Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 34 of 150
Found at i:9042113 original size:21 final size:24
Alignment explanation
Indices: 9042089--9042134 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
9042079 TGCTTTTAAC
9042089 TAATCA-TTTTAAAT-TA-AATTA
1 TAATCATTTTTAAATGTATAATTA
*
9042110 TAATTATTTTTAAATGTATAATTA
1 TAATCATTTTTAAATGTATAATTA
9042134 T
1 T
9042135 CACAATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 8 0.38
23 2 0.10
24 6 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATCATTTTTAAATGTATAATTA
Found at i:9042251 original size:77 final size:77
Alignment explanation
Indices: 9042165--9042318 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
9042155 ATTATCAAAC
9042165 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAACGTCAATTTAATAATACAATAA
1 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAACGTCAATTTAATAATACAATAA
9042230 AAAAATAAAAGG
66 AAAAATAAAAGG
* *
9042242 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATGTCAATTTAATAATACGATAA
1 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAACGTCAATTTAATAATACAATAA
9042307 AAAAATAAAAGG
66 AAAAATAAAAGG
9042319 CTTTCTCATT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (77 bp):
TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAACGTCAATTTAATAATACAATAA
AAAAATAAAAGG
Found at i:9043361 original size:20 final size:20
Alignment explanation
Indices: 9043300--9043364 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
9043290 ATAACGGTAA
9043300 ATTAAATTATAATTATTTTT
1 ATTAAATTATAATTATTTTT
* * **
9043320 AAATATGTAATTATCACAATTTTT
1 --AT-T-AAATTATAATTATTTTT
9043344 ATTAAATTATAATTATTTTT
1 ATTAAATTATAATTATTTTT
9043364 A
1 A
9043365 AATTTATAAC
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
20 14 0.42
21 1 0.03
22 4 0.12
23 1 0.03
24 13 0.39
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTAAATTATAATTATTTTT
Found at i:9043365 original size:17 final size:18
Alignment explanation
Indices: 9043345--9043378 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9043335 ACAATTTTTA
*
9043345 TTAAA-TTATAATTATTT
1 TTAAATTTATAACTATTT
9043362 TTAAATTTATAACTATT
1 TTAAATTTATAACTATT
9043379 ACTCCTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAATTTATAACTATTT
Found at i:9054821 original size:18 final size:17
Alignment explanation
Indices: 9054785--9054829 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
9054775 TTATTAATAT
**
9054785 AAAATTCATTTTTTTTA
1 AAAATTCATTTTTGATA
9054802 AAAATTCATTTTTGGATA
1 AAAATTCATTTTT-GATA
9054820 AAAA-TCATTT
1 AAAATTCATTT
9054830 AAAAGTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (17 bp):
AAAATTCATTTTTGATA
Found at i:9054966 original size:28 final size:29
Alignment explanation
Indices: 9054935--9055004 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
9054925 TTTTCTCTTT
* * *
9054935 TCAA-TTTTTAGATTTAGAATTAAATTGA
1 TCAATTTTTTAAAATTAGAACTAAATTGA
9054963 TCAATTTTTTAAAATTAGAACTAAATT-A
1 TCAATTTTTTAAAATTAGAACTAAATTGA
* *
9054991 TAAATATTTTAAAA
1 TCAATTTTTTAAAA
9055005 ATGTTTCAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (29 bp):
TCAATTTTTTAAAATTAGAACTAAATTGA
Found at i:9055095 original size:62 final size:63
Alignment explanation
Indices: 9054967--9055095 Score: 154
Period size: 64 Copynumber: 2.0 Consensus size: 63
9054957 AATTGATCAA
* ** * * *
9054967 TTTTTTAAAATTAGAACTAAATTATAAATATTTTAAAAATGTTTCAGGTTAAATTTATTGATTT
1 TTTTTTAAAATTAGAACTAAATGATAAATATTTTAAAAA-GTTGAAGGCTAAATTTATTAAATT
* *
9055031 TTTTTTAAAATTAGAACTAAATGATAAAT-TTTGTAAACA-TTGAAGGCTAAATTTGTTAAATT
1 TTTTTTAAAATTAGAACTAAATGATAAATATTT-TAAAAAGTTGAAGGCTAAATTTATTAAATT
9055093 TTT
1 TTT
9055096 AGATTTAAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 20 0.36
63 3 0.05
64 33 0.59
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (63 bp):
TTTTTTAAAATTAGAACTAAATGATAAATATTTTAAAAAGTTGAAGGCTAAATTTATTAAATT
Found at i:9063145 original size:3 final size:3
Alignment explanation
Indices: 9063137--9063190 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
9063127 TGTTAAATTG
* **
9063137 TTA TTA TTA CTGTA TTA TTA TTA GTA TTTA TTA TTA TTA TTA TGG TTA
1 TTA TTA TTA -T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
9063185 TTA TTA
1 TTA TTA
9063191 CCATTTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 36 0.86
4 4 0.10
5 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9063359 original size:18 final size:18
Alignment explanation
Indices: 9063322--9063355 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9063312 TACATATATT
*
9063322 TACGTTTTATAATATTTA
1 TACGTTTTACAATATTTA
9063340 TACGTTTT-CAATATTT
1 TACGTTTTACAATATTT
9063356 TATAATCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (18 bp):
TACGTTTTACAATATTTA
Found at i:9064489 original size:31 final size:33
Alignment explanation
Indices: 9064430--9064490 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
9064420 GGTTTTGACA
* *
9064430 TATATCATATTTTTATGTCTTTTTAAATTAAAT
1 TATATCATATTTTTAAGTCTTTTAAAATTAAAT
*
9064463 TATAT-ATTTTTTTAAGT-TTTTAAAATTA
1 TATATCATATTTTTAAGTCTTTTAAAATTA
9064491 TAGAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 10 0.40
32 10 0.40
33 5 0.20
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (33 bp):
TATATCATATTTTTAAGTCTTTTAAAATTAAAT
Found at i:9072638 original size:16 final size:16
Alignment explanation
Indices: 9072617--9072652 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9072607 CTTTTTTGTA
* *
9072617 AATTTATAATAAATTC
1 AATTTATAAGAAATGC
9072633 AATTTATAAGAAATGC
1 AATTTATAAGAAATGC
9072649 AATT
1 AATT
9072653 ACTTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
AATTTATAAGAAATGC
Found at i:9077148 original size:5 final size:5
Alignment explanation
Indices: 9077138--9077168 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9077128 TGAGCATTCG
*
9077138 ATCGA ATCGA ATCGA ATCGA ATTGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
9077169 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:9078214 original size:9 final size:9
Alignment explanation
Indices: 9078200--9078236 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9078190 TATAGTTTGA
9078200 TATTCGAAT
1 TATTCGAAT
9078209 TATTCGAAT
1 TATTCGAAT
*
9078218 TATTCGAGT
1 TATTCGAAT
9078227 TATTCGAAT
1 TATTCGAAT
9078236 T
1 T
9078237 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9090029 original size:4 final size:4
Alignment explanation
Indices: 9090020--9090061 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
9090010 TAGAAATTAT
*
9090020 ATAA ATAA ATAA ATAA ATAA ATAA AT-A A-AA ATAA ATCA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
9090062 CATGCAAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 4 0.12
4 30 0.88
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:9090436 original size:41 final size:41
Alignment explanation
Indices: 9090375--9090452 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
9090365 CATTTTCAAA
**
9090375 AATATAAAAAAATATGTACGTATATATAT-AAATATAATAG
1 AATATAAAAAAATAAATACGTATATATATAAAATATAATAG
*
9090415 AATATTAAAAAAATAAATACGTATATATGTAAAATATA
1 AATA-TAAAAAAATAAATACGTATATATATAAAATATA
9090453 TTAAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 4 0.12
41 22 0.67
42 7 0.21
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (41 bp):
AATATAAAAAAATAAATACGTATATATATAAAATATAATAG
Found at i:9090552 original size:2 final size:2
Alignment explanation
Indices: 9090545--9090575 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9090535 TTAGTTGGGA
9090545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9090576 AGAAAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9092183 original size:44 final size:45
Alignment explanation
Indices: 9092035--9092198 Score: 137
Period size: 44 Copynumber: 3.8 Consensus size: 45
9092025 TTGCTTTCTT
* *
9092035 TAATCCTCTCCACTGCAACTTCAGGGAGATAAGA-CTA-GA--TGC
1 TAATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATGAGCT-C
* * * ** *
9092077 -GATCTACT-CTCTGCAACTTCAGAGAGATAAGATCTATGATTTT
1 TAATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATGAGCTC
*
9092120 TAATCCACTCCACTGCAACTTCAGAGAGATAGGAT-TATTG-GCTC
1 TAATCCACTCCACTGCAACTTCAGAGAGATAAGATCTA-TGAGCTC
** * *
9092164 TAATCTGCTCCACTGCAACTTCAGGGAGATGAGAT
1 TAATCCACTCCACTGCAACTTCAGAGAGATAAGAT
9092199 TTGTCGTCTT
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
40 22 0.23
41 8 0.08
42 2 0.02
44 40 0.41
45 25 0.26
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (45 bp):
TAATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATGAGCTC
Found at i:9092426 original size:44 final size:45
Alignment explanation
Indices: 9092251--9092758 Score: 396
Period size: 44 Copynumber: 11.6 Consensus size: 45
9092241 GACTGGATAT
* * * * * *
9092251 GATCTGCTATTTTTGATCTACTTCACTGCCAATACATGAATACAA
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
** * * * * * * *
9092296 GATCTATTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGATAA
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* * * *
9092341 GATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* * * * * *
9092386 GATTTGCTTTCTTCGATCTATTTCAC-GCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* * * *
9092430 GATCTAC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* * *
9092474 GATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* ** * * *
9092518 GATTTAATTTCTTCGATCTACTTCACTACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* * *
9092563 GATCTAC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* * * * *
9092606 GACCTGCTATATTCGATCTACTTCA-TGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* * * * * *
9092650 TATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGAC-A
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* *
9092694 -A---G--ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
* * * *
9092732 GATCTACTATTTTCAATCTACTCCACT
1 GATCTGCTATCTTCGATCTACTTCACT
9092759 GCTGCTCAGG
Statistics
Matches: 350, Mismatches: 99, Indels: 28
0.73 0.21 0.06
Matches are distributed among these distances:
37 16 0.05
38 13 0.04
39 1 0.00
40 1 0.00
43 37 0.11
44 150 0.43
45 132 0.38
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (45 bp):
GATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAA
Found at i:9092603 original size:132 final size:132
Alignment explanation
Indices: 9092305--9092753 Score: 527
Period size: 132 Copynumber: 3.4 Consensus size: 132
9092295 AGATCTATTT
* * * * * * * * * *
9092305 TCTTCGATCTACTTCGCCACTAGTATGGGAAGATAAGATCTGCTATCTTCAATCCACTTCGCTAC
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCAATCTACTTCAC-GC
* * * * * ***
9092370 CAATATAGGAAGACAGGATTTGCTTTCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCT
65 CAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACACCAATATGGGAAGACAAGATCT
9092435 ACA
130 ACA
*
9092438 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCC
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCAATCTACTTCACGCC
** *
9092503 AATACATGAAGACAAGATTTAATTTCTTCGATCTACTTCACTACCAGTATGGGAAGACAAGATCT
66 AATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCAC-ACCAATATGGGAAGACAAGATCT
9092568 ACA
130 ACA
* * * *
9092571 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATATTCGATCTACTTCATGCC
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCAATCTACTTCACGCC
* * * *
9092635 AATACATGAAGACAATATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAG----
66 AATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTC-ACACCAATATGGGAAGACAAGATCT
9092696 --A
130 ACA
* *
9092697 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTACTATTTTCAATCTACT
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCAATCTACT
9092754 CCACTGCTGC
Statistics
Matches: 278, Mismatches: 36, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
126 54 0.19
132 135 0.49
133 89 0.32
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (132 bp):
TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCAATCTACTTCACGCC
AATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACACCAATATGGGAAGACAAGATCTA
CA
Found at i:9092720 original size:37 final size:38
Alignment explanation
Indices: 9092659--9092736 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
9092649 ATATCTGCTT
* * *
9092659 TCTTTGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 TCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
* *
9092697 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGA
1 TCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
9092734 TCT
1 TCT
9092737 ACTATTTTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 22 0.63
38 13 0.37
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (38 bp):
TCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
Found at i:9093627 original size:25 final size:26
Alignment explanation
Indices: 9093589--9093637 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9093579 GTGTCTTGAA
9093589 AAGAAAAAGATATT-CAAGAACAATG
1 AAGAAAAAGATATTACAAGAACAATG
9093614 AAGAATAAAG-TATTACAAGAACAA
1 AAGAA-AAAGATATTACAAGAACAA
9093638 ATATATGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (26 bp):
AAGAAAAAGATATTACAAGAACAATG
Found at i:9112921 original size:25 final size:26
Alignment explanation
Indices: 9112869--9112950 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 26
9112859 ATACACTGTA
* *
9112869 GCTC-TTATGAGCGTCCCGA-TATATG
1 GCTCTTTATGAGCTTCCCGATTA-AAG
9112894 GCT-TTT-TGGAGCTTCCCGATTAAAG
1 GCTCTTTAT-GAGCTTCCCGATTAAAG
* *
9112919 GCTCTTTCATGAGCTTCCTGATTAATG
1 GCTCTTT-ATGAGCTTCCCGATTAAAG
9112946 GCTCT
1 GCTCT
9112951 CCGGAGCTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
24 1 0.02
25 20 0.43
26 5 0.11
27 20 0.43
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GCTCTTTATGAGCTTCCCGATTAAAG
Found at i:9113028 original size:25 final size:25
Alignment explanation
Indices: 9113000--9113069 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
9112990 TATGACTTTT
*
9113000 ATGAGCTTCTTATTACATGGCTCAC
1 ATGAGCTTCCTATTACATGGCTCAC
* * *
9113025 ATGAGTTTCCTGTTATATGGCTCGA-
1 ATGAGCTTCCTATTACATGGCTC-AC
* *
9113050 AAGAGCTTCCCATTTACATG
1 ATGAGCTTCCTA-TTACATG
9113070 TTTGCATGAG
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
25 27 0.79
26 7 0.21
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCTATTACATGGCTCAC
Found at i:9115452 original size:20 final size:20
Alignment explanation
Indices: 9115427--9115469 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9115417 CCATTAAATA
* *
9115427 TTATTTATAAGATTATAATT
1 TTATTTACAAAATTATAATT
*
9115447 TTATTTACAAAATTATTATT
1 TTATTTACAAAATTATAATT
9115467 TTA
1 TTA
9115470 ATAAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATTTACAAAATTATAATT
Found at i:9120625 original size:14 final size:14
Alignment explanation
Indices: 9120593--9120635 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
9120583 ATGATTATTT
9120593 AATTAT-CATAAAA
1 AATTATACATAAAA
*
9120606 ACATTATACATAATA
1 A-ATTATACATAAAA
9120621 AATTATA-ATAAAA
1 AATTATACATAAAA
9120634 AA
1 AA
9120636 AGATTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 8 0.31
14 11 0.42
15 7 0.27
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATTATACATAAAA
Found at i:9124523 original size:30 final size:30
Alignment explanation
Indices: 9124445--9124528 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
9124435 GGGTAACTTC
* **
9124445 GATATAATGCCAACTTGTGTGAGCAACTTT
1 GATATAATGTCAACTTGTGTGAGCAACCCT
*
9124475 GTTA-AATGT-AAGCTTGTGTGAGCAACCCT
1 GATATAATGTCAA-CTTGTGTGAGCAACCCT
*
9124504 GATATATTGTCAACTTGTGTGAGCA
1 GATATAATGTCAACTTGTGTGAGCA
9124529 TTATATTCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
28 2 0.04
29 22 0.49
30 19 0.42
31 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (30 bp):
GATATAATGTCAACTTGTGTGAGCAACCCT
Found at i:9133821 original size:19 final size:20
Alignment explanation
Indices: 9133799--9133841 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
9133789 TTTAACCATT
* *
9133799 TTTTATTTTTTGTATT-TAA
1 TTTTATTTGTTCTATTCTAA
9133818 TTTTATTTGTTCTATTCTAA
1 TTTTATTTGTTCTATTCTAA
9133838 TTTT
1 TTTT
9133842 TTTCGTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTTATTTGTTCTATTCTAA
Found at i:9149749 original size:12 final size:12
Alignment explanation
Indices: 9149732--9149764 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9149722 CTTTTGAATT
9149732 AAAAAAAATTTG
1 AAAAAAAATTTG
9149744 AAAAAAAA-TTG
1 AAAAAAAATTTG
9149755 AAAGAAAAAT
1 AAA-AAAAAT
9149765 AAATAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:9150097 original size:5 final size:5
Alignment explanation
Indices: 9150089--9150157 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
9150079 TCATTTAGTT
9150089 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
9150139 TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTAT
9150158 TTTTTCATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:9150186 original size:6 final size:6
Alignment explanation
Indices: 9150177--9150229 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
9150167 TCCGTTTTCA
9150177 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
9150225 TTTTT
1 TTTTT
9150230 TTATTTCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:9164807 original size:21 final size:21
Alignment explanation
Indices: 9164753--9164809 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
9164743 TTCAAAATTT
* *
9164753 TATAAAAA-ATTAATTTTTTC
1 TATAAAAATATTAAATTTCTC
**
9164773 TAT-AAAATCCTAAATTTCTC
1 TATAAAAATATTAAATTTCTC
*
9164793 TATAAAAATGTTAAATT
1 TATAAAAATATTAAATT
9164810 ATCAAATCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAAAAATATTAAATTTCTC
Found at i:9170492 original size:36 final size:36
Alignment explanation
Indices: 9170445--9170513 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
9170435 TCATAAGAGA
9170445 AGTATGGTGGGTGAATTGTCAGACTTTCTTAGGATG
1 AGTATGGTGGGTGAATTGTCAGACTTTCTTAGGATG
* * *
9170481 AGTATGGTGGGTGAATTGTTATACTTTTTTAGG
1 AGTATGGTGGGTGAATTGTCAGACTTTCTTAGG
9170514 TTCCAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.22, C:0.06, G:0.32, T:0.41
Consensus pattern (36 bp):
AGTATGGTGGGTGAATTGTCAGACTTTCTTAGGATG
Found at i:9182359 original size:17 final size:17
Alignment explanation
Indices: 9182325--9182359 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9182315 TTAAATATTT
*
9182325 ATATTATTATTTAAAAA
1 ATATTATTATTAAAAAA
9182342 ATATTATTATTAAAAAA
1 ATATTATTATTAAAAAA
9182359 A
1 A
9182360 GCACTACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATTATTATTAAAAAA
Found at i:9185381 original size:103 final size:102
Alignment explanation
Indices: 9185152--9185519 Score: 601
Period size: 102 Copynumber: 3.6 Consensus size: 102
9185142 ATAGCATATA
*
9185152 AAGGGGTTGCTGTGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
*
9185217 TGAAATGTGAAGGGGGTTGCTAAGTGTTGATTCCCCC
66 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* * *
9185254 AAGGGGTTGCTGTGTGCTCATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
*
9185319 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCC
* ** * *
9185357 GAGGGGTTGCTAAGTGCTAATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
9185422 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* * *
9185459 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGCTGCTAAGTGCGGAATCCACCG
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
9185520 ATAACGATTA
Statistics
Matches: 243, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
102 150 0.62
103 93 0.38
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.31
Consensus pattern (102 bp):
AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:9188755 original size:24 final size:25
Alignment explanation
Indices: 9188718--9188764 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
9188708 ATTGTGCCAT
*
9188718 CTTATGTTGCATGTTT-TGAAATGG
1 CTTATGTGGCATGTTTGTGAAATGG
*
9188742 CTTATGTGGTATGTTTGTGAAAT
1 CTTATGTGGCATGTTTGTGAAAT
9188765 CTTGAATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (25 bp):
CTTATGTGGCATGTTTGTGAAATGG
Found at i:9196247 original size:23 final size:23
Alignment explanation
Indices: 9196212--9196262 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
9196202 ACCTACTTTC
* * *
9196212 TTACTGTAATAATTTTTGGGGTA
1 TTACAGTAATAATTTTTGAGATA
*
9196235 TTACAGTAGTAATTTTTGAGATA
1 TTACAGTAATAATTTTTGAGATA
9196258 TTACA
1 TTACA
9196263 TTTCTCTCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (23 bp):
TTACAGTAATAATTTTTGAGATA
Found at i:9197545 original size:50 final size:50
Alignment explanation
Indices: 9197470--9197644 Score: 269
Period size: 50 Copynumber: 3.4 Consensus size: 50
9197460 CTTTTAGGTA
9197470 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCCATG
*
9197520 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCCATG
*
9197570 TCCCAGACATGGTCTTACATTGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G-TGCCAATGCCATG
*
9197626 TCCCAAACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
9197645 CTGGCTCAAA
Statistics
Matches: 115, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
50 78 0.68
53 5 0.04
55 1 0.01
56 31 0.27
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCCATG
Found at i:9200725 original size:23 final size:23
Alignment explanation
Indices: 9200696--9200741 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9200686 CTTTCTTTTT
* *
9200696 GTAGTAATTTTTAGGGTATTACA
1 GTAGTAATTTTCAGGATATTACA
9200719 GTAGTAATTTTCAGGATATTACA
1 GTAGTAATTTTCAGGATATTACA
9200742 CTTCTGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.41
Consensus pattern (23 bp):
GTAGTAATTTTCAGGATATTACA
Found at i:9202937 original size:14 final size:14
Alignment explanation
Indices: 9202918--9202950 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9202908 ATATGTTAGC
9202918 TCATAGTTCCTACT
1 TCATAGTTCCTACT
9202932 TCATAGTTCCTACT
1 TCATAGTTCCTACT
9202946 T-ATAG
1 TCATAG
9202951 AAAAACTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (14 bp):
TCATAGTTCCTACT
Found at i:9203255 original size:17 final size:17
Alignment explanation
Indices: 9203233--9203270 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9203223 ATTTAATTAA
*
9203233 TCAATTCAATTAGTTTT-
1 TCAATTAAATTA-TTTTC
9203250 TCAATTAAATTATTTTC
1 TCAATTAAATTATTTTC
9203267 TCAA
1 TCAA
9203271 CCCAATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (17 bp):
TCAATTAAATTATTTTC
Found at i:9212011 original size:29 final size:29
Alignment explanation
Indices: 9211978--9212075 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 29
9211968 TCATTTAGCT
9211978 GAGATAACCACAAAGGCATCCATT-TAACCA
1 GAGATAACCACAAAGGCATCC-TTATAA-CA
** *
9212008 -AGATCTCCACAAAGGCTTCCTTATAACA
1 GAGATAACCACAAAGGCATCCTTATAACA
* *
9212036 GAGATAACCATAAAGGCTTCCTT-T--CA
1 GAGATAACCACAAAGGCATCCTTATAACA
*
9212062 GAGATAGCCACAAA
1 GAGATAACCACAAA
9212076 TTCATCCACT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
26 14 0.24
28 5 0.09
29 39 0.67
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (29 bp):
GAGATAACCACAAAGGCATCCTTATAACA
Found at i:9215103 original size:46 final size:48
Alignment explanation
Indices: 9215045--9215135 Score: 116
Period size: 47 Copynumber: 1.9 Consensus size: 48
9215035 TCTTTTTCAA
* *
9215045 TTTTTCTCACTCA-A-GAATGCTGCTTTTTTTTTTGGTTTTTCAGGTGT
1 TTTTTCTCACTCATATGAAT-CTGCTTTTTGTTTTGATTTTTCAGGTGT
* *
9215092 TTTTTCT-ACTCATATGAATTTTCTTTTTGTTTTGATTTTTCAGG
1 TTTTTCTCACTCATATGAATCTGCTTTTTGTTTTGATTTTTCAGG
9215136 CTAACCTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 5 0.13
47 29 0.76
48 4 0.11
ACGTcount: A:0.14, C:0.13, G:0.14, T:0.58
Consensus pattern (48 bp):
TTTTTCTCACTCATATGAATCTGCTTTTTGTTTTGATTTTTCAGGTGT
Found at i:9227484 original size:17 final size:17
Alignment explanation
Indices: 9227464--9227500 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9227454 AGTCCGTTTG
* *
9227464 TTTATTTTTCTTATTTA
1 TTTATTTTTATTAATTA
9227481 TTTATTTTTATTAATTA
1 TTTATTTTTATTAATTA
9227498 TTT
1 TTT
9227501 TTATCTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTAATTA
Found at i:9233186 original size:26 final size:26
Alignment explanation
Indices: 9233120--9233250 Score: 109
Period size: 28 Copynumber: 4.9 Consensus size: 26
9233110 AATTTCTGTA
* * * *
9233120 AAAGTAAGCCTTTGTAGCTATCTATT
1 AAAGGAAGCCCTTGTGGCGATCTATT
* * * *
9233146 AAAGGAAGTCATTGTGGTGATCTATA
1 AAAGGAAGCCCTTGTGGCGATCTATT
* *
9233172 AAAGGAATCCCTTGTGGCGATCTCTGTT
1 AAAGGAAGCCCTTGTGGCGA--TCTATT
*
9233200 AAAGGAAGCCCTTGTGGCAATCTCTATT
1 AAAGGAAGCCCTTGTGGCGA--TCTATT
* *
9233228 AAAGGAAGCCTTTGTGGTGATCT
1 AAAGGAAGCCCTTGTGGCGATCT
9233251 TTGTTAAAGG
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
26 38 0.45
28 46 0.55
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (26 bp):
AAAGGAAGCCCTTGTGGCGATCTATT
Found at i:9233211 original size:28 final size:28
Alignment explanation
Indices: 9233172--9233382 Score: 235
Period size: 28 Copynumber: 7.6 Consensus size: 28
9233162 GTGATCTATA
* *
9233172 AAAGGAATCCCTTGTGGCGATCTCTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* * *
9233200 AAAGGAAGCCCTTGTGGCAATCTCTATT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* *
9233228 AAAGGAAGCCTTTGTGGTGATCTTTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
*** * * *
9233256 AAAGGAAATGTTTATGGCTATTTCTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* *
9233284 AAAGGAAGCCTTTGTGGCAATCTCTATT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* *
9233312 AAAGGAAGCCTTT-TGGCTATCTTTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* *
9233339 AAGGGAAGTCTTTGTGGCGATCTCTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
*
9233367 AAAGGAAGACTTTGTG
1 AAAGGAAGCCTTTGTG
9233383 ACAATATCTG
Statistics
Matches: 150, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
27 22 0.15
28 128 0.85
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (28 bp):
AAAGGAAGCCTTTGTGGCGATCTCTGTT
Found at i:9233299 original size:84 final size:84
Alignment explanation
Indices: 9233114--9233387 Score: 319
Period size: 84 Copynumber: 3.3 Consensus size: 84
9233104 AACACCAATT
* * * * * * * *
9233114 TCTGTAAAAGTAAGCCTTTGTAGC--TATCTATTAAAGGAAGTCATTGTGGTGATC--TATAAAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
*
9233175 GG-AATCCCTTGTGGCGATC
66 GGAAAT-CTTTGTGGCGATC
*
9233194 TCTGTTAAAGGAAGCCCTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
* * * *
9233259 GGAAATGTTTATGGCTATT
66 GGAAATCTTTGTGGCGATC
9233278 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTT-TGGCT-ATCTTTGTTAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGG-TGATCTTTGTTAA
* *
9233341 GGGAAGTCTTTGTGGCGATC
65 AGGAAATCTTTGTGGCGATC
* *
9233361 TCTGTTAAAGGAAGACTTTGTGACAAT
1 TCTGTTAAAGGAAGCCTTTGTGGCAAT
9233388 ATCTGTCAAA
Statistics
Matches: 165, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
80 20 0.12
82 27 0.16
83 53 0.32
84 62 0.38
85 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (84 bp):
TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
GGAAATCTTTGTGGCGATC
Found at i:9236804 original size:23 final size:23
Alignment explanation
Indices: 9236737--9236834 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 23
9236727 TCCCCTAGAA
* *
9236737 GCCTTAGTGGCTAGTATCCTATGAT
1 GCCTTTGTGGC-A-TATTCTATGAT
* ** *
9236762 GCATTTGTGGTGTATACTATGAT
1 GCCTTTGTGGCATATTCTATGAT
*
9236785 GCCTTTGTGGCATATTCTATGAC
1 GCCTTTGTGGCATATTCTATGAT
* * * *
9236808 GCCTTTGTAGCGTACTCTATAAT
1 GCCTTTGTGGCATATTCTATGAT
9236831 GCCT
1 GCCT
9236835 AAGTGAGGTT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
23 50 0.86
25 8 0.14
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (23 bp):
GCCTTTGTGGCATATTCTATGAT
Found at i:9241283 original size:22 final size:22
Alignment explanation
Indices: 9241224--9241280 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
9241214 ATCTTCAAAT
9241224 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
9241243 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
9241265 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
9241281 GATTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.38
22 8 0.25
23 12 0.38
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:9242887 original size:17 final size:18
Alignment explanation
Indices: 9242865--9242898 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9242855 CGATCCCATT
9242865 TTTCAA-AATAAAAATAG
1 TTTCAACAATAAAAATAG
9242882 TTTCAACAATAAAAATA
1 TTTCAACAATAAAAATA
9242899 AAAAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
TTTCAACAATAAAAATAG
Found at i:9243997 original size:30 final size:31
Alignment explanation
Indices: 9243961--9244029 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
9243951 GGTTTCATTT
* *
9243961 CAGTCACTCAACTTTA-GAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATCAAAAAGTAACAAAA
* *
9243991 CAGTCACTAACGTTATCAAAAAGTGACAAAT
1 CAGTCACTAACGTTATCAAAAAGTAACAAAA
9244022 CAGTCACT
1 CAGTCACT
9244030 TATTAACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.18
30 13 0.39
31 14 0.42
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATCAAAAAGTAACAAAA
Found at i:9245830 original size:2 final size:2
Alignment explanation
Indices: 9245825--9245850 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9245815 CAAAAAAATA
9245825 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
9245851 GCATTGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9245973 original size:22 final size:22
Alignment explanation
Indices: 9245934--9245982 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
9245924 AAATAATAGT
9245934 TTTAAAATGTATTAATTAAATA
1 TTTAAAATGTATTAATTAAATA
9245956 TATTAAATAT-TATT-ATTAAATA
1 T-TTAAA-ATGTATTAATTAAATA
9245978 TTTAA
1 TTTAA
9245983 TCCAAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.16
22 10 0.40
23 9 0.36
24 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAAAATGTATTAATTAAATA
Found at i:9254397 original size:16 final size:16
Alignment explanation
Indices: 9254376--9254415 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
9254366 TTTGGTTCGC
*
9254376 TGTAATAGAATAGAGA
1 TGTAATAGAATAAAGA
9254392 TGTAATAGAATAAAGA
1 TGTAATAGAATAAAGA
*
9254408 CGTAATAG
1 TGTAATAG
9254416 TAATTCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.25
Consensus pattern (16 bp):
TGTAATAGAATAAAGA
Found at i:9254457 original size:45 final size:44
Alignment explanation
Indices: 9254391--9254487 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
9254381 TAGAATAGAG
9254391 ATGTAATAGAATAAAGACGTAATAGTAATTCAAT-TGTTTGGTTGA
1 ATGTAATAGAATAAAGACGTAATAGT-ATTC-ATGTGTTTGGTTGA
* * *
9254436 ATGTAAT-GTAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGA
1 ATGTAATAG-AATAAAGACGTAATAGTATTCATGTGTTTGGTTGA
*
9254480 ATGGAATA
1 ATGTAATA
9254488 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (44 bp):
ATGTAATAGAATAAAGACGTAATAGTATTCATGTGTTTGGTTGA
Found at i:9254763 original size:120 final size:120
Alignment explanation
Indices: 9254626--9254857 Score: 403
Period size: 120 Copynumber: 1.9 Consensus size: 120
9254616 TTAATCATAT
*
9254626 TTTAATATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
* **
9254691 AAATATTCTTATATGAATTTTCTAAAATCATGAA-ATATAATACTATAAAATATAA
66 AAATATTATTATATGAATTTAATAAAATCAT-AATATATAATACTATAAAATATAA
*
9254746 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
9254811 AAATATTATTATATGAATTTAATAAAATCATAATATATAATACTATA
66 AAATATTATTATATGAATTTAATAAAATCATAATATATAATACTATA
9254858 TAATGTAGAT
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
119 2 0.02
120 104 0.98
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
AAATATTATTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
Found at i:9256218 original size:29 final size:28
Alignment explanation
Indices: 9256186--9256247 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
9256176 AAAAGCCGTT
9256186 TTTTTTCAAAATTTACCGAAATGGGTCGA
1 TTTTTTCAAAATTTACCGAAATGGGTC-A
* ** * *
9256215 TTTTTTTATTATTTACCGGAATGGTTCA
1 TTTTTTCAAAATTTACCGAAATGGGTCA
9256243 TTTTT
1 TTTTT
9256248 CGGGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGTCA
Found at i:9256496 original size:12 final size:12
Alignment explanation
Indices: 9256479--9256504 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9256469 TAATCCTCTC
9256479 AATTTCCTTCCA
1 AATTTCCTTCCA
9256491 AATTTCCTTCCA
1 AATTTCCTTCCA
9256503 AA
1 AA
9256505 ATTCTCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTTCCTTCCA
Found at i:9256551 original size:51 final size:51
Alignment explanation
Indices: 9256477--9256598 Score: 201
Period size: 51 Copynumber: 2.4 Consensus size: 51
9256467 TCTAATCCTC
9256477 TCAATTTCCT-TCCAAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
1 TCAATTTCCTCT-C-AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
*
9256529 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
*
9256580 TCAATTTCCCCTCAATTTC
1 TCAATTTCCTCTCAATTTC
9256599 ATTTTTGAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 55 0.82
52 11 0.16
53 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
Found at i:9256642 original size:20 final size:21
Alignment explanation
Indices: 9256613--9256657 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9256603 TTGAAAATAA
*
9256613 TTTT-AAATAA-TCTATATTT
1 TTTTAAAATAATTCTAAATTT
*
9256632 TTTTAAAATAATTTTAAATTT
1 TTTTAAAATAATTCTAAATTT
9256653 TTTTA
1 TTTTA
9256658 TATTTTCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 6 0.27
21 12 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAAATAATTCTAAATTT
Found at i:9257755 original size:7 final size:7
Alignment explanation
Indices: 9257743--9257774 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
9257733 AGTCGATTGA
9257743 TATTTAG
1 TATTTAG
9257750 TATTTAG
1 TATTTAG
9257757 TATTTAG
1 TATTTAG
9257764 TATTTAG
1 TATTTAG
9257771 TATT
1 TATT
9257775 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:9258893 original size:25 final size:25
Alignment explanation
Indices: 9258864--9259049 Score: 92
Period size: 26 Copynumber: 7.7 Consensus size: 25
9258854 TTTAAATTTA
9258864 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
** *
9258889 TTATTTGATGTAATACGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
9258915 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
9258934 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
* ** *
9258960 TTATTTGATATAATAGGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
* ** *
9258986 TTTTTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
*
9259005 ATTATTTGATATAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
9259031 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
9259050 ACCCTAATTT
Statistics
Matches: 116, Mismatches: 26, Indels: 37
0.65 0.15 0.21
Matches are distributed among these distances:
19 2 0.02
20 13 0.11
21 10 0.09
23 4 0.03
24 6 0.05
25 38 0.33
26 43 0.37
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.45
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:9258950 original size:71 final size:71
Alignment explanation
Indices: 9258862--9259046 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
9258852 TATTTAAATT
9258862 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
9258927 TTTTGA
66 TTTTGA
* * *
9258933 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTTGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
9258998 TTTTGA
66 TTTTGA
*
9259004 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGATGTAATA
9259047 AAAACCCTAA
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 95 0.88
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:9259067 original size:17 final size:18
Alignment explanation
Indices: 9259042--9259075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9259032 CTATTTGATG
9259042 TAAT-AAAAACCCTAATT
1 TAATAAAAAACCCTAATT
*
9259059 TAATTAAAAACCCTAAT
1 TAATAAAAAACCCTAAT
9259076 CCTAACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (18 bp):
TAATAAAAAACCCTAATT
Found at i:9259094 original size:29 final size:29
Alignment explanation
Indices: 9259052--9259500 Score: 715
Period size: 29 Copynumber: 15.3 Consensus size: 29
9259042 TAATAAAAAC
*
9259052 CCTAATTTAATTAAAAACCCTAATCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
9259081 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
9259110 CCTAATTTTATTAAAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
9259139 CCTAATTTAATTAAAAACCC-ACTGCCCTAA
1 CCTAATTTAATTAAAAACCCTA--ACCCTAA
*
9259169 CCTAATTTAATTAAAAACCC-ACTGCCCTAA
1 CCTAATTTAATTAAAAACCCTA--ACCCTAA
*
9259199 CCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
9259228 CCTAATTTAATTAAAAACCCTAAACCTTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
9259258 CCTAATTTAATTAAAAA-CCTACTGCCCTAA
1 CCTAATTTAATTAAAAACCCTA--ACCCTAA
9259288 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
9259317 TCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
9259346 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
9259376 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
9259405 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
9259434 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
9259464 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
9259493 CCTAATTT
1 CCTAATTT
9259501 TACATAATTT
Statistics
Matches: 398, Mismatches: 13, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
28 2 0.01
29 230 0.58
30 161 0.40
31 5 0.01
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.29
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:9259229 original size:59 final size:58
Alignment explanation
Indices: 9259052--9259500 Score: 715
Period size: 59 Copynumber: 7.6 Consensus size: 58
9259042 TAATAAAAAC
*
9259052 CCTAATTTAATTAAAAACCCTAATCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * *
9259110 CCTAATTTTATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCC-ACTGCCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA--ACCCTAA
* *
9259169 CCTAATTTAATTAAAAACCC-ACTGCCCTAACCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAATTAAAAACCCTA--ACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* *
9259228 CCTAATTTAATTAAAAACCCTAAACCTTAACCTAATTTAATTAAAAA-CCTACTGCCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTA--ACCCTAA
*
9259288 CCTAATTTAATTAAAAACCCTAACCCTAATCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
9259346 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
9259405 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAA
9259464 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
9259501 TACATAATTT
Statistics
Matches: 362, Mismatches: 17, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
57 1 0.00
58 107 0.30
59 196 0.54
60 56 0.15
61 2 0.01
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.29
Consensus pattern (58 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:9259401 original size:88 final size:88
Alignment explanation
Indices: 9259052--9259500 Score: 726
Period size: 88 Copynumber: 5.1 Consensus size: 88
9259042 TAATAAAAAC
*
9259052 CCTAATTTAATTAAAAACCCTAATCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAAT
* *
9259116 TTTATTAAAAATCCTAACCCTAA
66 TTAATTAAAAACCCTAACCCTAA
* **
9259139 CCTAATTTAATTAAAAACCC-ACTGCCCTAACCTAATTTAATTAAAAACCC-ACTGCCCTAACCT
1 CCTAATTTAATTAAAAACCCTA--ACCCTAACCTAATTTAATTAAAAACCCTA-AACCCTAACCT
*
9259202 AATTTAATTAAAAACCCTAACCTTAA
63 AATTTAATTAAAAACCCTAACCCTAA
* **
9259228 CCTAATTTAATTAAAAACCCTAAACCTTAACCTAATTTAATTAAAAA-CCTACTGCCCTAACCTA
1 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTA-AACCCTAACCTA
9259292 ATTTAATTAAAAACCCTAACCCTAA
64 ATTTAATTAAAAACCCTAACCCTAA
*
9259317 TCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAAT
9259382 TTAATTAAAAACCCTAACCCTAA
66 TTAATTAAAAACCCTAACCCTAA
9259405 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAAT
9259470 TTAATTAAAAACCCTAACCCTAA
66 TTAATTAAAAACCCTAACCCTAA
9259493 CCTAATTT
1 CCTAATTT
9259501 TACATAATTT
Statistics
Matches: 339, Mismatches: 15, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
86 1 0.00
87 20 0.06
88 181 0.53
89 136 0.40
91 1 0.00
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.29
Consensus pattern (88 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAAT
TTAATTAAAAACCCTAACCCTAA
Found at i:9259561 original size:55 final size:55
Alignment explanation
Indices: 9259495--9259675 Score: 362
Period size: 55 Copynumber: 3.3 Consensus size: 55
9259485 AACCCTAACC
9259495 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
9259550 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
9259605 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
9259660 TAATTTTACATAATTT
1 TAATTTTACATAATTT
9259676 TACATAATGT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 126 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:9259674 original size:10 final size:10
Alignment explanation
Indices: 9259659--9259683 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9259649 TTTGGACTTA
9259659 ATAATTTTAC
1 ATAATTTTAC
9259669 ATAATTTTAC
1 ATAATTTTAC
9259679 ATAAT
1 ATAAT
9259684 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:9263044 original size:123 final size:123
Alignment explanation
Indices: 9262888--9263112 Score: 423
Period size: 123 Copynumber: 1.8 Consensus size: 123
9262878 CCCAAACTTG
*
9262888 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
9262953 TAGAAGCTATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
*
9263011 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
9263076 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
9263113 CTCGAAATAA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 99 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (123 bp):
CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
Found at i:9264624 original size:16 final size:15
Alignment explanation
Indices: 9264603--9264632 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9264593 TTCAATTTTT
9264603 TGTATTGATCTTTCTG
1 TGTATTGAT-TTTCTG
9264619 TGTATTGATTTTCT
1 TGTATTGATTTTCT
9264633 CTTGATACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.10, G:0.17, T:0.60
Consensus pattern (15 bp):
TGTATTGATTTTCTG
Found at i:9269119 original size:33 final size:33
Alignment explanation
Indices: 9269081--9269175 Score: 97
Period size: 33 Copynumber: 2.8 Consensus size: 33
9269071 TAATATTATT
*
9269081 TAAATTATTATTTTTAA-AATTTATTATTAA-AA
1 TAAATTA-TATTTTTAATAATTTATTATAAATAA
* * *
9269113 TAAAATTAAAATATTAAATAATTTATTA-AAATAA
1 T-AAATT-ATATTTTTAATAATTTATTATAAATAA
9269147 TAAATTATATTTATTAATAATTTATTATA
1 TAAATTATATTT-TTAATAATTTATTATA
9269176 TGACTAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
32 5 0.10
33 31 0.62
34 14 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
TAAATTATATTTTTAATAATTTATTATAAATAA
Found at i:9269142 original size:20 final size:22
Alignment explanation
Indices: 9269117--9269163 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
9269107 TTAAAATAAA
*
9269117 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
9269137 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
9269159 ATTAA
1 ATTAA
9269164 TAATTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.54
21 2 0.08
22 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:9273497 original size:16 final size:16
Alignment explanation
Indices: 9273467--9273496 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9273457 ATCTAACTTT
9273467 GTATACTAAAATTTTG
1 GTATACTAAAATTTTG
9273483 GTATAC-AAAATTTT
1 GTATACTAAAATTTT
9273497 TAAACAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (16 bp):
GTATACTAAAATTTTG
Found at i:9274972 original size:88 final size:89
Alignment explanation
Indices: 9274857--9275036 Score: 290
Period size: 88 Copynumber: 2.0 Consensus size: 89
9274847 AAGTAAGCTA
* *
9274857 CTTGAAAATATTGTTAATGAAGAATAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGA
1 CTTGAAAATATTGTTAAGGAAAAATAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGA
*
9274922 GATGAGTTTATATATGTGAACCTT
66 GATGAGTTTATATATGTGAACCCT
* * *
9274946 CTTG-AAATATTGTTGAGGAAAAATAAAGGCTTAGATCTCACATTGGTTTAATACCAAAGTGTGA
1 CTTGAAAATATTGTTAAGGAAAAATAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGA
*
9275010 GATGGGTTTATATATGTGAACCCT
66 GATGAGTTTATATATGTGAACCCT
9275034 CTT
1 CTT
9275037 CAAAGGTAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 80 0.95
89 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (89 bp):
CTTGAAAATATTGTTAAGGAAAAATAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGA
GATGAGTTTATATATGTGAACCCT
Found at i:9276005 original size:20 final size:20
Alignment explanation
Indices: 9275980--9276047 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
9275970 CATTAGAAAT
*
9275980 TTAGAAATATTGTTATTCGA
1 TTAGAAATATTGGTATTCGA
*
9276000 TTAGAAATAATGGTATCTCG-
1 TTAGAAATATTGGTAT-TCGA
* **
9276020 TTAGAAATCTTGGTATTATA
1 TTAGAAATATTGGTATTCGA
9276040 TTAGAAAT
1 TTAGAAAT
9276048 TTTGTTATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.03
20 36 0.90
21 3 0.08
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (20 bp):
TTAGAAATATTGGTATTCGA
Found at i:9276056 original size:20 final size:20
Alignment explanation
Indices: 9276020--9276057 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9276010 TGGTATCTCG
9276020 TTAGAAATCTTGGTATTATA
1 TTAGAAATCTTGGTATTATA
* *
9276040 TTAGAAATTTTGTTATTA
1 TTAGAAATCTTGGTATTA
9276058 ATTTATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (20 bp):
TTAGAAATCTTGGTATTATA
Found at i:9276575 original size:17 final size:16
Alignment explanation
Indices: 9276553--9276588 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9276543 TAATTTTAAA
*
9276553 TATTATATTTTATTATT
1 TATTATATGTTATT-TT
9276570 TATTATATGTTATTTT
1 TATTATATGTTATTTT
9276586 TAT
1 TAT
9276589 GTGATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTATATGTTATTTT
Found at i:9276992 original size:11 final size:11
Alignment explanation
Indices: 9276976--9277009 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9276966 TCAATTATTT
9276976 TCTCAATTTCC
1 TCTCAATTTCC
* *
9276987 TCTCAAATTGC
1 TCTCAATTTCC
9276998 TCTCAATTTCC
1 TCTCAATTTCC
9277009 T
1 T
9277010 TCCAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:9277003 original size:22 final size:22
Alignment explanation
Indices: 9276976--9277025 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
9276966 TCAATTATTT
9276976 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
9276998 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
9277020 TCTCAA
1 TCTCAA
9277026 ATCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:9277123 original size:8 final size:9
Alignment explanation
Indices: 9277104--9277128 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9277094 TTTTAAAAAA
9277104 TTTTTAATT
1 TTTTTAATT
9277113 TTTTTAATT
1 TTTTTAATT
9277122 TTTTTAA
1 TTTTTAA
9277129 ATCATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:9279546 original size:15 final size:15
Alignment explanation
Indices: 9279526--9279659 Score: 74
Period size: 15 Copynumber: 8.2 Consensus size: 15
9279516 TAAAAATCCT
9279526 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
9279541 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
** *
9279556 AACACCAAAACCCTAACAAA
1 AAC-CCTTAA--CT--TAAA
* *
9279576 AACCC-TAGTCTTAACCCT
1 AACCCTTA-ACTTAA---A
9279594 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
* *
9279609 AACCC-TAACCCTAACCCT
1 AACCCTTAA-CTTAA---A
9279627 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
9279642 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
9279657 AAC
1 AAC
9279660 ACCAAAACCG
Statistics
Matches: 91, Mismatches: 13, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
14 3 0.03
15 47 0.52
16 4 0.04
17 2 0.02
18 22 0.24
19 7 0.08
20 6 0.07
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.22
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:9279581 original size:89 final size:86
Alignment explanation
Indices: 9279474--9279769 Score: 272
Period size: 101 Copynumber: 3.2 Consensus size: 86
9279464 TTTAATTGAC
* * *
9279474 AAACCCTAACAAAAACCCTAACTC-TAACCCTCACCCTTAACTTAAAAATCCTAACCCTTAA-CT
1 AAACCCTAACAAAAACCCT-ACTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCC-TAACCC
9279537 TAAAAACCCTTAACTTAAAAACACCA
64 T---AACCCTTAACTTAAAAACACCA
*
9279563 AAACCCTAACAAAAACCCTAGTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTA
1 AAACCCTAACAAAAACCCTACTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTA
*
9279628 ACCCTTAACTTAAAAACCCTTAACTTAA
66 ACCCTTAACTTAAAAA--C---AC--CA
* * ** * * *
9279656 AAACACCAAAACCGTAACAAAAACCTTAGCCCTAACCCTAACCATTAACTTAAAAACCCTAACCA
1 AAAC-CC-TAA-C--A---AAAACCCTACTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCC
*
9279721 TAACCCTAACCCTCAACTTAAAAACACCA
58 TAACCCTAACCCTTAACTTAAAAACACCA
*
9279750 AAACCCAAACAAAAACCCTA
1 AAACCCTAACAAAAACCCTA
9279770 GCCCTAACTG
Statistics
Matches: 176, Mismatches: 14, Indels: 37
0.78 0.06 0.16
Matches are distributed among these distances:
86 25 0.14
88 7 0.04
89 53 0.30
91 3 0.02
92 3 0.02
93 7 0.04
94 7 0.04
95 2 0.01
96 3 0.02
98 1 0.01
99 1 0.01
101 64 0.36
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (86 bp):
AAACCCTAACAAAAACCCTACTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTA
ACCCTTAACTTAAAAACACCA
Found at i:9279628 original size:101 final size:101
Alignment explanation
Indices: 9279523--9279745 Score: 383
Period size: 101 Copynumber: 2.2 Consensus size: 101
9279513 ACTTAAAAAT
* *
9279523 CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGTCTT
1 CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCT
* *
9279588 AACCCTAACCCTTAACTTAAAAACCCTAACCCTAAC
66 AACCCTAACCATTAACTTAAAAACCCTAACCATAAC
* *
9279624 CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCGTAACAAAAACCTTAGCCCT
1 CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCT
9279689 AACCCTAACCATTAACTTAAAAACCCTAACCATAAC
66 AACCCTAACCATTAACTTAAAAACCCTAACCATAAC
*
9279725 CCTAACCCTCAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
9279746 ACCAAAACCC
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 115 1.00
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.20
Consensus pattern (101 bp):
CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCT
AACCCTAACCATTAACTTAAAAACCCTAACCATAAC
Found at i:9282101 original size:24 final size:24
Alignment explanation
Indices: 9282073--9282121 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9282063 CAATCAAAAG
9282073 ATTGTTAAAACAGCTTCTAAAGAA
1 ATTGTTAAAACAGCTTCTAAAGAA
9282097 ATTGTTAAAACAGCTTCTAAAGAA
1 ATTGTTAAAACAGCTTCTAAAGAA
9282121 A
1 A
9282122 ACTCAAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (24 bp):
ATTGTTAAAACAGCTTCTAAAGAA
Found at i:9286990 original size:6 final size:6
Alignment explanation
Indices: 9286981--9287079 Score: 67
Period size: 6 Copynumber: 15.5 Consensus size: 6
9286971 TTAACTTAAA
* *
9286981 AACCCT AACCAT AACCCT AACCCTT AA-CTT AAAAACCCT AACCCT AACCCT
1 AACCCT AACCCT AACCCT AACCC-T AACCCT ---AACCCT AACCCT AACCCT
* * *
9287032 AATCCTT AA-CTT AAAAACCCT AACCCT AACCCT AACCTT AACCCT AAC
1 AA-CCCT AACCCT ---AACCCT AACCCT AACCCT AACCCT AACCCT AAC
9287080 TCTTAACTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
5 4 0.05
6 55 0.73
7 8 0.11
8 4 0.05
9 4 0.05
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (6 bp):
AACCCT
Found at i:9286997 original size:27 final size:27
Alignment explanation
Indices: 9286959--9287153 Score: 131
Period size: 27 Copynumber: 7.1 Consensus size: 27
9286949 GTATCAGGTT
*
9286959 TAACCCTAACCCTTAACTTAAAAACCC
1 TAACCATAACCCTTAACTTAAAAACCC
9286986 TAACCATAACCCTAACCCTTAACTTAAAAACCC
1 TAACC---A---TAACCCTTAACTTAAAAACCC
*
9287019 TAACCCTAACCCTAATCCTTAACTTAAAAACCC
1 TAA-CC--A---TAACCCTTAACTTAAAAACCC
*
9287052 TAACCCTAACCC-TAACCTT---AACCC
1 TAACCATAACCCTTAA-CTTAAAAACCC
9287076 TAA-C-T----CTTAACTTAAAAACCC
1 TAACCATAACCCTTAACTTAAAAACCC
* *
9287097 TAACCATAATCCTTAACTTAAAAAACC
1 TAACCATAACCCTTAACTTAAAAACCC
* * *
9287124 TAACCCTAACCTTTAACTTAAAAACAC
1 TAACCATAACCCTTAACTTAAAAACCC
9287151 TAA
1 TAA
9287154 AACCCTAATG
Statistics
Matches: 140, Mismatches: 10, Indels: 36
0.75 0.05 0.19
Matches are distributed among these distances:
18 4 0.03
19 3 0.02
21 8 0.06
22 2 0.01
23 2 0.01
24 8 0.06
26 3 0.02
27 53 0.38
32 2 0.01
33 53 0.38
34 2 0.01
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (27 bp):
TAACCATAACCCTTAACTTAAAAACCC
Found at i:9287063 original size:45 final size:45
Alignment explanation
Indices: 9287014--9287101 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
9287004 TTAACTTAAA
9287014 AACCCTAACCCTAACCCTAA-TCCTTAACTTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCCTAACT-CTTAACTTAAAAACCCTAACCCT
*
9287059 AACCCTAACCTTAACCCTAACTCTTAACTTAAAAACCCTAACC
1 AACCCTAACCCTAACCCTAACTCTTAACTTAAAAACCCTAACC
9287102 ATAATCCTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 40 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (45 bp):
AACCCTAACCCTAACCCTAACTCTTAACTTAAAAACCCTAACCCT
Found at i:9287096 original size:33 final size:33
Alignment explanation
Indices: 9286959--9287073 Score: 205
Period size: 33 Copynumber: 3.5 Consensus size: 33
9286949 GTATCAGGTT
*
9286959 TAACCCTAACCCTTAACTTAAAAACCCTAACCA
1 TAACCCTAACCCTTAACTTAAAAACCCTAACCC
9286992 TAACCCTAACCCTTAACTTAAAAACCCTAACCC
1 TAACCCTAACCCTTAACTTAAAAACCCTAACCC
*
9287025 TAACCCTAATCCTTAACTTAAAAACCCTAACCC
1 TAACCCTAACCCTTAACTTAAAAACCCTAACCC
9287058 TAACCCTAA-CCTTAAC
1 TAACCCTAACCCTTAAC
9287074 CCTAACTCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
32 7 0.09
33 73 0.91
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (33 bp):
TAACCCTAACCCTTAACTTAAAAACCCTAACCC
Found at i:9287097 original size:33 final size:33
Alignment explanation
Indices: 9287059--9287195 Score: 78
Period size: 27 Copynumber: 4.7 Consensus size: 33
9287049 CCCTAACCCT
* *
9287059 AACCCTAACCTTAACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAA
*
9287092 AACCCTAA-CC--A---TAATCCTTAACTTAAA
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAA
*
9287119 AAACCTAACCCTAA-CCT-----TTAACTTAAA
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAA
* **
9287146 AACACTAA----AACCCTAATGC-TAAC--AAA
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAA
9287172 AACCCTAACCCTAACCCTAACCCT
1 AACCCTAACCCTAACCCTAACCCT
9287196 AACCCTAATC
Statistics
Matches: 79, Mismatches: 9, Indels: 34
0.65 0.07 0.28
Matches are distributed among these distances:
23 2 0.03
24 3 0.04
26 10 0.13
27 37 0.47
28 6 0.08
30 11 0.14
32 2 0.03
33 8 0.10
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.23
Consensus pattern (33 bp):
AACCCTAACCCTAACCCTAACCCTTAACTTAAA
Found at i:9287098 original size:72 final size:74
Alignment explanation
Indices: 9286981--9287134 Score: 222
Period size: 72 Copynumber: 2.1 Consensus size: 74
9286971 TTAACTTAAA
*
9286981 AACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTAATCCTTAACTTAA
1 AACCCTAACCATAACCCTAACCCTTAACTT-AAAA--C-AACCCTAACCATAATCCTTAACTTAA
*
9287046 AAACCCTAACCCT
62 AAAACCTAACCCT
* *
9287059 AACCCTAACCTTAACCCTAACTCTTAACTT-AAA-AACCCTAACCATAATCCTTAACTTAAAAAA
1 AACCCTAACCATAACCCTAACCCTTAACTTAAAACAACCCTAACCATAATCCTTAACTTAAAAAA
9287122 CCTAACCCT
66 CCTAACCCT
9287131 AACC
1 AACC
9287135 TTTAACTTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
72 41 0.57
76 3 0.04
78 28 0.39
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (74 bp):
AACCCTAACCATAACCCTAACCCTTAACTTAAAACAACCCTAACCATAATCCTTAACTTAAAAAA
CCTAACCCT
Found at i:9287144 original size:72 final size:75
Alignment explanation
Indices: 9286981--9287134 Score: 233
Period size: 78 Copynumber: 2.1 Consensus size: 75
9286971 TTAACTTAAA
*
9286981 AACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTAATCCTTAACTTAA
1 AACCCTAACCTTAACCCTAACCCTTAACTTAAAAACCCTAACCC-AA--CTAATCCTTAACTTAA
*
9287046 AAACCCTAACCCT
63 AAAACCTAACCCT
*
9287059 AACCCTAACCTTAACCCTAACTCTTAACTTAAAAACCCTAA-CC-A-TAATCCTTAACTTAAAAA
1 AACCCTAACCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCAACTAATCCTTAACTTAAAAA
9287121 ACCTAACCCT
66 ACCTAACCCT
9287131 AACC
1 AACC
9287135 TTTAACTTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
72 31 0.42
75 1 0.01
77 2 0.03
78 39 0.53
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (75 bp):
AACCCTAACCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCAACTAATCCTTAACTTAAAAA
ACCTAACCCT
Found at i:9287148 original size:54 final size:53
Alignment explanation
Indices: 9287065--9287187 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 53
9287055 CCCTAACCCT
*
9287065 AACCTTAACCCTAA-CTCTTAACTTAAAAACCCT-AACCATAATCCTTAACTTAAAA
1 AACC-TAACCCTAACCTCTTAACTTAAAAACACTAAACCATAATCC-TAAC--AAAA
* *
9287120 AACCTAACCCTAACCT-TTAACTTAAAAACACTAAAACCCTAATGCTAACAAAA
1 AACCTAACCCTAACCTCTTAACTTAAAAACACT-AAACCATAATCCTAACAAAA
*
9287173 ACCCTAACCCTAACC
1 AACCTAACCCTAACC
9287188 CTAACCCTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
53 18 0.30
54 24 0.39
55 10 0.16
56 9 0.15
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.23
Consensus pattern (53 bp):
AACCTAACCCTAACCTCTTAACTTAAAAACACTAAACCATAATCCTAACAAAA
Found at i:9287181 original size:6 final size:6
Alignment explanation
Indices: 9287172--9287203 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
9287162 TGCTAACAAA
9287172 AACCCT AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA
9287204 TCTGATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (6 bp):
AACCCT
Found at i:9287185 original size:18 final size:18
Alignment explanation
Indices: 9287152--9287203 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
9287142 TAAAAACACT
**
9287152 AAAACCCTAATGCTAACA
1 AAAACCCTAACCCTAACA
*
9287170 AAAACCCTAACCCTAACC
1 AAAACCCTAACCCTAACA
**
9287188 CTAACCCTAACCCTAA
1 AAAACCCTAACCCTAA
9287204 TCTGATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAACCCTAACCCTAACA
Found at i:9287257 original size:35 final size:35
Alignment explanation
Indices: 9287218--9287378 Score: 94
Period size: 35 Copynumber: 4.4 Consensus size: 35
9287208 ATATAATTTG
9287218 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAATTAATACAATTAACAATTA
* * * ** * * *
9287253 ATAATTTGACTAAAAAAATGTTAGATTTTACAA--A
1 ATAATTTTACT-AACAATTAATACAATTAACAATTA
* * * *
9287287 ATATTTTGACTGGTACTAACAATTAATA-ATTTGATATAATTTG
1 ATA-ATT---T--TACTAACAATTAATACAATT-A-ACAA-TTA
*
9287330 ATAATTTTACTAATAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAATTAATACAATTAACAATTA
9287365 ATAATTTTACTAAC
1 ATAATTTTACTAAC
9287379 GAAATGTTAG
Statistics
Matches: 90, Mismatches: 23, Indels: 26
0.65 0.17 0.19
Matches are distributed among these distances:
34 4 0.04
35 27 0.30
36 17 0.19
37 15 0.17
38 8 0.09
39 8 0.09
40 6 0.07
42 2 0.02
43 3 0.03
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (35 bp):
ATAATTTTACTAACAATTAATACAATTAACAATTA
Found at i:9287348 original size:112 final size:111
Alignment explanation
Indices: 9287201--9287439 Score: 379
Period size: 112 Copynumber: 2.1 Consensus size: 111
9287191 ACCCTAACCC
*
9287201 TAATCTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
* * *
9287266 AAAAATGTTAGATTTTACAAAATATTTTGACTGGTACTAACAATTAA
66 AAAAATGTTAGATTTTACAAAATATTTTGACTGGTACAAAAAAAT-A
* *
9287313 TAATTTGATATAATTTGATAATTTTACTAATAATTAATACAATTAACAATTAATAATTTTACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
** * *
9287378 CGAAATGTTAGATTTTACAAAATGTTTTGATTGGTACAAAAAAATA
66 AAAAATGTTAGATTTTACAAAATATTTTGACTGGTACAAAAAAATA
9287424 TAATTTGATATAATTT
1 TAATTTGATATAATTT
9287440 TAATAACAAT
Statistics
Matches: 117, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
111 17 0.15
112 100 0.85
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (111 bp):
TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
AAAAATGTTAGATTTTACAAAATATTTTGACTGGTACAAAAAAATA
Found at i:9287453 original size:16 final size:16
Alignment explanation
Indices: 9287434--9287475 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
9287424 TAATTTGATA
9287434 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
9287450 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
9287466 TAGTTTTAAT
1 TAATTTTAAT
9287476 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:9287459 original size:22 final size:23
Alignment explanation
Indices: 9287449--9287499 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
9287439 TTAATAACAA
* *
9287449 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
9287471 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
9287494 TTAATT
1 TTAATT
9287500 ATATTTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:9288558 original size:18 final size:18
Alignment explanation
Indices: 9288535--9288651 Score: 56
Period size: 18 Copynumber: 7.0 Consensus size: 18
9288525 TTTCACTTTC
9288535 TAATTTATTACTTTAATT
1 TAATTTATTACTTTAATT
*
9288553 TAATTTA-TCCTTTAA-T
1 TAATTTATTACTTTAATT
*
9288569 TAA---AAT-CGTTTAATT
1 TAATTTATTAC-TTTAATT
*
9288584 TCATTTATTAC-TT--TT
1 TAATTTATTACTTTAATT
* * *
9288599 AAATTTATTACTTGATTT
1 TAATTTATTACTTTAATT
* * * *
9288617 TCATTTACTCCTTTAAAT
1 TAATTTATTACTTTAATT
*
9288635 TAATTTA-TCCTTTAATT
1 TAATTTATTACTTTAATT
9288652 ATTTAATTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
13 2 0.03
14 6 0.08
15 14 0.19
16 5 0.07
17 18 0.24
18 28 0.38
19 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATTTATTACTTTAATT
Found at i:9289481 original size:19 final size:19
Alignment explanation
Indices: 9289459--9289501 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
9289449 AATCATCAGG
9289459 CAATGATT-AGGTCAAAAAT
1 CAATGATTGA-GTCAAAAAT
9289478 CAATGATTGAGTCAAAAAT
1 CAATGATTGAGTCAAAAAT
9289497 CAATG
1 CAATG
9289502 TGGTGACGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (19 bp):
CAATGATTGAGTCAAAAAT
Found at i:9293496 original size:55 final size:56
Alignment explanation
Indices: 9293325--9293543 Score: 329
Period size: 56 Copynumber: 3.9 Consensus size: 56
9293315 TAAAATTATG
*
9293325 TAAAATTATTAAG-CCAAAAAAATTGTTTTAATGGTTAGTAAAATTTATCAAATAAAC
1 TAAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
* **
9293382 TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* *
9293437 TAAAATTATTAAG-CCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
9293492 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
9293544 TAAGTTAGGT
Statistics
Matches: 146, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
54 27 0.18
55 43 0.29
56 62 0.42
57 13 0.09
58 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (56 bp):
TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
Found at i:9293516 original size:110 final size:113
Alignment explanation
Indices: 9293316--9293542 Score: 397
Period size: 110 Copynumber: 2.0 Consensus size: 113
9293306 AACATTATAT
*
9293316 AAAATTATGTAAAATTATTAAGCCAAAAAAATTGTTTTAATGGTTAGTAAAATTTATCAAATAAA
1 AAAATTATGTAAAATTATTAAGCC-AAAAAATTGTATTAATGGTTAGTAAAATTTATCAAATAAA
*
9293381 CTAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAA-TTATC
65 CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATC
*
9293429 AAAA-TATGTAAAATTATTAAGCC-AAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 AAAATTATGTAAAATTATTAAGCCAAAAAATTGTATTAATGGTTAGTAAAATTTATCAAATAAAC
9293492 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATC
66 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATC
9293540 AAA
1 AAA
9293543 TTAAGTTAGG
Statistics
Matches: 110, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
110 79 0.72
111 8 0.07
112 19 0.17
113 4 0.04
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (113 bp):
AAAATTATGTAAAATTATTAAGCCAAAAAATTGTATTAATGGTTAGTAAAATTTATCAAATAAAC
TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATC
Found at i:9293575 original size:29 final size:29
Alignment explanation
Indices: 9293541--9293800 Score: 387
Period size: 29 Copynumber: 8.8 Consensus size: 29
9293531 AAATTTATCA
9293541 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
9293570 AATTAATTTAGATTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
9293599 AATTAATTTAGATTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
9293628 AATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTT
1 AATT-A---A-GTTA-GGTTAGGGTTAGGGTTTTT
9293663 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
9293692 AGTTAGGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
9293721 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
9293750 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
9293779 AATTAAGTTAGGTTA-GGTTAGG
1 AATTAAGTTAGGTTAGGGTTAGG
9293801 TTAGGTTAGG
Statistics
Matches: 215, Mismatches: 10, Indels: 13
0.90 0.04 0.05
Matches are distributed among these distances:
28 7 0.03
29 175 0.81
30 5 0.02
31 1 0.00
33 1 0.00
34 4 0.02
35 22 0.10
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (29 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTTT
Found at i:9293639 original size:18 final size:18
Alignment explanation
Indices: 9293616--9293674 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
9293606 TTAGATTAGG
9293616 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**** *
9293634 GTTA-GG-TTAGGGTTAGG
1 GTTAGGGTTTTTAATTA-A
9293651 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
9293669 GTTAGG
1 GTTAGG
9293675 TTAGGGTTAG
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 5 0.18
17 6 0.21
18 12 0.43
19 5 0.18
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:9293685 original size:122 final size:116
Alignment explanation
Indices: 9293541--9293800 Score: 414
Period size: 122 Copynumber: 2.2 Consensus size: 116
9293531 AAATTTATCA
*
9293541 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGATTAGGGTTAGGGTTTTTAATTAAT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGATTAGGGTTAGGGTTTTTAATTAAT
9293606 TTAGATTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTT
66 TTAGATTAGGGTTAGGGTTTTTAATTAA--T---TTA-GGTTAGGGTTAGGGTTTTT
* * *
9293663 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAGTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGATTAGGGTTAGGGTTTTTAATTAAT
*
9293728 TTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
66 TTAGATTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
9293779 AATTAAGTTAGGTTA-GGTTAGG
1 AATTAAGTTAGGTTAGGGTTAGG
9293801 TTAGGTTAGG
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
115 7 0.05
116 34 0.26
117 3 0.02
120 1 0.01
122 88 0.66
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (116 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGATTAGGGTTAGGGTTTTTAATTAAT
TTAGATTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
Found at i:9293795 original size:5 final size:5
Alignment explanation
Indices: 9293785--9293810 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9293775 TTTTAATTAA
9293785 GTTAG GTTAG GTTAG GTTAG GTTAG G
1 GTTAG GTTAG GTTAG GTTAG GTTAG G
9293811 GTTTTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.38
Consensus pattern (5 bp):
GTTAG
Found at i:9293915 original size:25 final size:26
Alignment explanation
Indices: 9293876--9293924 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
9293866 CTTCAAAAAT
9293876 TTCTATGTGTATTACATCAAATAAAC
1 TTCTATGTGTATTACATCAAATAAAC
*
9293902 TTCTAT-TTTATTACATCAAATAA
1 TTCTATGTGTATTACATCAAATAA
9293925 TAAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (26 bp):
TTCTATGTGTATTACATCAAATAAAC
Found at i:9294695 original size:7 final size:7
Alignment explanation
Indices: 9294685--9294716 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9294675 TTATATACAT
9294685 AATACTA
1 AATACTA
9294692 AATACTA
1 AATACTA
*
9294699 AATATTA
1 AATACTA
9294706 AATACTA
1 AATACTA
9294713 AATA
1 AATA
9294717 TCAATCGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:9295833 original size:31 final size:31
Alignment explanation
Indices: 9295798--9295862 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
9295788 GTCATTGATG
*
9295798 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAAATTAAAATTATTTTAAA
*
9295829 AAAATATAAAAAAAATTATAATTATTTTAAA
1 AAAATATAAAAAAAATTAAAATTATTTTAAA
9295860 AAA
1 AAA
9295863 TAGATTTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAAATTAAAATTATTTTAAA
Found at i:9299953 original size:20 final size:20
Alignment explanation
Indices: 9299928--9299965 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9299918 GATACCCAAT
9299928 TATTTCATGGCTACGGTACG
1 TATTTCATGGCTACGGTACG
*
9299948 TATTTCATGGTTACGGTA
1 TATTTCATGGCTACGGTA
9299966 TGTGAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (20 bp):
TATTTCATGGCTACGGTACG
Found at i:9313318 original size:26 final size:25
Alignment explanation
Indices: 9313289--9313343 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
9313279 AATAATAATT
9313289 TATATAATTTTTTAAAACTCATAAAA
1 TATATAATTTTTTAAAA-TCATAAAA
* *
9313315 TATATTATTTTTTAAAATTATAAAA
1 TATATAATTTTTTAAAATCATAAAA
9313340 -ATAT
1 TATAT
9313344 TTTTACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 4 0.15
25 7 0.26
26 16 0.59
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
TATATAATTTTTTAAAATCATAAAA
Found at i:9313854 original size:6 final size:6
Alignment explanation
Indices: 9313843--9313872 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
9313833 CACATCTCAA
9313843 CATCAC CATCAC CATCAC CATCAC CATCAC
1 CATCAC CATCAC CATCAC CATCAC CATCAC
9313873 ATATCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (6 bp):
CATCAC
Found at i:9318918 original size:18 final size:18
Alignment explanation
Indices: 9318897--9318944 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
9318887 AATCGAAATT
9318897 TATTTTATAATAAAATAA
1 TATTTTATAATAAAATAA
* *
9318915 TATTTTAAAAT-AATTAA
1 TATTTTATAATAAAATAA
*
9318932 TATCTTAT-ATAAA
1 TATTTTATAATAAA
9318945 TTTAATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 2 0.08
17 13 0.52
18 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTTTATAATAAAATAA
Found at i:9319499 original size:21 final size:22
Alignment explanation
Indices: 9319457--9319503 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
9319447 TAAGGAGATA
9319457 TTTAAAAATATTAATTTATTTT
1 TTTAAAAATATTAATTTATTTT
* * *
9319479 TTTAAAATTA-TATTTTGTTTT
1 TTTAAAAATATTAATTTATTTT
9319500 TTTA
1 TTTA
9319504 TTAAAAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTAAAAATATTAATTTATTTT
Found at i:9320504 original size:16 final size:17
Alignment explanation
Indices: 9320483--9320516 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9320473 ATGTGAAGAA
9320483 TATTATTT-AAAATTAT
1 TATTATTTAAAAATTAT
9320499 TATTATTTAAAAATTAT
1 TATTATTTAAAAATTAT
9320516 T
1 T
9320517 GTTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTATTTAAAAATTAT
Found at i:9324412 original size:20 final size:21
Alignment explanation
Indices: 9324373--9324412 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9324363 AAAATAAGAA
* *
9324373 AAAATCAAAGAAGGAGAAAAG
1 AAAATCAAAAAAGAAGAAAAG
9324394 AAAAT-AAAAAAGAAGAAAA
1 AAAATCAAAAAAGAAGAAAA
9324413 ATAGAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (21 bp):
AAAATCAAAAAAGAAGAAAAG
Found at i:9326396 original size:45 final size:45
Alignment explanation
Indices: 9326332--9326418 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
9326322 CAAATACTCT
* * *
9326332 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCTG
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCTG
*
9326377 GTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGT
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
9326419 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (45 bp):
GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCTG
Found at i:9335888 original size:20 final size:20
Alignment explanation
Indices: 9335863--9335917 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
9335853 CGATACCAAT
**
9335863 TAAAAATATCGATACTTTTG
1 TAAAAATATCGATACTCGTG
*
9335883 TAAAAATATTGATACTCGTG
1 TAAAAATATCGATACTCGTG
*
9335903 TAAATATATCGATAC
1 TAAAAATATCGATAC
9335918 CACTGGGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (20 bp):
TAAAAATATCGATACTCGTG
Found at i:9341617 original size:15 final size:16
Alignment explanation
Indices: 9341588--9341617 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9341578 CAAACATGCT
9341588 TTAACACATTATCAAA
1 TTAACACATTATCAAA
9341604 TTAACACA-TATCAA
1 TTAACACATTATCAA
9341618 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:9352934 original size:43 final size:43
Alignment explanation
Indices: 9352813--9352952 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
9352803 TATCCTAGAT
* * * * * *
9352813 ATGGTCTTACATGTTATCACATATTGATGCCATTGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
* * * * *
9352856 AGGGTCTTATATG-AA-ATCATATACGATGCTAATGTCGCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCTAATGTCCCAGAC
9352898 ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
9352941 ATGGTCTTACAC
1 ATGGTCTTACAC
9352953 TAAATCACAC
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 5 0.06
42 26 0.32
43 43 0.54
44 6 0.08
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
Done.