAGATCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGTGAGCCAGTGTAAGACCATGTTT
*
84357598 GGAACATGACATC-AGCA-ATGTAATGAGAGCC
66 GGAACATGACATCGACCACAT-T-ATGAGAGCC
* * *
84357629 AGTGTAAGACCATGTCTGGGACATGGCATCTA-CAT-TGATATGTGCGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATAT--TATGTGAGCCAGTGTAAGACCATGT
* *
84357692 CTCGG-ACACGACATCGACCACATTATGAGAGCC
64 -TTGGAACATGACATCGACCACATTATGAGAGCC
* *
84357725 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCGA-CATGTGAGCCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAT--ATTATGTGAGCCAGTGTAAGACCATGT
*
84357788 TTGGAACATGGCATCGAC
64 TTGGAACATGACATCGAC
84357806 AATTCACCCA
Statistics
Matches: 151, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
94 1 0.01
95 6 0.04
96 134 0.89
97 8 0.05
98 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGTGAGCCAGTGTAAGACCATGTTT
GGAACATGACATCGACCACATTATGAGAGCC
Found at i:84357780 original size:144 final size:144
Alignment explanation
Indices: 84357520--84357802 Score: 408
Period size: 144 Copynumber: 2.0 Consensus size: 144
84357510 GACATTTGGG
* * * * *
84357520 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTCGGACACGACATCGACCACATTATGAGAGCCAGTG
* * *
84357585 TAAGATCATGTTTGGAACATGACATCAGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGA
66 TAAGACCATGTCTGGAACATGACATCAGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGAA
84357650 CATGGCATCTACAT
131 CATGGCATCTACAT
84357664 TGATATGTGCGCTAGTGTAAGACCATGTCTCGGACACGACATCGACCACATTATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTCGGACACGACATCGACCACATTATGAGAGCCAGTG
* * * * * *
84357729 TAAGACCATGTCTGGGACATGGCATCGGC-CTCG-ACATGTGAGCCAGTGTAAGACCATGTTTGG
66 TAAGACCATGTCTGGAACATGACATCAGCAAT-GTA-ATGAGAGCCAGTGTAAGACCATGTCTGG
84357792 AACATGGCATC
129 AACATGGCATC
84357803 GACAATTCAC
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
143 2 0.02
144 121 0.98
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTCGGACACGACATCGACCACATTATGAGAGCCAGTG
TAAGACCATGTCTGGAACATGACATCAGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGAA
CATGGCATCTACAT
Found at i:84362577 original size:42 final size:42
Alignment explanation
Indices: 84362500--84362650 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 42
84362490 GGCTGTTACA
*
84362500 AAGACCATATCTGAGATATGGCTTC-AGTATGAGACTATGTGT
1 AAGACCATATCTGAGATATGGCATCGA-TATGAGACTATGTGT
* * *
84362542 AAGACCATATCTGGGATATGGCATCGATATAAGACT-TCGTGC
1 AAGACCATATCTGAGATATGGCATCGATATGAGACTAT-GTGT
* * * * * * **
84362584 AAGACCATACCTGGGCTATTGGCAACGATACGAGATTACATGT
1 AAGACCATATCTGAGATA-TGGCATCGATATGAGACTATGTGT
*
84362627 AAGACTATATCTGAGATATGGCAT
1 AAGACCATATCTGAGATATGGCAT
84362651 TGGTACGGTA
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 55 0.63
43 31 0.36
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (42 bp):
AAGACCATATCTGAGATATGGCATCGATATGAGACTATGTGT
Found at i:84362631 original size:43 final size:42
Alignment explanation
Indices: 84362539--84362649 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 42
84362529 TGAGACTATG
* * * *
84362539 TGTAAGACCATATCTGGGATATGGCATCGATATAAGACTTCG
1 TGTAAGACCATACCTGGGATATGGCAACGATACAAGACTTCA
* * *
84362581 TGCAAGACCATACCTGGGCTATTGGCAACGATACGAGA-TTACA
1 TGTAAGACCATACCTGGGATA-TGGCAACGATACAAGACTT-CA
* * *
84362624 TGTAAGACTATATCTGAGATATGGCA
1 TGTAAGACCATACCTGGGATATGGCA
84362650 TTGGTACGGT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 25 0.45
43 30 0.55
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (42 bp):
TGTAAGACCATACCTGGGATATGGCAACGATACAAGACTTCA
Found at i:84370127 original size:42 final size:42
Alignment explanation
Indices: 84370067--84370228 Score: 173
Period size: 42 Copynumber: 3.8 Consensus size: 42
84370057 ATTAGGGTTA
*
84370067 ATGAGACTACGTGTAAGACCATATCTAGGATATGGAATCAAT
1 ATGAGACTACGTGTAAGACCATATCTAGGATATGGAATCGAT
* * * *
84370109 ATGAGACTACGTGGAAGACCATATTTGGGATATGGCATCGAT
1 ATGAGACTACGTGTAAGACCATATCTAGGATATGGAATCGAT
* * * * * *
84370151 ATAAGACTTCGTGTAAGACCATAACT-GAGCTATTGACATTGAT
1 ATGAGACTACGTGTAAGACCATATCTAG-GATATGGA-ATCGAT
* * *
84370194 ACGAGATTACTTGTAAGACCATATCTAGGATATGG
1 ATGAGACTACGTGTAAGACCATATCTAGGATATGG
84370229 CATTGGTACG
Statistics
Matches: 95, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 63 0.66
43 30 0.32
44 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTAGGATATGGAATCGAT
Found at i:84378741 original size:21 final size:21
Alignment explanation
Indices: 84378717--84378762 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
84378707 TCACACGTGT
84378717 GTGTGCCACCTCCACATAGGC
1 GTGTGCCACCTCCACATAGGC
** * *
84378738 GTGTGTGACCTCCATATGGGC
1 GTGTGCCACCTCCACATAGGC
84378759 GTGT
1 GTGT
84378763 AGACCCCTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.26
Consensus pattern (21 bp):
GTGTGCCACCTCCACATAGGC
Found at i:84384577 original size:43 final size:43
Alignment explanation
Indices: 84384530--84384686 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
84384520 TATCCCAAAT
* *
84384530 ATGGTCTTACATGTTATCTCATATCGATGCTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
* ** *
84384573 ATGGTCTTACACGGAATCAT-ATAAT-GATG-TCAATGTCATAAAC
1 ATGGTCTTACACGTAATC-TCAT-ATCGATGCT-AATGTCCCAGAC
* * * * *
84384616 ATGGTCTTACACGTAATCACAGT-GCAATGCCAATGTCCCAGAT
1 ATGGTCTTACACGTAATCTCA-TATCGATGCTAATGTCCCAGAC
* *
84384659 ATGGTCTTACATGTAATCTCATCTCGAT
1 ATGGTCTTACACGTAATCTCATATCGAT
84384687 AATCCTAATG
Statistics
Matches: 87, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
42 2 0.02
43 81 0.93
44 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
Found at i:84385470 original size:33 final size:33
Alignment explanation
Indices: 84385428--84385493 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
84385418 CATTTGCCAC
84385428 CCATAGTTGTACACATACACTTATACATCTCTA
1 CCATAGTTGTACACATACACTTATACATCTCTA
84385461 CCATAGTTGTACACATACACTTATACATCTCTA
1 CCATAGTTGTACACATACACTTATACATCTCTA
84385494 TAGCAATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (33 bp):
CCATAGTTGTACACATACACTTATACATCTCTA
Found at i:84387061 original size:42 final size:42
Alignment explanation
Indices: 84386973--84387081 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
84386963 TCGTTTCAAT
* * **
84386973 GCCATATCCCCA-ATATGGTCTTACATGAAATATCATATTGAC
1 GCCATAT-CCCAGACATGGTCTTATATGAAATATCATACCGAC
* * *
84387015 GCCATGTCCCTGACATGGTCTTATATGAAATCA-CATACCGAG
1 GCCATATCCCAGACATGGTCTTATATGAAAT-ATCATACCGAC
* *
84387057 GCCATATCTCAGATATGGTCTTATA
1 GCCATATCCCAGACATGGTCTTATA
84387082 CGGAATTTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 3 0.06
42 50 0.93
43 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTATATGAAATATCATACCGAC
Found at i:84389857 original size:27 final size:27
Alignment explanation
Indices: 84389827--84389969 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
84389817 TACTGAAATG
*
84389827 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
84389854 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
84389881 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
84389908 CCCTCAATTTATAAAATTATCATTTT-
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
84389934 CCCTCAATTTA-CGAAATTACCGTTTTA
1 CCCTCGATTTATAG-AATTACCATTTTA
84389961 CCCTCGATT
1 CCCTCGATT
84389970 GTGAAATTAC
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 21 0.21
27 78 0.79
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:84389897 original size:54 final size:53
Alignment explanation
Indices: 84389827--84389965 Score: 199
Period size: 54 Copynumber: 2.6 Consensus size: 53
84389817 TACTGAAATG
** * *
84389827 CCCTCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTT
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCATTTT
*
84389880 ACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTATCATTTT
1 -CCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCATTTT
*
84389934 CCCTCAATTTAC-GAAATTACCGTTTTACCCTC
1 CCCTCGATTTACAG-AATTACCGTTTTACCCTC
84389966 GATTGTGAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
52 1 0.01
53 29 0.37
54 48 0.62
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (53 bp):
CCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCATTTT
Found at i:84390031 original size:27 final size:27
Alignment explanation
Indices: 84390001--84390124 Score: 117
Period size: 27 Copynumber: 4.6 Consensus size: 27
84389991 TGTAGGATAG
* *
84390001 AATTACCAAAAAACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * * ** *
84390028 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
84390055 AATTACCGAAATA-CCCTAAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
84390082 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
84390109 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
84390125 TTGACTTTCT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.06
27 71 0.89
28 4 0.05
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:84390175 original size:27 final size:27
Alignment explanation
Indices: 84390102--84390187 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
84390092 ATACCCCTAA
* *
84390102 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
**
84390130 TTT-CTAGAAATTA-TAGAAATACGATTGG
1 TTTAC-A-AAATTACT-GAAATACCCTTGG
84390158 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
84390185 TTT
1 TTT
84390188 GTAGATTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
27 21 0.45
28 9 0.19
29 17 0.36
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:84390282 original size:27 final size:27
Alignment explanation
Indices: 84390228--84390305 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
84390218 AAATGACTAA
* * *
84390228 AATACCCCTAATA-GGTAAAAAGATCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
84390255 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
84390282 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
84390306 GAATATGTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:84391037 original size:20 final size:20
Alignment explanation
Indices: 84391012--84391076 Score: 96
Period size: 20 Copynumber: 3.2 Consensus size: 20
84391002 CATGATTGAT
*
84391012 ATGATATGTATAAAATGCAC
1 ATGATATGTATGAAATGCAC
84391032 ATGATATGTATGAAATG-ATC
1 ATGATATGTATGAAATGCA-C
84391052 ATGATATGTATGAAATGCAC
1 ATGATATGTATGAAATGCAC
*
84391072 CTGAT
1 ATGAT
84391077 GTATTCATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGATATGTATGAAATGCAC
Found at i:84391155 original size:26 final size:26
Alignment explanation
Indices: 84391126--84391256 Score: 162
Period size: 26 Copynumber: 5.2 Consensus size: 26
84391116 GAGAAAGTGC
*
84391126 AAAAGGGCGTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
***
84391152 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
84391178 AAAAGGGCTTATTCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
84391204 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
84391229 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
84391252 AAAAG
1 AAAAG
84391257 AGTCTAGGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
23 5 0.06
24 3 0.03
25 29 0.32
26 53 0.59
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:84391202 original size:52 final size:51
Alignment explanation
Indices: 84391126--84391256 Score: 196
Period size: 52 Copynumber: 2.6 Consensus size: 51
84391116 GAGAAAGTGC
*
84391126 AAAAGGGCGTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGG-TTATGCCCCAGTTTACCA
* * *
84391178 AAAAGGGCTTATTCCCCAGTTTATTGAAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTATGCCCCAGTTTACCA
84391229 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG
84391257 AGTCTAGGCC
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
48 5 0.07
49 5 0.07
50 7 0.09
51 26 0.35
52 31 0.42
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTATGCCCCAGTTTACCA
Done.