Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 44 of 195
Found at i:9194059 original size:2 final size:2
Alignment explanation
Indices: 9194052--9194087 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9194042 CCTCCTCTTT
9194052 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9194088 AGAAGGATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9194727 original size:20 final size:20
Alignment explanation
Indices: 9194702--9194742 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9194692 ATTTTATTAT
9194702 TTTTATGCT-TTACAATTTAA
1 TTTTATG-TATTACAATTTAA
*
9194722 TTTTATGTATTGCAATTTAA
1 TTTTATGTATTACAATTTAA
9194742 T
1 T
9194743 AAATATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTATGTATTACAATTTAA
Found at i:9196467 original size:2 final size:2
Alignment explanation
Indices: 9196460--9196484 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9196450 ACCAATCTGA
9196460 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
9196485 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9196489 original size:2 final size:2
Alignment explanation
Indices: 9196484--9196517 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9196474 TCTCTCTCTC
* *
9196484 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9196518 GTTACTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9200020 original size:18 final size:18
Alignment explanation
Indices: 9199994--9200028 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9199984 ATTTTTAATA
9199994 TTTTATTTTTTAATTTAT
1 TTTTATTTTTTAATTTAT
* *
9200012 TTTTCTTTTTTTATTTA
1 TTTTATTTTTTAATTTA
9200029 AATATTTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTAATTTAT
Found at i:9201727 original size:3 final size:3
Alignment explanation
Indices: 9201697--9201797 Score: 52
Period size: 3 Copynumber: 35.0 Consensus size: 3
9201687 TAGTATAATA
* * * *
9201697 TAT TA- TAT TAT TGT GAT CTAT TAG TAT TAT TAT TA- TATT TAT CAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * * *
9201742 TAT T-C TAT TA- TAC CA- TAT TAC TAT TAC TAT TTT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9201786 TAT TAT TAT TAT
1 TAT TAT TAT TAT
9201798 ACACATCTTA
Statistics
Matches: 72, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
2 10 0.14
3 58 0.81
4 4 0.06
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:9209056 original size:16 final size:18
Alignment explanation
Indices: 9209037--9209073 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
9209027 TATAATAAAA
9209037 AAATTATA-TTATT-TAT
1 AAATTATATTTATTATAT
*
9209053 AAATTTTATTTATTATAT
1 AAATTATATTTATTATAT
9209071 AAA
1 AAA
9209074 ATTTGTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 5 0.28
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTATATTTATTATAT
Found at i:9209986 original size:2 final size:2
Alignment explanation
Indices: 9209981--9210011 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9209971 GGCATAAAAC
9209981 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
9210012 CATCCAAATT
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:9211532 original size:63 final size:62
Alignment explanation
Indices: 9211432--9211563 Score: 237
Period size: 63 Copynumber: 2.1 Consensus size: 62
9211422 CTATCATCAG
9211432 AAAAAATATGTTAGTTCTTAAAGTAAAGATAGATTAATAAAAAGAGAGATTAAATTAATAGT
1 AAAAAATATGTTAGTTCTTAAAGTAAAGATAGATTAATAAAAAGAGAGATTAAATTAATAGT
*
9211494 AAAAAAGTATGTTAGTTCTTAAAGTAAAGATAGGTTAATAAAAAGAGAGATTAAATTAATAGT
1 AAAAAA-TATGTTAGTTCTTAAAGTAAAGATAGATTAATAAAAAGAGAGATTAAATTAATAGT
9211557 AAGAAAA
1 AA-AAAA
9211564 ATACGTTTAG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
62 6 0.09
63 57 0.85
64 4 0.06
ACGTcount: A:0.54, C:0.02, G:0.16, T:0.29
Consensus pattern (62 bp):
AAAAAATATGTTAGTTCTTAAAGTAAAGATAGATTAATAAAAAGAGAGATTAAATTAATAGT
Found at i:9212470 original size:2 final size:2
Alignment explanation
Indices: 9212463--9212498 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9212453 TTTTTGTTAT
9212463 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9212499 GTAATATCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9217579 original size:30 final size:30
Alignment explanation
Indices: 9217542--9217606 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
9217532 CCCGAAATTA
* * *
9217542 ATAAAAATATTATTTTTTAAATATAAATAT
1 ATAAAAATATCATTATATAAATATAAATAT
* *
9217572 TTAAAAATATCATTATATAAATATATATAT
1 ATAAAAATATCATTATATAAATATAAATAT
9217602 ATAAA
1 ATAAA
9217607 TAAATAATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAAAATATCATTATATAAATATAAATAT
Found at i:9221944 original size:42 final size:42
Alignment explanation
Indices: 9221898--9221979 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
9221888 GGTATTATGA
9221898 TATCTTATAGTATATTAAAAACCATCAATACCCTATCCAACC
1 TATCTTATAGTATATTAAAAACCATCAATACCCTATCCAACC
9221940 TATCTTATAGTATATTAAAAACCATCAATACCCTATCCAA
1 TATCTTATAGTATATTAAAAACCATCAATACCCTATCCAA
9221980 GCAACTAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.32
Consensus pattern (42 bp):
TATCTTATAGTATATTAAAAACCATCAATACCCTATCCAACC
Found at i:9223213 original size:17 final size:17
Alignment explanation
Indices: 9223193--9223226 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9223183 AAAAAAAATT
9223193 AAAAAATGAAAAATGAG
1 AAAAAATGAAAAATGAG
9223210 AAAAAATGAAAAATGAG
1 AAAAAATGAAAAATGAG
9223227 GACTTAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (17 bp):
AAAAAATGAAAAATGAG
Found at i:9223213 original size:25 final size:24
Alignment explanation
Indices: 9223171--9223222 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
9223161 TACTACGCTT
*
9223171 AAAAGAAAAAGGAAAAAAAATTAA
1 AAAAGAAAAAGGAAAAAAAATGAA
* *
9223195 AAAATGAAAAATGAGAAAAAATGAA
1 AAAA-GAAAAAGGAAAAAAAATGAA
9223220 AAA
1 AAA
9223223 TGAGGACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (24 bp):
AAAAGAAAAAGGAAAAAAAATGAA
Found at i:9224258 original size:41 final size:41
Alignment explanation
Indices: 9224208--9224607 Score: 399
Period size: 41 Copynumber: 9.7 Consensus size: 41
9224198 TTTGAGCAAG
* *
9224208 TTATTTTTCAAAGTTATGGTGCCTTTGTTTAGAGGAGCATT
1 TTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
*
9224249 TTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAAT
1 TTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
*
9224291 TTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATT
1 TTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
* * * * *
9224332 TTATTTTTCAAAATTTGTGGTGCCTTTATTTAGAGGGGTAATT
1 TTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAG-CATT
* * *
9224375 TT-TTTTTCAAAGTTATAGTGCCTCTGTTTAAAGGAGCATT
1 TTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
* * * * * ** *
9224415 TTACTTTCCAAATTTGTGATGCCTCTGTTTGGAAAAGTATT
1 TTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
* *
9224456 TTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAACATT
1 TTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
* *** * * *
9224497 TTAATTTTCAAAAGTTGTTAAGCTTCTGTTTAGATGAGCCTT
1 TTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
* * ** * * *
9224539 TTATTTTTAAAAGTTGTTGAACCTCTGCTTATATGAGCATT
1 TTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
* *
9224580 TTA-TTTTCAAAAATTATGGTGCCTCTGT
1 TTATTTTTC-AAAGTTGTGGTGCCTCTGT
9224608 CATTTATTTT
Statistics
Matches: 292, Mismatches: 61, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
40 9 0.03
41 179 0.61
42 99 0.34
43 5 0.02
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (41 bp):
TTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATT
Found at i:9224340 original size:83 final size:82
Alignment explanation
Indices: 9224201--9224607 Score: 404
Period size: 83 Copynumber: 4.9 Consensus size: 82
9224191 GATTGTCTTT
* * * *
9224201 GAGCAAGTTATTTTTCAAAGTTATGGTGCCTTTGTTTAGAGGAGCATTTTATTTTTCAAAAGTTG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATTTTA-TTTTCAAAAGTTG
9224266 TGGTGCCTCTGTTTAGAG
65 TGGTGCCTCTGTTTAGAG
*
9224284 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATTTTATTTTTCAAAATTTG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATTTTA-TTTTCAAAAGTTG
* *
9224349 TGGTGCCTTTATTTAGAG
65 TGGTGCCTCTGTTTAGAG
* * * * * * * * * *
9224367 GGGTAATTTTTTTTTCAAAGTTATAGTGCCTCTGTTTAAAGGAGCATTTTACTTTCCAAATTTGT
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATTTTATTTTCAAAAGTTGT
* * *
9224432 GATGCCTCTGTTTGGAA
66 GGTGCCTCTGTTTAGAG
* * * *
9224449 AAGTATTTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAA-CATTTTAATTTTCAAAAGTT
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGA-GAAGCATTTT-ATTTTCAAAAGTT
*** * *
9224513 GTTAAGCTTCTGTTTAGAT
64 GTGGTGCCTCTGTTTAGAG
** * * ** * * * *
9224532 GAGCCTTTTATTTTTAAAAGTTGTTGAACCTCTGCTTATATG-AGCATTTTATTTTCAAAAATTA
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGA-GAAGCATTTTATTTTCAAAAGTTG
9224596 TGGTGCCTCTGT
65 TGGTGCCTCTGT
9224608 CATTTATTTT
Statistics
Matches: 266, Mismatches: 55, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
82 83 0.31
83 183 0.69
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (82 bp):
GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATTTTATTTTCAAAAGTTGT
GGTGCCTCTGTTTAGAG
Found at i:9224396 original size:124 final size:124
Alignment explanation
Indices: 9224208--9224603 Score: 399
Period size: 124 Copynumber: 3.2 Consensus size: 124
9224198 TTTGAGCAAG
* * * *
9224208 TTATTTTTCAAAGTTATGGTGCCTTTGTTTAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCC
1 TTATTTTTCAAAGTTATGGTGCCTTTGTTTAGAGGGGAATTTTATTTTTCAAAAGTTATAGTGCC
*
9224273 TCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATT
66 TCTGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATT
* * *
9224332 TTATTTTTCAAAATTTGTGGTGCCTTTATTTAGAGGGGTAATTTT-TTTTTC-AAAGTTATAGTG
1 TTATTTTTC-AAAGTTATGGTGCCTTTGTTTAGAGGGG-AATTTTATTTTTCAAAAGTTATAGTG
* * * * * * * *
9224395 CCTCTGTTTAAAGGAGCATTTTACTTTCCAAATTTGTGATGCCTCTGTTTGGAAAAGTATT
64 CCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATT
* * * * * * *
9224456 TTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGA-GGAACATTTTAATTTTCAAAAGTTGTTA-AG
1 TTATTTTTCAAAGTTATGGTGCCTTTGTTTAGAGGGGA-ATTTTATTTTTCAAAAGTT-ATAGTG
* * * * * ** * *
9224519 CTTCTGTTTAGATGAGCCTTTTATTTTTAAAAGTTGTTGAACCTCTGCTTATATG-AGCATT
64 CCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGA-GAAGCATT
*
9224580 TTA-TTTTCAAAAATTATGGTGCCT
1 TTATTTTTC-AAAGTTATGGTGCCT
9224604 CTGTCATTTA
Statistics
Matches: 221, Mismatches: 43, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
121 1 0.00
122 7 0.03
123 31 0.14
124 145 0.66
125 32 0.14
126 5 0.02
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (124 bp):
TTATTTTTCAAAGTTATGGTGCCTTTGTTTAGAGGGGAATTTTATTTTTCAAAAGTTATAGTGCC
TCTGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATT
Found at i:9225589 original size:4 final size:4
Alignment explanation
Indices: 9225580--9225623 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
9225570 TTTTTAGTAT
* * * *
9225580 TTTA TTTA TTTA TTTA TTTA TCTA TTTA TGTG TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
9225624 GTATTTTTAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:9225729 original size:25 final size:27
Alignment explanation
Indices: 9225701--9225764 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
9225691 ATAATTATCC
9225701 AATGATGAAATTTTTA-AAAATTTC-A
1 AATGATGAAATTTTTATAAAATTTCTA
* *
9225726 AATGGT-AAATTTCTATAAAATTTCTA
1 AATGATGAAATTTTTATAAAATTTCTA
*
9225752 AGTGA-GAAATTTT
1 AATGATGAAATTTT
9225765 ATCTGAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.26
25 13 0.42
26 10 0.32
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.41
Consensus pattern (27 bp):
AATGATGAAATTTTTATAAAATTTCTA
Found at i:9225761 original size:26 final size:23
Alignment explanation
Indices: 9225707--9225763 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 23
9225697 ATCCAATGAT
*
9225707 GAAATTTTTAAAAATTTCAAATG
1 GAAATTTCTAAAAATTTCAAATG
*
9225730 GTAAATTTCTATAAAATTTCTAAGTG
1 G-AAATTTCTA-AAAATTTC-AAATG
9225756 AGAAATTT
1 -GAAATTT
9225764 TATCTGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.04
24 8 0.29
25 8 0.29
26 10 0.36
27 1 0.04
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (23 bp):
GAAATTTCTAAAAATTTCAAATG
Found at i:9226103 original size:57 final size:59
Alignment explanation
Indices: 9226033--9226143 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 59
9226023 TTCTAAAAAC
*
9226033 AAAAAAAGAAAAAAGAATTTATAAATATGCCCAAATGGT-GAAAATTTAGAAATCTAAT
1 AAAAAAAGAAAAAAGAATTTATAAATAAGCCCAAATGGTGGAAAATTTAGAAATCTAAT
* * * * *
9226091 AAAAAAA-TAAAAAGAATTTCTAAATAAGCCTAAATTGTGGAGAATTTAGAAAT
1 AAAAAAAGAAAAAAGAATTTATAAATAAGCCCAAATGGTGGAAAATTTAGAAAT
9226144 TCAAAACAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.56, C:0.06, G:0.13, T:0.25
Consensus pattern (59 bp):
AAAAAAAGAAAAAAGAATTTATAAATAAGCCCAAATGGTGGAAAATTTAGAAATCTAAT
Found at i:9226846 original size:19 final size:19
Alignment explanation
Indices: 9226822--9226860 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9226812 ATAAGCCAAA
*
9226822 ATTTTAAAAATTTTCAAGG
1 ATTTTAAAAAATTTCAAGG
*
9226841 ATTTTAAAAAATTTGAAGG
1 ATTTTAAAAAATTTCAAGG
9226860 A
1 A
9226861 CTTGTGCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (19 bp):
ATTTTAAAAAATTTCAAGG
Found at i:9235393 original size:20 final size:20
Alignment explanation
Indices: 9235368--9235406 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9235358 AGTTTACCGA
9235368 TCAACGAAGGCAGAACACGG
1 TCAACGAAGGCAGAACACGG
9235388 TCAACGAAGGCAGAACACG
1 TCAACGAAGGCAGAACACG
9235407 TAAAGGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.26, G:0.28, T:0.05
Consensus pattern (20 bp):
TCAACGAAGGCAGAACACGG
Found at i:9238991 original size:18 final size:21
Alignment explanation
Indices: 9238968--9239007 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
9238958 ATGATGGAAC
9238968 ACGATGG-G-GAAAGGG-GAG
1 ACGATGGAGAGAAAGGGAGAG
9238986 ACGATGGAGAGAAAGGGAGAG
1 ACGATGGAGAGAAAGGGAGAG
9239007 A
1 A
9239008 GGGGTTAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 7 0.37
21 4 0.21
ACGTcount: A:0.40, C:0.05, G:0.50, T:0.05
Consensus pattern (21 bp):
ACGATGGAGAGAAAGGGAGAG
Found at i:9239225 original size:13 final size:13
Alignment explanation
Indices: 9239203--9239233 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9239193 AGTAATTAAT
9239203 TAAA-TTTATCAA
1 TAAATTTTATCAA
9239215 TAAATTTTATCAA
1 TAAATTTTATCAA
9239228 TAAATT
1 TAAATT
9239234 ATTGATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATTTTATCAA
Found at i:9239268 original size:19 final size:22
Alignment explanation
Indices: 9239218--9239276 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
9239208 TTATCAATAA
*
9239218 ATTTTATCAATAAATTATTGAT
1 ATTTTATTAATAAATTATTGAT
9239240 ATTTTATTAATAAA-TATT-A-
1 ATTTTATTAATAAATTATTGAT
*
9239259 ATTTTTTTAATATAATTA
1 ATTTTATTAATA-AATTA
9239277 GTAAGTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 11 0.33
20 3 0.09
21 6 0.18
22 13 0.39
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTTTATTAATAAATTATTGAT
Found at i:9242355 original size:17 final size:16
Alignment explanation
Indices: 9242321--9242363 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9242311 ATATTATATT
* *
9242321 TTAATTAAAATTTTAA
1 TTAATTTAATTTTTAA
9242337 TTAATTTAATTTTTAAA
1 TTAATTTAATTTTT-AA
*
9242354 TTAAATTAAT
1 TTAATTTAAT
9242364 GAAAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTTAATTTTTAA
Found at i:9246744 original size:70 final size:70
Alignment explanation
Indices: 9246612--9246745 Score: 207
Period size: 69 Copynumber: 1.9 Consensus size: 70
9246602 GTTTAAATTT
* ***
9246612 TTATTTATTTAAAATATAAATTATTTATTTAATATTTTTGTTAAATTATTTAAGTGTTTTATTTA
1 TTATTTATTTAAAATATAAATTAGTTATTTAATATTTTTGTTAAATTATTTAAGTAAATTATTTA
9246677 AAAAA
66 AAAAA
*
9246682 TTATTTATTTAAAATTTAAATT-GTTATTTAATATTTTTGTTAAATTATTTAAGTAAAATTATTT
1 TTATTTATTTAAAATATAAATTAGTTATTTAATATTTTTGTTAAATTATTTAAGT-AAATTATTT
9246746 TAGGTTTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 31 0.53
70 27 0.47
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (70 bp):
TTATTTATTTAAAATATAAATTAGTTATTTAATATTTTTGTTAAATTATTTAAGTAAATTATTTA
AAAAA
Found at i:9270241 original size:23 final size:21
Alignment explanation
Indices: 9270194--9270241 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
9270184 TATCCTATTT
*
9270194 ATTTTTATGTGTTAAACTTTT
1 ATTTTTATGTGTTAAACTTTA
* *
9270215 ATTTTTATTGTGGTTTATCTTTA
1 ATTTTTA-TGT-GTTAAACTTTA
9270238 ATTT
1 ATTT
9270242 CATTTGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 7 0.32
22 3 0.14
23 12 0.55
ACGTcount: A:0.21, C:0.04, G:0.10, T:0.65
Consensus pattern (21 bp):
ATTTTTATGTGTTAAACTTTA
Found at i:9270497 original size:19 final size:21
Alignment explanation
Indices: 9270462--9270503 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
9270452 GAGTTTAAAC
9270462 TTGTCAAGATAAATTCTA-TT
1 TTGTCAAGATAAATTCTAGTT
*
9270482 TTGTCACGAT-AATTCTAGTT
1 TTGTCAAGATAAATTCTAGTT
9270502 TT
1 TT
9270504 TTTACTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (21 bp):
TTGTCAAGATAAATTCTAGTT
Found at i:9272394 original size:25 final size:24
Alignment explanation
Indices: 9272366--9272414 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
9272356 TTATTCAAAA
*
9272366 ATCATGCAATAATATATAATATCAT
1 ATCATGCAATAA-ATATAAAATCAT
9272391 ATCATGCAATAAATATAAAATCAT
1 ATCATGCAATAAATATAAAATCAT
9272415 GCAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
ATCATGCAATAAATATAAAATCAT
Found at i:9272413 original size:19 final size:21
Alignment explanation
Indices: 9272362--9272432 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 21
9272352 GACATTATTC
9272362 AAAAATCATGCAATAATATAT
1 AAAAATCATGCAATAATATAT
9272383 AATATCATATCATGCAATAA-ATAT
1 AA-A--A-ATCATGCAATAATATAT
9272407 -AAAATCATGCAATAATA-AT
1 AAAAATCATGCAATAATATAT
9272426 AATAAAT
1 AA-AAAT
9272433 AAATAAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
19 14 0.33
20 3 0.07
21 6 0.14
22 2 0.05
23 1 0.02
24 5 0.12
25 12 0.28
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAAATCATGCAATAATATAT
Found at i:9272436 original size:25 final size:24
Alignment explanation
Indices: 9272364--9272436 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
9272354 CATTATTCAA
9272364 AAATCATGCAATAAT-ATATAATAT
1 AAATCATGCAATAATAATATAA-AT
*
9272388 CATATCATGCAAT-A-AATAT--A-
1 -AAATCATGCAATAATAATATAAAT
9272408 AAATCATGCAATAATAATAATAAAT
1 AAATCATGCAATAATAAT-ATAAAT
9272433 AAAT
1 AAAT
9272437 AAATAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
19 11 0.28
20 1 0.03
21 4 0.10
22 2 0.05
24 6 0.15
25 15 0.38
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATCATGCAATAATAATATAAAT
Found at i:9272583 original size:21 final size:20
Alignment explanation
Indices: 9272516--9272593 Score: 113
Period size: 20 Copynumber: 3.9 Consensus size: 20
9272506 TGCAAATAGA
*
9272516 CATGTAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
9272536 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
9272556 CATGCAATTAGCAATATA-AAT
1 CATGCAATTA--AATATATAAT
*
9272577 CACGCAATTAAATATAT
1 CATGCAATTAAATATAT
9272594 TATAACAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.11
20 29 0.55
21 12 0.23
22 6 0.11
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:9272740 original size:17 final size:17
Alignment explanation
Indices: 9272716--9272767 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
9272706 TAATAAAATT
9272716 AACA-AAAAAAAAATCA
1 AACAGAAAAAAAAATCA
* ** *
9272732 AATAGAAAATCAAACCA
1 AACAGAAAAAAAAATCA
9272749 AACAGAAAATAAAAATCA
1 AACAGAAAA-AAAAATCA
9272767 A
1 A
9272768 CCCAAATAGC
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
16 3 0.12
17 17 0.65
18 6 0.23
ACGTcount: A:0.73, C:0.13, G:0.04, T:0.10
Consensus pattern (17 bp):
AACAGAAAAAAAAATCA
Found at i:9272767 original size:23 final size:23
Alignment explanation
Indices: 9272731--9272788 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
9272721 AAAAAAAATC
9272731 AAATAGAAAATCAAACCAAACAGA
1 AAATA-AAAATCAAACCAAACAGA
* * *
9272755 AAATAAAAATCAACCCAAATAGC
1 AAATAAAAATCAAACCAAACAGA
9272778 AAATAAAAATC
1 AAATAAAAATC
9272789 CAATAAATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.66, C:0.17, G:0.05, T:0.12
Consensus pattern (23 bp):
AAATAAAAATCAAACCAAACAGA
Found at i:9273858 original size:6 final size:6
Alignment explanation
Indices: 9273840--9273899 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
9273830 TTTTTTTGAC
* * * * **
9273840 TAAAAT TAGAAT TAAAAT TAAAAA CAAAAA CCAAAT TAAATAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA-AT TAAAAT
9273889 TAAAAT TAAAA
1 TAAAAT TAAAA
9273900 GCAAAGCCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
6 39 0.87
7 6 0.13
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (6 bp):
TAAAAT
Found at i:9273935 original size:18 final size:18
Alignment explanation
Indices: 9273853--9273936 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
9273843 AATTAGAATT
*
9273853 AAAATTAAAAACAAAAACC
1 AAAATTAAAATC-AAAACC
* **
9273872 -AAATTAAATATTAAAATT
1 AAAATTAAA-ATCAAAACC
* *
9273890 AAAATTAAAAGCAAAGCC
1 AAAATTAAAATCAAAACC
* *
9273908 AAAATCAAAATCAAAATC
1 AAAATTAAAATCAAAACC
*
9273926 AAGATTAAAAT
1 AAAATTAAAAT
9273937 TAGATTAAAA
Statistics
Matches: 48, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
18 39 0.81
19 9 0.19
ACGTcount: A:0.65, C:0.11, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAATTAAAATCAAAACC
Found at i:9274292 original size:43 final size:43
Alignment explanation
Indices: 9274225--9274464 Score: 243
Period size: 43 Copynumber: 5.6 Consensus size: 43
9274215 AAGTGAAGTC
* *
9274225 TTGAAACTTTTTCAAAAATAAAATGCTCACCCATGACTGAGGCT
1 TTGAAAC-TTTTGAAAAATAAAATGCTCACCCATAACTGAGGCT
* * *
9274269 TTGAAACTTTTGAAAAATAAAATGCTCATCCATAACTCAGGCC
1 TTGAAACTTTTGAAAAATAAAATGCTCACCCATAACTGAGGCT
* * * *
9274312 TTGGAATTTTTGAAAAATAAAAT-CTCCCCCATAACTGAGGCC
1 TTGAAACTTTTGAAAAATAAAATGCTCACCCATAACTGAGGCT
* * * *
9274354 TTGAAACTTTTTGAAAAATAAAATACTC-CCCTACAATTGAGGAT
1 TTGAAAC-TTTTGAAAAATAAAATGCTCACCC-ATAACTGAGGCT
* * * * *
9274398 TTGAAACTTTTAAAAAATAAAATACTCCCCCA-CACTTGAGGTT
1 TTGAAACTTTTGAAAAATAAAATGCTCACCCATAAC-TGAGGCT
* *
9274441 TTAAAACTTTTAAAAAATAAAATG
1 TTGAAACTTTTGAAAAATAAAATG
9274465 AGATCATTCT
Statistics
Matches: 169, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
42 22 0.13
43 119 0.70
44 28 0.17
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (43 bp):
TTGAAACTTTTGAAAAATAAAATGCTCACCCATAACTGAGGCT
Found at i:9274414 original size:86 final size:85
Alignment explanation
Indices: 9274195--9274463 Score: 249
Period size: 86 Copynumber: 3.1 Consensus size: 85
9274185 TTTTTTTTTT
* * * * * *
9274195 AAAATAAAATAGT-CCCTCACAAGTGAAGTCTTGAAACTTTTTCAAAAATAAAATGCTCACCCAT
1 AAAATAAAATACTCCCCT-ACAACTGAGGT-TTGAAAC-TTTTAAAAAATAAAATACTCCCCCAT
*
9274259 GACTGAGGCTTTGAAACTTTTGA
63 AACTGAGGCTTTGAAACTTTTGA
* * * * * * * *
9274282 AAAATAAAATGCTCATCC-ATAACTCAGGCCTTGGAATTTTTGAAAAATAAAAT-CTCCCCCATA
1 AAAATAAAATACTC-CCCTACAACTGAGG-TTTGAAACTTTTAAAAAATAAAATACTCCCCCATA
*
9274345 ACTGAGGCCTTGAAACTTTTTGA
64 ACTGAGGCTTTGAAAC-TTTTGA
* *
9274368 AAAATAAAATACTCCCCTACAATTGAGGATTTGAAACTTTTAAAAAATAAAATACTCCCCCA-CA
1 AAAATAAAATACTCCCCTACAACTGAGG-TTTGAAACTTTTAAAAAATAAAATACTCCCCCATAA
* * *
9274432 CTTGAGGTTTTAAAACTTTTAA
65 C-TGAGGCTTTGAAACTTTTGA
9274454 AAAATAAAAT
1 AAAATAAAAT
9274464 GAGATCATTC
Statistics
Matches: 146, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
85 25 0.17
86 78 0.53
87 41 0.28
89 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (85 bp):
AAAATAAAATACTCCCCTACAACTGAGGTTTGAAACTTTTAAAAAATAAAATACTCCCCCATAAC
TGAGGCTTTGAAACTTTTGA
Found at i:9274457 original size:129 final size:129
Alignment explanation
Indices: 9274224--9274463 Score: 286
Period size: 129 Copynumber: 1.9 Consensus size: 129
9274214 CAAGTGAAGT
* ** * *
9274224 CTTGAAACTTTTTCAAAAATAAAATGCTCACCCATGACTGAGGCTTTGAAACTTTTGAAAAATAA
1 CTTGAAACTTTTTCAAAAATAAAATACTCACCCACAACTGAGGATTTGAAACTTTTAAAAAATAA
* * ** * *
9274289 AATGCTCATCCATAACTCAGGCCTTGGAATTTTTGAAAAATAAAATCTCCCCCATAACTGAGGC
66 AATACTCACCCATAACTCAGGCCTTAAAACTTTTAAAAAATAAAATCTCCCCCATAACTGAGGC
* *
9274353 CTTGAAACTTTTTGAAAAATAAAATACTC-CCCTACAATTGAGGATTTGAAACTTTTAAAAAATA
1 CTTGAAACTTTTTCAAAAATAAAATACTCACCC-ACAACTGAGGATTTGAAACTTTTAAAAAATA
* * * **
9274417 AAATACTCCCCCA-CACTTGAGGTTTTAAAACTTTTAAAAAATAAAAT
65 AAATACTCACCCATAAC-TCAGGCCTTAAAACTTTTAAAAAATAAAAT
9274464 GAGATCATTC
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
128 5 0.05
129 86 0.95
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (129 bp):
CTTGAAACTTTTTCAAAAATAAAATACTCACCCACAACTGAGGATTTGAAACTTTTAAAAAATAA
AATACTCACCCATAACTCAGGCCTTAAAACTTTTAAAAAATAAAATCTCCCCCATAACTGAGGC
Found at i:9274655 original size:13 final size:13
Alignment explanation
Indices: 9274637--9274661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9274627 TTCCAAACAT
9274637 ATGCAATGAATGC
1 ATGCAATGAATGC
9274650 ATGCAATGAATG
1 ATGCAATGAATG
9274662 AAAAGATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:9275557 original size:6 final size:6
Alignment explanation
Indices: 9275541--9275596 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
9275531 TTGCCTTGAG
* * *
9275541 TCTTTT T-TTTT TCTTTT TC--AT TCTTTT TCCTTT TCTTTT T-TTTG
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
9275585 T-TTTT TCTTTT T
1 TCTTTT TCTTTT T
9275597 TTAAGTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
4 3 0.08
5 13 0.32
6 24 0.60
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (6 bp):
TCTTTT
Found at i:9275567 original size:16 final size:15
Alignment explanation
Indices: 9275548--9275596 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
9275538 GAGTCTTTTT
9275548 TTTTTCTTTTTCATTC
1 TTTTTCTTTTTC-TTC
*
9275564 TTTTTCCTTTTCTT-
1 TTTTTCTTTTTCTTC
9275578 TTTTT-TGTTTT-TTC
1 TTTTTCT-TTTTCTTC
9275592 TTTTT
1 TTTTT
9275597 TTAAGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 2 0.07
14 14 0.48
15 2 0.07
16 11 0.38
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTCTTC
Found at i:9278444 original size:9 final size:9
Alignment explanation
Indices: 9278401--9278450 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
9278391 GAAACATACA
9278401 TTTTCTTTTT
1 TTTTC-TTTT
*
9278411 TTTTCTTTC
1 TTTTCTTTT
* *
9278420 ATTTCTTTG
1 TTTTCTTTT
*
9278429 TTCTCTTTT
1 TTTTCTTTT
9278438 TTTTCTTTT
1 TTTTCTTTT
9278447 TTTT
1 TTTT
9278451 TTTCTTCATA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
9 28 0.85
10 5 0.15
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:9279868 original size:133 final size:131
Alignment explanation
Indices: 9279642--9279900 Score: 312
Period size: 133 Copynumber: 2.0 Consensus size: 131
9279632 TAGAAAAATA
* * *
9279642 TATATGTAAATACATGCATGCAATACATTGTAACAATAAGATTCATATTCAAAACTATGTACAAA
1 TATATGTAAATACATGCATGCAATACATTGAAACAATAAGATTCATATACAAAACTATATACAAA
* * *
9279707 ATTGAAACAATAAATATTTTCTCAAACAAGTAAAATAACACACATATAAAGATGTTTACATAGAT
66 ATTGAAACAATAAATATTTTCTCAAACAAATAAAATAACACACATACAAAAATGTTTACATAGAT
9279772 C
131 C
* *
9279773 TATATGTAAATACATGTATGCAATACATAAATGAAAACAA-AA-ATTCATATACAAAGCTATATA
1 TATATGTAAATACATGCATGCAATACAT---TG-AAACAATAAGATTCATATACAAAACTATATA
* * * *
9279836 CAAAATTGAAAAGGCAA-AGAT-TTTTC-CAAACAAATGAAATAACATATATACAAAAATGTTTA
62 CAAAATTG-AAA--CAATAAATATTTTCTCAAACAAATAAAATAACACACATACAAAAATGTTTA
9279898 CAT
124 CAT
9279901 GCATGTATGC
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
131 27 0.25
133 59 0.54
134 12 0.11
135 8 0.07
136 3 0.03
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (131 bp):
TATATGTAAATACATGCATGCAATACATTGAAACAATAAGATTCATATACAAAACTATATACAAA
ATTGAAACAATAAATATTTTCTCAAACAAATAAAATAACACACATACAAAAATGTTTACATAGAT
C
Found at i:9280248 original size:21 final size:21
Alignment explanation
Indices: 9280224--9280272 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
9280214 AAGGTTAATA
*
9280224 AACATGATATATACAAAGAAC
1 AACATAATATATACAAAGAAC
9280245 AACATAATATATACAAAGAAC
1 AACATAATATATACAAAGAAC
9280266 AACATAA
1 AACATAA
9280273 AGGATTAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.18
Consensus pattern (21 bp):
AACATAATATATACAAAGAAC
Found at i:9281683 original size:3 final size:3
Alignment explanation
Indices: 9281665--9281712 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
9281655 TAGTTTAGGG
9281665 TAA TAA GTAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9281710 TAA
1 TAA
9281713 AATCTAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:9281754 original size:21 final size:23
Alignment explanation
Indices: 9281720--9281761 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
9281710 TAAAATCTAA
9281720 AAAAATAAATATAAAAACAAAGC
1 AAAAATAAATATAAAAACAAAGC
9281743 AAAAAT-AA-ATAAAAACAAA
1 AAAAATAAATATAAAAACAAA
9281762 AAATAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (23 bp):
AAAAATAAATATAAAAACAAAGC
Found at i:9281763 original size:17 final size:17
Alignment explanation
Indices: 9281743--9281779 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9281733 AAAACAAAGC
*
9281743 AAAAATAAATAAAAACA
1 AAAAATAAAGAAAAACA
*
9281760 AAAAATAAAGAAAAAGA
1 AAAAATAAAGAAAAACA
9281777 AAA
1 AAA
9281780 GAATTACTTA
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:0.84, C:0.03, G:0.05, T:0.08
Consensus pattern (17 bp):
AAAAATAAAGAAAAACA
Found at i:9283527 original size:13 final size:13
Alignment explanation
Indices: 9283509--9283534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9283499 ATATGAGGGT
9283509 TATGGGTTGAAAA
1 TATGGGTTGAAAA
9283522 TATGGGTTGAAAA
1 TATGGGTTGAAAA
9283535 CTAGGTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
TATGGGTTGAAAA
Found at i:9286712 original size:14 final size:16
Alignment explanation
Indices: 9286692--9286729 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
9286682 GGAACAACAT
9286692 AATATATACAAGGAAA
1 AATATATACAAGGAAA
*
9286708 AATATATACAAGGAAT
1 AATATATACAAGGAAA
9286724 AATATA
1 AATATA
9286730 AATTTGCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.24
Consensus pattern (16 bp):
AATATATACAAGGAAA
Found at i:9287826 original size:20 final size:20
Alignment explanation
Indices: 9287803--9287865 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
9287793 TAATAAAATT
9287803 ATATATATAATATCATGCAA
1 ATATATATAATATCATGCAA
9287823 ATATAT-T-AT-T-ATGC-A
1 ATATATATAATATCATGCAA
* *
9287838 ATAATATAAAATACCATGCAA
1 AT-ATATATAATATCATGCAA
9287859 ATATATA
1 ATATATA
9287866 AACATGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
15 3 0.09
16 8 0.23
17 1 0.03
18 4 0.11
19 1 0.03
20 15 0.43
21 3 0.09
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.35
Consensus pattern (20 bp):
ATATATATAATATCATGCAA
Found at i:9287828 original size:18 final size:18
Alignment explanation
Indices: 9287805--9287866 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
9287795 ATAAAATTAT
9287805 ATATATAATATCATGCAA
1 ATATATAATATCATGCAA
*
9287823 ATATAT--TATTATGCAATA
1 ATATATAATATCATGC-A-A
* *
9287841 ATATAAAATACCATGCAA
1 ATATATAATATCATGCAA
9287859 ATATATAA
1 ATATATAA
9287867 ACATGAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 7 0.20
17 1 0.03
18 20 0.57
19 1 0.03
20 6 0.17
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.34
Consensus pattern (18 bp):
ATATATAATATCATGCAA
Found at i:9287836 original size:16 final size:16
Alignment explanation
Indices: 9287807--9287863 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
9287797 AAAATTATAT
9287807 ATATAATATCATGCAA
1 ATATAATATCATGCAA
* *
9287823 ATATATTATTATGCAATA
1 ATATAATATCATGC-A-A
*
9287841 ATATAAAATACCATGCAA
1 ATAT--AATATCATGCAA
9287859 ATATA
1 ATATA
9287864 TAAACATGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
16 13 0.41
17 1 0.03
18 10 0.31
19 1 0.03
20 7 0.22
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (16 bp):
ATATAATATCATGCAA
Found at i:9288062 original size:16 final size:15
Alignment explanation
Indices: 9288033--9288067 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9288023 TTCACGTAAT
*
9288033 AATAATAAGTAAATA
1 AATAATAAGCAAATA
9288048 AATAACTAAGCAAATA
1 AATAA-TAAGCAAATA
9288064 AATA
1 AATA
9288068 TATTAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
AATAATAAGCAAATA
Found at i:9288233 original size:81 final size:82
Alignment explanation
Indices: 9288122--9288301 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 82
9288112 TGCAAATAGA
* *
9288122 CATGCAATTAAACATATAATCATGAAATTAACA-ATGCAAAACATTCAATTAAATATATAATCAT
1 CATGCAATTAAATATATAATCATGAAATTAA-ATATGCAAAACATGCAATTAAATATATAATCAT
* * *
9288186 GCAATTAATAATCTAAGT
65 GAAATTAACAATCTAAAT
* ** * *
9288204 CATGCAATTAAATATAT-ATCATGTAATTAAATATTTAAATCATGCAATTAAATATATTATCATG
1 CATGCAATTAAATATATAATCATGAAATTAAATATGCAAAACATGCAATTAAATATATAATCATG
* *
9288268 AAATTAACAGTGTAAAT
66 AAATTAACAATCTAAAT
*
9288285 CAAGCAATTAAATATAT
1 CATGCAATTAAATATAT
9288302 TATAACAATA
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 67 0.80
82 16 0.19
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (82 bp):
CATGCAATTAAATATATAATCATGAAATTAAATATGCAAAACATGCAATTAAATATATAATCATG
AAATTAACAATCTAAAT
Found at i:9288302 original size:41 final size:41
Alignment explanation
Indices: 9288122--9288304 Score: 217
Period size: 41 Copynumber: 4.5 Consensus size: 41
9288112 TGCAAATAGA
* * * *
9288122 CATGCAATTAAACATATAATCATGAAATTAACAATGCAAAA
1 CATGCAATTAAATATATTATCATGAAATTAACAATGTAAAT
* * * * * *
9288163 CATTCAATTAAATATATAATCATGCAATTAATAATCTAAGT
1 CATGCAATTAAATATATTATCATGAAATTAACAATGTAAAT
* *
9288204 CATGCAATTAAATATA-TATCATGTAATTAA-ATATTTAAAT
1 CATGCAATTAAATATATTATCATGAAATTAACA-ATGTAAAT
*
9288244 CATGCAATTAAATATATTATCATGAAATTAACAGTGTAAAT
1 CATGCAATTAAATATATTATCATGAAATTAACAATGTAAAT
*
9288285 CAAGCAATTAAATATATTAT
1 CATGCAATTAAATATATTAT
9288305 AACAATATAA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 34 0.28
41 86 0.70
42 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.34
Consensus pattern (41 bp):
CATGCAATTAAATATATTATCATGAAATTAACAATGTAAAT
Found at i:9288478 original size:17 final size:16
Alignment explanation
Indices: 9288409--9288478 Score: 50
Period size: 17 Copynumber: 4.1 Consensus size: 16
9288399 CATTAATATT
*
9288409 CAAAATAATAAAATTAA
1 CAAAA-AATAAAATAAA
9288426 CAGAAAAATAAAATCAAA
1 CA-AAAAATAAAAT-AAA
* * **
9288444 CAGATAATCAAACCAAA
1 CAAAAAAT-AAAATAAA
9288461 CAAAAAATAAAAATAAA
1 CAAAAAAT-AAAATAAA
9288478 C
1 C
9288479 CCAAACAGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
17 30 0.75
18 10 0.25
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.14
Consensus pattern (16 bp):
CAAAAAATAAAATAAA
Found at i:9290758 original size:21 final size:21
Alignment explanation
Indices: 9290718--9290758 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9290708 GTTAGTTAAC
*
9290718 ATATACAAGGAATAACATAAT
1 ATATACAAGGAACAACATAAT
*
9290739 ATATACAAGGAACAATATAA
1 ATATACAAGGAACAACATAA
9290759 AAGGTTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
ATATACAAGGAACAACATAAT
Found at i:9291900 original size:16 final size:16
Alignment explanation
Indices: 9291881--9291949 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 16
9291871 TCATATATAT
9291881 ATATAATATCATGCAA
1 ATATAATATCATGCAA
*
9291897 ATATATTATCATGCAATA
1 ATATAATATCATGC-A-A
*
9291915 ATATAAAATACCATGCAA
1 ATAT--AATATCATGCAA
9291933 ATATAGA-ATCATG-AA
1 ATATA-ATATCATGCAA
9291948 AT
1 AT
9291950 TAAATATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
15 4 0.09
16 19 0.43
17 2 0.05
18 10 0.23
19 1 0.02
20 8 0.18
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (16 bp):
ATATAATATCATGCAA
Found at i:9291900 original size:18 final size:18
Alignment explanation
Indices: 9291879--9291937 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
9291869 AATCATATAT
9291879 ATATATAATATCATGCAA
1 ATATATAATATCATGCAA
9291897 ATATAT--TATCATGCAATA
1 ATATATAATATCATGC-A-A
* *
9291915 ATATAAAATACCATGCAA
1 ATATATAATATCATGCAA
9291933 ATATA
1 ATATA
9291938 GAATCATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 8 0.23
17 1 0.03
18 18 0.51
19 1 0.03
20 7 0.20
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATATAATATCATGCAA
Found at i:9292857 original size:6 final size:6
Alignment explanation
Indices: 9292816--9292903 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
9292806 TTTTTTTTAC
* * * * * *
9292816 TAAAAT TAGAAT TGAAAT TAAAAAC AAAAAC CAAAAT TAAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT T-AAAAT TAAAAT TAAAAT T-AAAAT TAAAAT
* * * * *
9292866 TAAAAG TAAAAT CAAAAT CAAAAT CAAGAT TAAAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TA
9292904 GATTAAAAAT
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
6 56 0.86
7 9 0.14
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.24
Consensus pattern (6 bp):
TAAAAT
Found at i:9296077 original size:19 final size:18
Alignment explanation
Indices: 9296042--9296077 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9296032 TCAGCCAACA
*
9296042 TAAAGAAAAATGAAATGT
1 TAAAGAAAAAAGAAATGT
9296060 TAAAGAAAAAAGAGAATG
1 TAAAGAAAAAAGA-AATG
9296078 AAGCTCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (18 bp):
TAAAGAAAAAAGAAATGT
Found at i:9297632 original size:6 final size:7
Alignment explanation
Indices: 9297615--9297694 Score: 55
Period size: 7 Copynumber: 11.7 Consensus size: 7
9297605 ATAAAGTAAA
*
9297615 AAAAATT
1 AAAAATG
9297622 AAAAATG
1 AAAAATG
9297629 AAAAATG
1 AAAAATG
*
9297636 AAAAATAA
1 AAAAAT-G
9297644 AAAAAT-
1 AAAAATG
9297650 AAAAA--
1 AAAAATG
9297655 AAATGAATG
1 AAA--AATG
9297664 AAAAATG
1 AAAAATG
9297671 AAGAAAT-
1 AA-AAATG
*
9297678 --AAATA
1 AAAAATG
9297683 AAAAATG
1 AAAAATG
9297690 AAAAA
1 AAAAA
9297695 GTAGAAAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
4 4 0.07
5 3 0.05
6 5 0.08
7 36 0.59
8 10 0.16
9 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:9297644 original size:35 final size:35
Alignment explanation
Indices: 9297605--9297687 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 35
9297595 CCAATGGGAG
*
9297605 ATAAAGTAAAAAAAATTAAA-AATGAAAAATGAA-AA
1 ATAAA-TAAAAAAAA-AAAAGAATGAAAAATGAAGAA
9297640 ATAAA-AAAATAAAAAAAATGAATGAAAAATGAAGAA
1 ATAAATAAAA-AAAAAAAA-GAATGAAAAATGAAGAA
9297676 ATAAATAAAAAA
1 ATAAATAAAAAA
9297688 TGAAAAAGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
33 7 0.17
34 4 0.10
35 18 0.43
36 9 0.21
37 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (35 bp):
ATAAATAAAAAAAAAAAAGAATGAAAAATGAAGAA
Found at i:9297645 original size:28 final size:26
Alignment explanation
Indices: 9297614--9297703 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 26
9297604 GATAAAGTAA
9297614 AAAAAATTAAAAATGAAAAATGAAAAAT
1 AAAAAA-TAAAAAT-AAAAATGAAAAAT
9297642 AAAAAAATAAAAA-AAATGAATGAAAAAT
1 -AAAAAATAAAAATAAA--AATGAAAAAT
* *
9297670 GAAGAAATAAATA-AAAAATGAAAAAGT
1 -AAAAAATAAAAATAAAAATGAAAAA-T
9297697 AGAAAAA
1 A-AAAAA
9297704 AAGAATACTT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
26 13 0.25
27 5 0.09
28 29 0.55
29 6 0.11
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (26 bp):
AAAAAATAAAAATAAAAATGAAAAAT
Found at i:9297702 original size:35 final size:33
Alignment explanation
Indices: 9297612--9297703 Score: 91
Period size: 35 Copynumber: 2.7 Consensus size: 33
9297602 GAGATAAAGT
*
9297612 AAAAAAAATTAAAAA-T-GAAAAATGAAAAATA
1 AAAAAAAATAAAAAAGTAGAAAAATGAAAAATA
*
9297643 AAAAAATAA-AAAAAATGAATGAAAAATGAAGAAATA
1 AAAAAA-AATAAAAAA-GTA-GAAAAATGAA-AAATA
*
9297679 AATAAAAAATGAAAAAGTAGAAAAA
1 AA-AAAAAATAAAAAAGTAGAAAAA
9297704 AAGAATACTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
31 11 0.22
32 2 0.04
35 16 0.33
36 11 0.22
37 9 0.18
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (33 bp):
AAAAAAAATAAAAAAGTAGAAAAATGAAAAATA
Found at i:9297705 original size:19 final size:19
Alignment explanation
Indices: 9297624--9297691 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
9297614 AAAAAATTAA
*
9297624 AAATGAAAAATGAA-AAAT
1 AAATAAAAAATGAAGAAAT
*
9297642 AAA-AAAATAA--AAAAAAT
1 AAATAAAA-AATGAAGAAAT
* *
9297659 GAATGAAAAATGAAGAAAT
1 AAATAAAAAATGAAGAAAT
9297678 AAATAAAAAATGAA
1 AAATAAAAAATGAA
9297692 AAAGTAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.05
17 11 0.28
18 8 0.21
19 18 0.46
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
AAATAAAAAATGAAGAAAT
Found at i:9298161 original size:6 final size:7
Alignment explanation
Indices: 9298144--9298195 Score: 65
Period size: 7 Copynumber: 7.7 Consensus size: 7
9298134 ATAAAGTAAA
9298144 AAAAATG
1 AAAAATG
9298151 AAAAATG
1 AAAAATG
*
9298158 AAAAATAA
1 AAAAAT-G
9298166 AAAAATG
1 AAAAATG
9298173 AAAAATG
1 AAAAATG
9298180 ---AATG
1 AAAAATG
9298184 AAAAATG
1 AAAAATG
9298191 AAAAA
1 AAAAA
9298196 ATAAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 4 0.10
7 29 0.74
8 6 0.15
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:9298670 original size:14 final size:15
Alignment explanation
Indices: 9298650--9298689 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
9298640 AGATAAAGTA
9298650 AAAAAAATGAAAAAT
1 AAAAAAATGAAAAAT
*
9298665 -AAAAAATAAAAAAT
1 AAAAAAATGAAAAAT
9298679 AAAAAAATGAA
1 AAAAAAATGAA
9298690 TGAAAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (15 bp):
AAAAAAATGAAAAAT
Found at i:9298682 original size:19 final size:19
Alignment explanation
Indices: 9298651--9298721 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
9298641 GATAAAGTAA
9298651 AAAAAATGAAAAATAAAAAAT
1 AAAAAATG-AAAA-AAAAAAT
*
9298672 AAAAAAT-AAAAAAATGAAT
1 AAAAAATGAAAAAAA-AAAT
* *
9298691 GAAAAATGAAAAAATAAAT
1 AAAAAATGAAAAAAAAAAT
9298710 AAAAAATGAAAA
1 AAAAAATGAAAA
9298722 GGAGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.07
19 27 0.63
20 6 0.14
21 7 0.16
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAAAATGAAAAAAAAAAT
Found at i:9298714 original size:30 final size:29
Alignment explanation
Indices: 9298666--9298719 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
9298656 ATGAAAAATA
9298666 AAAAATAAAAAAT--A-AAAAAATGAATG
1 AAAAATAAAAAATAAATAAAAAATGAATG
9298692 AAAAATGAAAAAATAAATAAAAAATGAA
1 AAAAAT-AAAAAATAAATAAAAAATGAA
9298720 AAGGAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 7 0.29
29 1 0.04
30 10 0.42
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (29 bp):
AAAAATAAAAAATAAATAAAAAATGAATG
Found at i:9298721 original size:6 final size:7
Alignment explanation
Indices: 9298652--9298721 Score: 51
Period size: 7 Copynumber: 10.6 Consensus size: 7
9298642 ATAAAGTAAA
9298652 AAAAATG
1 AAAAATG
*
9298659 AAAAATA
1 AAAAATG
*
9298666 AAAAATA
1 AAAAATG
9298673 AAAAAT-
1 AAAAATG
9298679 AAAAA--
1 AAAAATG
*
9298684 AATGAATG
1 AA-AAATG
9298692 AAAAATG
1 AAAAATG
9298699 AAAAA--
1 AAAAATG
* *
9298704 ATAAATA
1 AAAAATG
9298711 AAAAATG
1 AAAAATG
9298718 AAAA
1 AAAA
9298722 GGAGAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 6 0.12
6 7 0.13
7 37 0.71
8 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:9298729 original size:26 final size:26
Alignment explanation
Indices: 9298672--9298731 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
9298662 AATAAAAAAT
*
9298672 AAAAAATAAAAAAATGAATGAAAAATG
1 AAAAAATAAAAAAA-GAATGAAAAAGG
*
9298699 AAAAAATAAATAAAA-AATGAAAAGGAG
1 AAAAAATAAA-AAAAGAATGAAAAAG-G
9298726 AAAAAA
1 AAAAAA
9298732 AGAAGACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.28
27 17 0.59
28 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (26 bp):
AAAAAATAAAAAAAGAATGAAAAAGG
Found at i:9298731 original size:27 final size:26
Alignment explanation
Indices: 9298666--9298721 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
9298656 ATGAAAAATA
9298666 AAAAAT-AAAAAATAAAAAAATGAATG
1 AAAAATGAAAAAATAAAAAAA-GAATG
9298692 AAAAATGAAAAAATAAATAAAA-AATG
1 AAAAATGAAAAAATAAA-AAAAGAATG
9298718 AAAA
1 AAAA
9298722 GGAGAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 14 0.50
27 10 0.36
28 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (26 bp):
AAAAATGAAAAAATAAAAAAAGAATG
Found at i:9298970 original size:519 final size:517
Alignment explanation
Indices: 9297463--9299022 Score: 2455
Period size: 508 Copynumber: 3.0 Consensus size: 517
9297453 TAAAAGTCCA
* *
9297463 TTTCGATCAAACATGAATGCTAAAATTAAAGAATCATATATTAAATT-GAGGCATACTTAGGGTA
1 TTTC-ATCAAACATGAATGCTAAAATTGAAGAATCATATATTGAATTAG-GGCATACTTAGGGTA
*
9297527 TAATTAAATGACAATAAGGGCAATGAGGTATTATGTTTTAGGAATTCATATGAAATTCAATGGGA
64 TAATTAAATGACAATAAGGGCAATGAGGTATTATGTTTTAGGGATTCATATGAAATTCAATGGGA
9297592 ATACCAATGGGAGATAAAGTAAAAAAAATTAAAAATGAAAAATGAAAAATAAAAAAATAAAAAAA
129 ATACCAATGGGAGATAAAGT-----AAA--AAAAATGAAAAATGAAAAAT-AAAAAAT-AAAAAA
* *
9297657 ATGAATGAAAAATGAAGAAATAAATAAAAAATGAAAAAGTAGAAAAAAAGAATACTTAAATTAAA
185 ATGAATGAAAAATGAAAAAATAAATAAAAAATG-AAAAG-AGAAAAAAAGAAGACTTAAATTAAA
* * *
9297722 ATA-TCAAAAGGACAATTTTAGTAAAAAAAGATGTATTCGTTGGAAACAAGAAAAAGTTAGAATC
248 A-ACTCAAAAGG-CAATTTAAGTAAAAAAAGATGTATTCGTTGGAAACAAGAAAAAATTGGAATC
* * *
9297786 CAATGAGCTAAGGGGTAAATTTTAGATTTTAAGCTTGAAAAGGTCAAATGTGGCAATAAAATGAG
311 CAATGAGCTAAGGGGTAAAATTTAGATTTCAAGCTTGAAAAAGTCAAATGTGGCAATAAAATGAG
9297851 TTTTTAAGAAAGAATTCTAGATTA-TCGTAAAAAATTATCTGAATATTCATTATTTTGGATGTTC
376 TTTTTAAGAAAGAATTCTAGATTAGT-GTAAAAAATTATCTGAATATTCATTATTTTGGATGTTC
* * *
9297915 AAATCCCATCCAAACATTTACCTTATCAATAAGGTTTGACATTATCCATTCACCTACTATCCCTC
440 AAATCCCATCCAAACATTTACCTTATCAATAAGCTTTGACATTGTCCATTCACCTACTATCCCTT
* * *
9297980 ACTAAACTTATTA
505 ACTAGACTTGTTC
9297993 TTTCATCAAACATGAATGCTAAAATTGAAGAATCATATATTGAATTAGGGCATACTTAGGGTATA
1 TTTCATCAAACATGAATGCTAAAATTGAAGAATCATATATTGAATTAGGGCATACTTAGGGTATA
*
9298058 ATTAAATGACAATAAGGGCAATGAGGTATTATGTTTTAGAGATTCATATGAAATTCAATGGGAAT
66 ATTAAATGACAATAAGGGCAATGAGGTATTATGTTTTAGGGATTCATATGAAATTCAATGGGAAT
*
9298123 ACCAATGGGAGATAAAGTAAAAAAAATGAAAAATGAAAAATAAAAAA-ATGAAAAATGAATGAAA
131 ACCAATGGGAGATAAAGTAAAAAAAATGAAAAATGAAAAATAAAAAATA-AAAAAATGAATGAAA
9298187 AATGAAAAAATAAAT----AA--AAAA-AG--AAAAA-AAGACTTAAATTAAAAACTCAAAAGGG
195 AATGAAAAAATAAATAAAAAATGAAAAGAGAAAAAAAGAAGACTTAAATTAAAAACTCAAAA-GG
* * *
9298242 AAATTTAAGTAAAAGAAGATGTATTCGTTGGAAATAAGAAAAAATTGGAATCCAATGAGCTAAGG
259 CAATTTAAGTAAAAAAAGATGTATTCGTTGGAAACAAGAAAAAATTGGAATCCAATGAGCTAAGG
* *
9298307 GGTAAAATTTAGATTTCAAGCTTGAAAATGTCAAATGTGGTAATAAAATGAGTTTTTAAGAAAGA
324 GGTAAAATTTAGATTTCAAGCTTGAAAAAGTCAAATGTGGCAATAAAATGAGTTTTTAAGAAAGA
*
9298372 ATTCTAGATTAGTGTAAAAAATTATCTAAATATTCATTATTTTGGATGTTCAAATCCCATCCAAA
389 ATTCTAGATTAGTGTAAAAAATTATCTGAATATTCATTATTTTGGATGTTCAAATCCCATCCAAA
* *
9298437 CATTTACCTTATCAATAAGCTTTTACATTGTCCATTCACCTACTAGCCCTTACTAGACTTGTTC
454 CATTTACCTTATCAATAAGCTTTGACATTGTCCATTCACCTACTATCCCTTACTAGACTTGTTC
* *
9298501 TTTCATCAAACATGAATGCTAAAATTGAATAATCATATATTGAATTAGGGCATACTTAAGGTATA
1 TTTCATCAAACATGAATGCTAAAATTGAAGAATCATATATTGAATTAGGGCATACTTAGGGTATA
* *
9298566 ATTAAATGACAATAAGGGTAATGAGGTATTATGTTTTAGGGATTCATATGGAATTCAATGGGAAT
66 ATTAAATGACAATAAGGGCAATGAGGTATTATGTTTTAGGGATTCATATGAAATTCAATGGGAAT
* *
9298631 ACCTATGGGAGATAAAGTAAAAAAAATGAAAAATAAAAAATAAAAAATAAAAAAATGAATGAAAA
131 ACCAATGGGAGATAAAGTAAAAAAAATGAAAAATGAAAAATAAAAAATAAAAAAATGAATGAAAA
*
9298696 ATGAAAAAATAAATAAAAAATGAAAAGGAGAAAAAAAGAAGACTTAAATTAAAAGCTCAAAATGG
196 ATGAAAAAATAAATAAAAAATGAAAA-GAGAAAAAAAGAAGACTTAAATTAAAAACTCAAAA-GG
* *
9298761 CAATTTAAGTAAAAAAAGATGTATTCGTTGGAAACATGAAAAAATTGGAATCCAATGGGCTAAGG
259 CAATTTAAGTAAAAAAAGATGTATTCGTTGGAAACAAGAAAAAATTGGAATCCAATGAGCTAAGG
* * *
9298826 GGTAAAATTTGGATTTCAAGCTTGAAAAAGTCAAATGTGGCAATAAAATAAGATTTTAAGAAAGA
324 GGTAAAATTTAGATTTCAAGCTTGAAAAAGTCAAATGTGGCAATAAAATGAGTTTTTAAGAAAGA
* *
9298891 ATTCTAGATTAGTGTAAAAAATTATCTGAATATTCATTATTTTGGATTTTCAAATCCCATCCACA
389 ATTCTAGATTAGTGTAAAAAATTATCTGAATATTCATTATTTTGGATGTTCAAATCCCATCCAAA
* *
9298956 CATTTACTTTATCAATAAGCTTTGACATTGTCCATTCACCTATTATCCCTTACTAGACTTGTTC
454 CATTTACCTTATCAATAAGCTTTGACATTGTCCATTCACCTACTATCCCTTACTAGACTTGTTC
9299020 TTT
1 TTT
9299023 TATTAAATAT
Statistics
Matches: 960, Mismatches: 53, Indels: 45
0.91 0.05 0.04
Matches are distributed among these distances:
507 1 0.00
508 458 0.48
509 9 0.01
511 2 0.00
512 2 0.00
513 4 0.00
514 4 0.00
516 4 0.00
518 5 0.01
519 271 0.28
520 28 0.03
521 6 0.01
522 20 0.02
524 3 0.00
529 138 0.14
530 5 0.01
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (517 bp):
TTTCATCAAACATGAATGCTAAAATTGAAGAATCATATATTGAATTAGGGCATACTTAGGGTATA
ATTAAATGACAATAAGGGCAATGAGGTATTATGTTTTAGGGATTCATATGAAATTCAATGGGAAT
ACCAATGGGAGATAAAGTAAAAAAAATGAAAAATGAAAAATAAAAAATAAAAAAATGAATGAAAA
ATGAAAAAATAAATAAAAAATGAAAAGAGAAAAAAAGAAGACTTAAATTAAAAACTCAAAAGGCA
ATTTAAGTAAAAAAAGATGTATTCGTTGGAAACAAGAAAAAATTGGAATCCAATGAGCTAAGGGG
TAAAATTTAGATTTCAAGCTTGAAAAAGTCAAATGTGGCAATAAAATGAGTTTTTAAGAAAGAAT
TCTAGATTAGTGTAAAAAATTATCTGAATATTCATTATTTTGGATGTTCAAATCCCATCCAAACA
TTTACCTTATCAATAAGCTTTGACATTGTCCATTCACCTACTATCCCTTACTAGACTTGTTC
Found at i:9300025 original size:32 final size:31
Alignment explanation
Indices: 9299942--9300033 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 31
9299932 TTTTATCTTA
* * *
9299942 GCTTACTCTAGTCATTTTCGTTTTTGACCTTG
1 GCTTAGTCTAGTCATTTT-ATTTTTGACATTG
* * * *
9299974 GTTTAGTTTGGACATTTTTATTTTTGACATTG
1 GCTTAGTCTAGTCA-TTTTATTTTTGACATTG
*
9300006 GCTTAGTCTAGTCACTTTTATCTTTGAC
1 GCTTAGTCTAGTCA-TTTTATTTTTGAC
9300034 CTTAGTTCAA
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
32 42 0.91
33 4 0.09
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (31 bp):
GCTTAGTCTAGTCATTTTATTTTTGACATTG
Found at i:9300120 original size:103 final size:103
Alignment explanation
Indices: 9299996--9300195 Score: 319
Period size: 103 Copynumber: 1.9 Consensus size: 103
9299986 CATTTTTATT
* *
9299996 TTTGACATTGGCTTAGTCTAGTCACTTTTATCTTTGACCTTAGTTCAATCCAGTCAACTTTATTT
1 TTTGACATTGGCTTAGTCTAGTCACTTTTATCTTTAACCTTAGTTCAATCCAGTCAACTTCATTT
9300061 TTTAATTTTTGGCTCAGTTCAAGTCATCATTTTTAGCC
66 TTTAATTTTTGGCTCAGTTCAAGTCATCATTTTTAGCC
* * * * ** *
9300099 TTTGACCTTGGCTTAGTCTAGTCATTTTTATCTTTAACCTTTGTTTAATCTGGTCACCTTCATTT
1 TTTGACATTGGCTTAGTCTAGTCACTTTTATCTTTAACCTTAGTTCAATCCAGTCAACTTCATTT
9300164 TTTAATTTTTGGCTCAGTTCAAGTCATCATTT
66 TTTAATTTTTGGCTCAGTTCAAGTCATCATTT
9300196 CTATCTTTAA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.48
Consensus pattern (103 bp):
TTTGACATTGGCTTAGTCTAGTCACTTTTATCTTTAACCTTAGTTCAATCCAGTCAACTTCATTT
TTTAATTTTTGGCTCAGTTCAAGTCATCATTTTTAGCC
Found at i:9300549 original size:4 final size:4
Alignment explanation
Indices: 9300521--9300614 Score: 81
Period size: 4 Copynumber: 23.8 Consensus size: 4
9300511 CTGATTAATT
*
9300521 TTTA TTTTA TTT- TATTA TTTA -TTA TTTA TATTA TTTA TTT- TTTA TCT-
1 TTTA -TTTA TTTA T-TTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
* * *
9300568 TTCA CTT- TTTA TTTT TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
9300615 GTTCATTAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
3 10 0.14
4 50 0.68
5 13 0.18
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:9302356 original size:3 final size:3
Alignment explanation
Indices: 9302348--9302379 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9302338 TTTAAAAATG
9302348 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9302380 TTTTTGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9303968 original size:21 final size:24
Alignment explanation
Indices: 9303923--9303970 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
9303913 TTTTTTTTGT
*
9303923 TTTTTATATATTATTTTAATATGA
1 TTTTTATATATTATTTAAATATGA
9303947 TTTTTA-ATA-TATTTAAAT-TGA
1 TTTTTATATATTATTTAAATATGA
9303968 TTT
1 TTT
9303971 AAATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 3 0.13
24 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATATGA
Found at i:9311580 original size:194 final size:194
Alignment explanation
Indices: 9311251--9311629 Score: 650
Period size: 194 Copynumber: 2.0 Consensus size: 194
9311241 GGATACTATT
*
9311251 CCTAAAGCAAGACACTTCACAGCTTATCTTATCAATGGCTCACCCACCAAACTGACCATTGTTTC
1 CCTAAAGCAAGACACTTCACAGCTTATCTCATCAATGGCTCACCCACCAAACTGACCATTGTTTC
* * *
9311316 AGAGATTTACAGCTTTCTATTGGCTTCCTTCTTGCTTCATTCACTGCAGATATGCAGCCACGCTT
66 AGAAATCTACAGCTTTCTATTGGCTTCCTTCTTGCTTCATTCACGGCAGATATGCAGCCACGCTT
** * *
9311381 TGCATGCTAGATGTCGTTTTGAAATATCAAAATGGTTATTCTTGTTTTGGTACATTTTAACTTA
131 TGCATGCTAGATGTCCCTTTCAAATATCAAAATGGTTATACTTGTTTTGGTACATTTTAACTTA
*
9311445 CCTAAAGCAAGACACTTCACAGCTTATCTCATCAATGGCTCACCCACCAAATTGACCATTGTTTC
1 CCTAAAGCAAGACACTTCACAGCTTATCTCATCAATGGCTCACCCACCAAACTGACCATTGTTTC
*
9311510 AGAAATCTACAGCTTTCTATTGGCTTCCTTCTTGCTTCATTCACGGCAGATGTGCAGCCACGCTT
66 AGAAATCTACAGCTTTCTATTGGCTTCCTTCTTGCTTCATTCACGGCAGATATGCAGCCACGCTT
* *
9311575 TGCATGCTATATTTCCCTTTCAAATATCAAAATGGTTATACTTGTTTTGGTACAT
131 TGCATGCTAGATGTCCCTTTCAAATATCAAAATGGTTATACTTGTTTTGGTACAT
9311630 GGCAAAATGA
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
194 173 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.35
Consensus pattern (194 bp):
CCTAAAGCAAGACACTTCACAGCTTATCTCATCAATGGCTCACCCACCAAACTGACCATTGTTTC
AGAAATCTACAGCTTTCTATTGGCTTCCTTCTTGCTTCATTCACGGCAGATATGCAGCCACGCTT
TGCATGCTAGATGTCCCTTTCAAATATCAAAATGGTTATACTTGTTTTGGTACATTTTAACTTA
Found at i:9317540 original size:22 final size:21
Alignment explanation
Indices: 9317496--9317540 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
9317486 AAGCAAGTTA
9317496 AATTAATAATATTATAATTTG
1 AATTAATAATATTATAATTTG
*
9317517 AATTAA-AATGATATATTATTTG
1 AATTAATAAT-AT-TATAATTTG
9317539 AA
1 AA
9317541 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 8 0.38
22 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
AATTAATAATATTATAATTTG
Found at i:9318691 original size:17 final size:19
Alignment explanation
Indices: 9318669--9318705 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9318659 TTTAAAGTAG
*
9318669 AATTAT-TGA-AAATAGAA
1 AATTATATGAGAAAGAGAA
9318686 AATTATATGAGAAAGAGAA
1 AATTATATGAGAAAGAGAA
9318705 A
1 A
9318706 TTTTAGTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.24
Consensus pattern (19 bp):
AATTATATGAGAAAGAGAA
Found at i:9318861 original size:23 final size:24
Alignment explanation
Indices: 9318835--9318879 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
9318825 ATCACGATAC
*
9318835 TAAATTAAATTAA-AAATAAATCT
1 TAAATTAAATAAATAAATAAATCT
*
9318858 TAAATTCAATAAATAAATAAAT
1 TAAATTAAATAAATAAATAAAT
9318880 AAATTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAATTAAATAAATAAATAAATCT
Found at i:9318873 original size:20 final size:18
Alignment explanation
Indices: 9318839--9318875 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
9318829 CGATACTAAA
9318839 TTAAATTAAAAATAAATC
1 TTAAATTAAAAATAAATC
9318857 TTAAATTCAATAAATAAAT
1 TTAAATT-AA-AAATAAAT
9318876 AAATAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATTAAAAATAAATC
Found at i:9319520 original size:22 final size:21
Alignment explanation
Indices: 9319495--9319548 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9319485 GTAGTAGTAG
9319495 TTTTATAATTTTTAGGATTTT
1 TTTTATAATTTTTAGGATTTT
* *
9319516 TTTT-TAATTTTTTGGTTTTTT
1 TTTTATAATTTTTAGG-ATTTT
*
9319537 TTTTAAAATTTT
1 TTTTATAATTTT
9319549 CTAGAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.36
21 12 0.43
22 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (21 bp):
TTTTATAATTTTTAGGATTTT
Found at i:9319538 original size:20 final size:20
Alignment explanation
Indices: 9319495--9319542 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9319485 GTAGTAGTAG
*
9319495 TTTTATAATTTTTAGGATTT
1 TTTTTTAATTTTTAGGATTT
* *
9319515 TTTTTTAATTTTTTGGTTTT
1 TTTTTTAATTTTTAGGATTT
9319535 TTTTTTAA
1 TTTTTTAA
9319543 AATTTTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTTTTAATTTTTAGGATTT
Found at i:9333393 original size:28 final size:29
Alignment explanation
Indices: 9333354--9333410 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
9333344 CTATAATTTA
*
9333354 ATAATAATTTAAGCT-TTAATATTTTATT
1 ATAATAATTTAAGCTCTTAATATTCTATT
9333382 ATAATCAA-TTAAGCTCTTAATATTCTATT
1 ATAAT-AATTTAAGCTCTTAATATTCTATT
9333411 TCAAAACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (29 bp):
ATAATAATTTAAGCTCTTAATATTCTATT
Found at i:9340054 original size:19 final size:19
Alignment explanation
Indices: 9340032--9340069 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9340022 GGTTTTTTTG
*
9340032 AATTTTTTTATGAAATTTA
1 AATTTTTTTACGAAATTTA
9340051 AATTTTTTTACGAAATTTA
1 AATTTTTTTACGAAATTTA
9340070 TAGTGGTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
AATTTTTTTACGAAATTTA
Found at i:9340406 original size:18 final size:18
Alignment explanation
Indices: 9340372--9340426 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
9340362 CTTGCTTTTC
9340372 TTTTATTTT--TTTT-AT
1 TTTTATTTTGATTTTGAT
9340387 TTTTATTTTGATTTTGA-
1 TTTTATTTTGATTTTGAT
9340404 TTTTATTTTTGATTTTGAT
1 TTTTA-TTTTGATTTTGAT
9340423 TTTT
1 TTTT
9340427 TTGATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.26
17 9 0.26
18 13 0.37
19 4 0.11
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTATTTTGATTTTGAT
Found at i:9340434 original size:6 final size:6
Alignment explanation
Indices: 9340380--9340425 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
9340370 TCTTTTATTT
* *
9340380 TTTTTA TTTTTA TTTTGA TTTTGA TTTT-A TTTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA -TTTTGA TTTTGA TTTT
9340426 TTTGATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (6 bp):
TTTTGA
Found at i:9340446 original size:21 final size:23
Alignment explanation
Indices: 9340422--9340470 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
9340412 TTGATTTTGA
9340422 TTTTTTTGATTTT-TTG-GTTTT
1 TTTTTTTGATTTTCTTGTGTTTT
*
9340443 TTTTTTTGGTTTTCTTGTGTTTT
1 TTTTTTTGATTTTCTTGTGTTTT
*
9340466 ATTTT
1 TTTTT
9340471 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.50
22 3 0.12
23 9 0.38
ACGTcount: A:0.04, C:0.02, G:0.14, T:0.80
Consensus pattern (23 bp):
TTTTTTTGATTTTCTTGTGTTTT
Found at i:9340449 original size:13 final size:13
Alignment explanation
Indices: 9340431--9340455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9340421 ATTTTTTTGA
9340431 TTTTTTGGTTTTT
1 TTTTTTGGTTTTT
9340444 TTTTTTGGTTTT
1 TTTTTTGGTTTT
9340456 CTTGTGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTGGTTTTT
Found at i:9342041 original size:37 final size:37
Alignment explanation
Indices: 9341971--9342046 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
9341961 AATTTAGAAA
* * *
9341971 TAAAAAATCTTTATTTAATATTATTACATATAAATTT
1 TAAAAAATATTTATTTAATATTATTACACATAAAATT
* *
9342008 TAAAATATATTTATTTAATATTATTATACATAAAATT
1 TAAAAAATATTTATTTAATATTATTACACATAAAATT
9342045 TA
1 TA
9342047 TTCTATGGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (37 bp):
TAAAAAATATTTATTTAATATTATTACACATAAAATT
Found at i:9342228 original size:22 final size:23
Alignment explanation
Indices: 9342182--9342230 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
9342172 AATAATAATT
9342182 AAAATTTTAAAATTAAATTTGTTA
1 AAAATTTTAAAA-TAAATTTGTTA
* *
9342206 AAAATTTTAAAA-ATATTTTTTA
1 AAAATTTTAAAATAAATTTGTTA
9342228 AAA
1 AAA
9342231 TTATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
24 12 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAATTTTAAAATAAATTTGTTA
Found at i:9342313 original size:33 final size:34
Alignment explanation
Indices: 9342266--9342330 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
9342256 TTTTCTTCAC
*
9342266 ATATCACATATTATTCATATATT-TGTATTATGA
1 ATATCACATATTATTCATATATTATATATTATGA
* *
9342299 ATATCACATGTTATTTATATATTATATATTAT
1 ATATCACATATTATTCATATATTATATATTAT
9342331 TCACACGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.51
Consensus pattern (34 bp):
ATATCACATATTATTCATATATTATATATTATGA
Found at i:9342512 original size:16 final size:18
Alignment explanation
Indices: 9342484--9342529 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
9342474 ACACAATTTT
9342484 TTTTTCAAAATTAC-CTTC
1 TTTTTC-AAATTACTCTTC
*
9342502 TTTTT-AAATTACTTTTC
1 TTTTTCAAATTACTCTTC
9342519 TTTTTCAAATT
1 TTTTTCAAATT
9342530 CACATACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 7 0.28
17 8 0.32
18 10 0.40
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTCAAATTACTCTTC
Found at i:9346177 original size:19 final size:19
Alignment explanation
Indices: 9346153--9346190 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
9346143 AATATTTAAT
9346153 AAATC-ATAATCATGCAAAA
1 AAATCAATAA-CATGCAAAA
9346172 AAATCAATAACATGCAAAA
1 AAATCAATAACATGCAAAA
9346191 TATATAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.61, C:0.16, G:0.05, T:0.18
Consensus pattern (19 bp):
AAATCAATAACATGCAAAA
Found at i:9347022 original size:17 final size:18
Alignment explanation
Indices: 9346991--9347024 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9346981 CAAATACTCA
9346991 CCAAAAACTCAAAGAAAC
1 CCAAAAACTCAAAGAAAC
*
9347009 CCAAAAATTC-AAGAAA
1 CCAAAAACTCAAAGAAA
9347025 AATTCCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.24, G:0.06, T:0.09
Consensus pattern (18 bp):
CCAAAAACTCAAAGAAAC
Found at i:9348082 original size:43 final size:42
Alignment explanation
Indices: 9347948--9348137 Score: 145
Period size: 43 Copynumber: 4.4 Consensus size: 42
9347938 TTCACCTAAA
* * *
9347948 GCTTTGAAAACTTTGAAAATTTAAGATACTCC-TCACACTAG-G
1 GCTTTG-AAACTTTTAAAATTTAAAATACTCCTTC-CACCAGAG
* * * *
9347990 GCCTTTGAAACTTTTAGAAATTTAAAATGCTCACCT-CATCAGGG
1 G-CTTTGAAACTTTTA-AAATTTAAAATACTC-CTTCCACCAGAG
*
9348034 GCTTTGAAACTTTCTAAAATTTAAAATGCTCCTTCCACCAGAG
1 GCTTTGAAACTTT-TAAAATTTAAAATACTCCTTCCACCAGAG
* * * * *
9348077 ACTTTGGAACTTTTGAAAA-ATAAAATACTCCTTTTCACCAAAG
1 GCTTTGAAACTTTT-AAAATTTAAAATACTCC-TTCCACCAGAG
* *
9348120 GCTTTGAAGCTTTCAAAA
1 GCTTTGAAACTTTTAAAA
9348138 AATAAAAGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
42 26 0.21
43 89 0.74
44 5 0.04
45 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (42 bp):
GCTTTGAAACTTTTAAAATTTAAAATACTCCTTCCACCAGAG
Found at i:9348480 original size:9 final size:9
Alignment explanation
Indices: 9348466--9348539 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
9348456 CAAACATGCA
9348466 TAATGAATG
1 TAATGAATG
9348475 TAATGAA--
1 TAATGAATG
9348482 -AATGCAATG
1 TAATG-AATG
*
9348491 -CATGAATG
1 TAATGAATG
*
9348499 TAGTGAATG
1 TAATGAATG
*
9348508 CAATGAATG
1 TAATGAATG
*
9348517 TAGTGAATG
1 TAATGAATG
*
9348526 CAATGAATG
1 TAATGAATG
9348535 TAATG
1 TAATG
9348540 CAAAAAATCA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
6 4 0.08
7 2 0.04
8 4 0.08
9 41 0.80
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.28
Consensus pattern (9 bp):
TAATGAATG
Found at i:9348497 original size:24 final size:22
Alignment explanation
Indices: 9348468--9348512 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
9348458 AACATGCATA
9348468 ATGAATGTAATGAAAATGCAATGC
1 ATGAATGTAATG--AATGCAATGC
*
9348492 ATGAATGTAGTGAATGCAATG
1 ATGAATGTAATGAATGCAATG
9348513 AATGTAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
24 11 0.55
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (22 bp):
ATGAATGTAATGAATGCAATGC
Found at i:9348515 original size:18 final size:18
Alignment explanation
Indices: 9348487--9348536 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
9348477 ATGAAAATGC
9348487 AATGC-ATGAATGTAGTG
1 AATGCAATGAATGTAGTG
9348504 AATGCAATGAATGTAGTG
1 AATGCAATGAATGTAGTG
9348522 AATGCAATGAATGTA
1 AATGCAATGAATGTA
9348537 ATGCAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 5 0.16
18 27 0.84
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (18 bp):
AATGCAATGAATGTAGTG
Found at i:9353226 original size:16 final size:16
Alignment explanation
Indices: 9353203--9353245 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9353193 ATAAAATCTA
*
9353203 TATATATATATTGTAATT
1 TATATAAATA-TGT-ATT
9353221 TATATAAATATGTATT
1 TATATAAATATGTATT
*
9353237 TATTTAAAT
1 TATATAAAT
9353246 TGAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 11 0.48
17 3 0.13
18 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
TATATAAATATGTATT
Found at i:9362402 original size:16 final size:16
Alignment explanation
Indices: 9362362--9362402 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
9362352 ATTTATTTTT
*
9362362 ATATTTACATTAAAAA
1 ATATTTATATTAAAAA
9362378 ATATTTTATATTAAAAA
1 ATA-TTTATATTAAAAA
9362395 ATATTTAT
1 ATATTTAT
9362403 TAATTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTTATATTAAAAA
Found at i:9362732 original size:25 final size:22
Alignment explanation
Indices: 9362679--9362732 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
9362669 ATTTATGAAA
*
9362679 AATATTATTATTAATATAAATT
1 AATATTTTTATTAATATAAATT
*
9362701 -ATGTTTTTAATTATATATAAATAT
1 AATATTTTT-ATTA-ATATAAAT-T
9362725 AATATTTT
1 AATATTTT
9362733 ATCAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 6 0.24
22 4 0.16
23 8 0.32
24 1 0.04
25 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AATATTTTTATTAATATAAATT
Found at i:9362782 original size:19 final size:17
Alignment explanation
Indices: 9362745--9362795 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
9362735 CAAATTAAGG
9362745 TATTAA-ATAATAATTA
1 TATTAATATAATAATTA
9362761 TATTAATATAATACATTTA
1 TATTAATATAATA-A-TTA
*
9362780 TATAAATATAA-AATTA
1 TATTAATATAATAATTA
9362796 AATACATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 9 0.29
17 7 0.23
18 2 0.06
19 13 0.42
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTAATATAATAATTA
Found at i:9364054 original size:29 final size:30
Alignment explanation
Indices: 9363991--9364055 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
9363981 AATTATATCT
*
9363991 TATATAAATATAATATTTTTATTAAATTAA
1 TATATAAATATAATAATTTTATTAAATTAA
* *
9364021 GATATTAA-ATAATAATTTTATT-AATATAA
1 TATATAAATATAATAATTTTATTAAAT-TAA
9364050 TATATA
1 TATATA
9364056 TGAATATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.10
29 20 0.69
30 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
TATATAAATATAATAATTTTATTAAATTAA
Found at i:9364430 original size:16 final size:16
Alignment explanation
Indices: 9364409--9364442 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9364399 TTATAGATTT
9364409 AAAAAAACAAAACTAA
1 AAAAAAACAAAACTAA
* *
9364425 AAAAAAATAAAATTAA
1 AAAAAAACAAAACTAA
9364441 AA
1 AA
9364443 GAAGCAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAAACAAAACTAA
Found at i:9364658 original size:27 final size:26
Alignment explanation
Indices: 9364600--9364665 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
9364590 ATGAAAAATT
* *
9364600 AAAAATTAAAAAAGATAAAAAGATAA
1 AAAAATTAAAAAAGAAAAAAAAATAA
9364626 AGAAAATTAAAAAA-AAAACAACAAATAA
1 A-AAAATTAAAAAAGAAAA-AA-AAATAA
*
9364654 AAAAATGAAAAA
1 AAAAATTAAAAA
9364666 CTTATTAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 4 0.12
27 24 0.71
28 6 0.18
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (26 bp):
AAAAATTAAAAAAGAAAAAAAAATAA
Found at i:9364664 original size:8 final size:8
Alignment explanation
Indices: 9364593--9364665 Score: 56
Period size: 8 Copynumber: 8.5 Consensus size: 8
9364583 ATTTAATATG
*
9364593 AAAAATTA
1 AAAAATAA
*
9364601 AAAATTAA
1 AAAAATAA
9364609 AAAAGATAA
1 AAAA-ATAA
*
9364618 AAAGATAA
1 AAAAATAA
9364626 AGAAAATTAA
1 A-AAAA-TAA
*
9364636 AAAAAAAA
1 AAAAATAA
9364644 CAACAAATAA
1 -AA-AAATAA
*
9364654 AAAAATGA
1 AAAAATAA
9364662 AAAA
1 AAAA
9364666 CTTATTAAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
8 26 0.50
9 17 0.33
10 9 0.17
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:9365703 original size:16 final size:16
Alignment explanation
Indices: 9365684--9365732 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
9365674 ATTATTAAAA
*
9365684 TTTTAAATTATATTAT
1 TTTTATATTATATTAT
*
9365700 TTTTATATTTTA-TAT
1 TTTTATATTATATTAT
*
9365715 TATTCATATTATATTAT
1 T-TTTATATTATATTAT
9365732 T
1 T
9365733 ATGTTACATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 4 0.15
16 19 0.70
17 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTATATTATATTAT
Found at i:9370353 original size:16 final size:15
Alignment explanation
Indices: 9370323--9370356 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
9370313 AATAAAATAA
*
9370323 TAATTTTTTATTAAT
1 TAATTTTTAATTAAT
9370338 TAATTGTTTAATTAAT
1 TAATT-TTTAATTAAT
9370354 TAA
1 TAA
9370357 GTCTGTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TAATTTTTAATTAAT
Found at i:9370406 original size:27 final size:27
Alignment explanation
Indices: 9370351--9370406 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
9370341 TTGTTTAATT
* * *
9370351 AATTAAGTCTGTCCAAAATAGATAAAC
1 AATTAACTCTATCCAAAATAGACAAAC
*
9370378 AATTAACTCTATCCAAAATAGACAGAC
1 AATTAACTCTATCCAAAATAGACAAAC
9370405 AA
1 AA
9370407 ATAAAAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.23
Consensus pattern (27 bp):
AATTAACTCTATCCAAAATAGACAAAC
Found at i:9376170 original size:24 final size:24
Alignment explanation
Indices: 9376119--9376172 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
9376109 TTTGTCCCCG
*
9376119 TTTTTTTAATATTTCAAAATTATG
1 TTTTTTTAATATTTCAAAATTATA
*
9376143 TTTTTTTAATATTT-AAAATTTTTA
1 TTTTTTTAATATTTCAAAA-TTATA
9376167 TTTTTT
1 TTTTTT
9376173 ATTTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTTTTAATATTTCAAAATTATA
Found at i:9376173 original size:23 final size:24
Alignment explanation
Indices: 9376118--9376162 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
9376108 TTTTGTCCCC
9376118 GTTTTTTTAATATTTCAAAATTAT
1 GTTTTTTTAATATTTCAAAATTAT
9376142 GTTTTTTTAATATTT-AAAATT
1 GTTTTTTTAATATTTCAAAATT
9376163 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
GTTTTTTTAATATTTCAAAATTAT
Found at i:9376178 original size:30 final size:32
Alignment explanation
Indices: 9376138--9376211 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 32
9376128 TATTTCAAAA
*
9376138 TTATGTTTTTTTAATA-TTTAAAATT-TTTATT
1 TTATGATTTTTTAATATTTTAAAATTATTT-TT
*
9376169 TT-TTATTTTTT-ATATTTTAAAATTATTTTT
1 TTATGATTTTTTAATATTTTAAAATTATTTTT
9376199 TTATGATTTTTTA
1 TTATGATTTTTTA
9376212 TTTTTTGACA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
29 3 0.08
30 20 0.56
31 13 0.36
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (32 bp):
TTATGATTTTTTAATATTTTAAAATTATTTTT
Found at i:9376998 original size:15 final size:15
Alignment explanation
Indices: 9376978--9377013 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9376968 CGTTTCATAT
9376978 TAAATGATAAATAAA
1 TAAATGATAAATAAA
*
9376993 TAAATGATAACTAAA
1 TAAATGATAAATAAA
9377008 TAAATG
1 TAAATG
9377014 TTTTGTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (15 bp):
TAAATGATAAATAAA
Done.